FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

PhosphoSItePlus
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

PhosphoSitePlus
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:47.412261

phosphositeplus
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:47.412261

Other names: PSP, PhosphoSItePlus, PhosphoSitePlus, phosphositeplus

This source may no longer be available. No known URL could be resolved successfully.

PhosphoSite Plus provides extensive information on mammalian post-translational modifications (PTMs). The resource supersedes PhosphoSite a mammalian protein database that provides information about in vivo phosphorylation sites.

Webpage:

http://www.phosphosite.org

Licence:

Name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)
URL: https://creativecommons.org/licenses/by-nc-sa/4.0/

Publications:

Publications
More detailed information about this field from each metasource.

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations
PMID: 25514926
metasource: Fairsharing.org
version: FAIRsharing.org: PSP; PhosphoSite Plus; DOI: https://doi.org/10.25504/FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

PhosphoSitePlus: a comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse
PMID: 22135298
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:47.412261

PhosphoSite: A bioinformatics resource dedicated to physiological protein phosphorylation
PMID: 15174125
metasource: Fairsharing.org
version: FAIRsharing.org: PSP; PhosphoSite Plus; DOI: https://doi.org/10.25504/FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

The Molecule Pages database
PMID: 12478304
metasource: Fairsharing.org
version: FAIRsharing.org: PSP; PhosphoSite Plus; DOI: https://doi.org/10.25504/FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

http://dx.doi.org/10.1093/nar/
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations PubMed citations: 1105.

1105 articles citing: PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

Assessing the clinical utility of protein structural analysis in genomic variant classification: experiences from a diagnostic laboratory. PMID:35869530
Identifying and characterising Thrap3, Bclaf1 and Erh interactions using cross-linking mass spectrometry. PMID:35865489
Single-cell network biology characterizes cell type gene regulation for drug repurposing and phenotype prediction in Alzheimer's disease. PMID:35849618
Quantitative Analysis of the Protein Methylome Reveals PARP1 Methylation is involved in DNA Damage Response. PMID:35847980
Integrated multi-omics characterization of KRAS mutant colorectal cancer. PMID:35836817
CaMKII binds both substrates and activators at the active site. PMID:35830796
Defining the Dynamic Regulation of O-GlcNAc Proteome in the Mouse Cortex---the O-GlcNAcylation of Synaptic and Trafficking Proteins Related to Neurodegenerative Diseases. PMID:35822049
Genetic variation associated with condensate dysregulation in disease. PMID:35809564
Noncatalytic Domains in DNA Glycosylases. PMID:35806289
Aberrant PLN-R14del Protein Interactions Intensify SERCA2a Inhibition, Driving Impaired Ca2+ Handling and Arrhythmogenesis. PMID:35805951
Mechanisms of mitochondrial respiratory adaptation. PMID:35804199
MARK2 regulates chemotherapeutic responses through class IIa HDAC-YAP axis in pancreatic cancer. PMID:35780183
SHLD1 is dispensable for 53BP1-dependent V(D)J recombination but critical for productive class switch recombination. PMID:35764636
The SKBR3 cell-membrane proteome reveals telltales of aberrant cancer cell proliferation and targets for precision medicine applications. PMID:35760832
Combining Recombinase-Mediated Cassette Exchange Strategy with Quantitative Proteomic and Phosphoproteomic Analyses to Inspect Intracellular Functions of the Tumor Suppressor Galectin-4 in Colorectal Cancer Cells. PMID:35742860
TRAP1 Chaperones the Metabolic Switch in Cancer. PMID:35740911
Specificity Analysis of Protein Methyltransferases and Discovery of Novel Substrates Using SPOT Peptide Arrays. PMID:35733022
SILAC kinase screen identifies potential MASTL substrates. PMID:35732702
Revealing the human mucinome. PMID:35725833
DUSP3 regulates phosphorylation-mediated degradation of occludin and is required for maintaining epithelial tight junction. PMID:35705979
Spatial and temporal proteomics reveals the distinct distributions and dynamics of O-GlcNAcylated proteins. PMID:35705054
Enhancing the Discovery of Functional Post-Translational Modification Sites with Machine Learning Models - Development, Validation, and Interpretation. PMID:35696084
Systematic Characterization of Lysine Post-translational Modification Sites Using MUscADEL. PMID:35696083
Mechanism of glycogen synthase inactivation and interaction with glycogenin. PMID:35690592
Screening membraneless organelle participants with machine-learning models that integrate multimodal features. PMID:35687670
Structural and Functional Insights into GID/CTLH E3 Ligase Complexes. PMID:35682545
A comprehensive SARS-CoV-2-human protein-protein interactome network identifies pathobiology and host-targeting therapies for COVID-19. PMID:35677070
Patient-level proteomic network prediction by explainable artificial intelligence. PMID:35672443
Bayesian analysis of dynamic phosphoproteomic data identifies protein kinases mediating GPCR responses. PMID:35659261
Integrated proteogenomic characterization of urothelial carcinoma of the bladder. PMID:35659036
Structures of nonsense-mediated mRNA decay factors UPF3B and UPF3A in complex with UPF2 reveal molecular basis for competitive binding and for neurodevelopmental disorder-causing mutation. PMID:35640974
SGK1 in Cancer: Biomarker and Drug Target. PMID:35625991
Conserved Cdk inhibitors show unique structural responses to tyrosine phosphorylation. PMID:35614852
Prediction of protein-ligand binding affinity from sequencing data with interpretable machine learning. PMID:35606422
PKC regulation of ion channels: The involvement of PIP2. PMID:35588786
Deubiquitinating enzymes and the proteasome regulate preferential sets of ubiquitin substrates. PMID:35585066
The interplay between DNA topoisomerase 2α post-translational modifications and drug resistance. PMID:35582608
Human phospho-signaling networks of SARS-CoV-2 infection are rewired by population genetic variants. PMID:35579274
The structural context of posttranslational modifications at a proteome-wide scale. PMID:35576205
Regulation of protein complex partners as a compensatory mechanism in aneuploid tumors. PMID:35575458
Phosphoproteomics Unravel HBV Triggered Rewiring of Host Phosphosignaling Events. PMID:35563518
Novel Antibody-Peptide Binding Assay Indicates Presence of Immunoglobulins against EGFR Phospho-Site S1166 in High-Grade Glioma. PMID:35563452
Accurate, high-coverage assignment of in vivo protein kinases to phosphosites from in vitro phosphoproteomic specificity data. PMID:35560139
A glance at post-translational modifications of human thyroglobulin: potential impact on function and pathogenesis. PMID:35544053
Profiling the Human Phosphoproteome to Estimate the True Extent of Protein Phosphorylation. PMID:35532924
NIBAN1, Exploring its Roles in Cell Survival Under Stress Context. PMID:35517496
Predicting Protein Conformational Disorder and Disordered Binding Sites. PMID:35507260
Perseus plugin "Metis" for metabolic-pathway-centered quantitative multi-omics data analysis for static and time-series experimental designs. PMID:35497496
TDP-43 Oligomerization and Phase Separation Properties Are Necessary for Autoregulation. PMID:35495061
F/YGG-motif is an intrinsically disordered nucleic-acid binding motif. PMID:35491929
Global analysis of protein arginine methylation. PMID:35475236
Motif-centric phosphoproteomics to target kinase-mediated signaling pathways. PMID:35474870
GraPES: The Granule Protein Enrichment Server for prediction of biological condensate constituents. PMID:35474477
E3 ligase HUWE1 promotes PDGF D-mediated osteoblastic differentiation of mesenchymal stem cells by effecting polyubiquitination of β-PDGFR. PMID:35472332
SUMO: A Swiss Army Knife for Eukaryotic Topoisomerases. PMID:35463961
Mass Spectrometry for Neurobiomarker Discovery: The Relevance of Post-Translational Modifications. PMID:35455959
Integrative proteomic characterization of trace FFPE samples in early-stage gastrointestinal cancer. PMID:35397555
IKBKE-driven TPL2 and MEK1 phosphorylations sustain constitutive ERK1/2 activation in tumor cells. PMID:35391917
Physical and functional interactome atlas of human receptor tyrosine kinases. PMID:35384245
Retinoblastoma Protein Paralogs and Tumor Suppression. PMID:35368709
Mitochondrial Fission and Fusion in Tumor Progression to Metastasis. PMID:35356277
CHK1 phosphorylates PRIMPOL to promote replication stress tolerance. PMID:35353580
The emerging role of mass spectrometry-based proteomics in drug discovery. PMID:35351998
Systematic Discovery of FBXW7-Binding Phosphodegrons Highlights Mitogen-Activated Protein Kinases as Important Regulators of Intracellular Protein Levels. PMID:35328741
Acetylation, Phosphorylation, Ubiquitination (Oh My!): Following Post-Translational Modifications on the Ubiquitin Road. PMID:35327659
PhosVarDeep: deep-learning based prediction of phospho-variants using sequence information. PMID:35310161
Broiler chickens with 1950s genetics display a stable immune profile as measured by Kinome, mRNA expression, and metabolism when stimulated early in life with CpG. PMID:35299064
BRCA1 mutations in high-grade serous ovarian cancer are associated with proteomic changes in DNA repair, splicing, transcription regulation and signaling. PMID:35292711
Parallel kinase pathways stimulate actin polymerization at depolarized mitochondria. PMID:35290799
Inward Outward Signaling in Ovarian Cancer: Morpho-Phospho-Proteomic Profiling Upon Application of Hypoxia and Shear Stress Characterizes the Adaptive Plasticity of OVCAR-3 and SKOV-3 Cells. PMID:35251951
FAIMS Enhances the Detection of PTM Crosstalk Sites. PMID:35235327
CFIm-mediated alternative polyadenylation remodels cellular signaling and miRNA biogenesis. PMID:35234914
E3 Ubiquitin Ligase Regulators of Notch Receptor Endocytosis: From Flies to Humans. PMID:35204725
Phosphoproteomic Analysis of Breast Cancer-Derived Small Extracellular Vesicles Reveals Disease-Specific Phosphorylated Enzymes. PMID:35203617
O-GlcNAcylation links oncogenic signals and cancer epigenetics. PMID:35201498
An inducible CRISPR/Cas9 screen identifies DTX2 as a transcriptional regulator of human telomerase. PMID:35198878
Proteomic profiling reveals CDK6 upregulation as a targetable resistance mechanism for lenalidomide in multiple myeloma. PMID:35197447
Stress-induced tyrosine phosphorylation of RtcB modulates IRE1 activity and signaling outputs. PMID:35193953
O-GlcNAc transferase regulates glioblastoma acetate metabolism via regulation of CDK5-dependent ACSS2 phosphorylation. PMID:35190642
LINE-1 expression in cancer correlates with p53 mutation, copy number alteration, and S phase checkpoint. PMID:35169076
Cerebellar dysfunction and schizophrenia-like behavior in Ebp1-deficient mice. PMID:35165395
A Transfer-Learning-Based Deep Convolutional Neural Network for Predicting Leukemia-Related Phosphorylation Sites from Protein Primary Sequences. PMID:35163663
Activity and Function in Human Cells of the Evolutionary Conserved Exonuclease Polynucleotide Phosphorylase. PMID:35163574
The Inhibitory Receptor Siglec-8 Interacts With FcεRI and Globally Inhibits Intracellular Signaling in Primary Mast Cells Upon Activation. PMID:35154156
UbE3-APA: A Bioinformatic Strategy to Elucidate Ubiquitin E3 Ligase Activities in Quantitative Proteomics Study. PMID:35139152
Phosphorylation of RIAM Activates Its Adaptor Function in Mediating Integrin Signaling. PMID:35128538
Systematic analysis of alterations in the ubiquitin proteolysis system reveals its contribution to driver mutations in cancer. PMID:35121836
Elucidating Spatially-Resolved Changes in Host Signaling During Plasmodium Liver-Stage Infection. PMID:35111697
Structure-based prediction of HDAC6 substrates validated by enzymatic assay reveals determinants of promiscuity and detects new potential substrates. PMID:35110592
A knowledge graph to interpret clinical proteomics data. PMID:35102292
The ubiquitin E3 ligase ARIH1 regulates hnRNP E1 protein stability, EMT and breast cancer progression. PMID:35102251
Integrin-linked kinase (ILK): the known vs. the unknown and perspectives. PMID:35089438
Matrin3: Disorder and ALS Pathogenesis. PMID:35083279
AKT1 mediates multiple phosphorylation events that functionally promote HSF1 activation. PMID:35080342
Establishment and characterization of NCC-DMM1-C1, a novel patient-derived cell line of desmoplastic malignant pleural mesothelioma. PMID:35069873
PP2A and Its Inhibitors in Helper T-Cell Differentiation and Autoimmunity. PMID:35069561
A cytoplasmic escapee: desmin is going nuclear. PMID:35068951
SFPQ-ABL1 and BCR-ABL1 use different signaling networks to drive B-cell acute lymphoblastic leukemia. PMID:35061886
The deubiquitinase Usp27x as a novel regulator of cFLIPL protein expression and sensitizer to death-receptor-induced apoptosis. PMID:35044632
SCP4-STK35/PDIK1L complex is a dual phospho-catalytic signaling dependency in acute myeloid leukemia. PMID:35021089
Current status of PTMs structural databases: applications, limitations and prospects. PMID:35020020
Regulating peroxisome-ER contacts via the ACBD5-VAPB tether by FFAT motif phosphorylation and GSK3β. PMID:35019937
Functional analysis of the stable phosphoproteome reveals cancer vulnerabilities. PMID:35015814
YB-1 Phosphorylation at Serine 209 Inhibits Its Nuclear Translocation. PMID:35008856
Translational and post-translational control of human naïve versus primed pluripotency. PMID:35005567
Role of RHO family interacting cell polarization regulators (RIPORs) in health and disease: Recent advances and prospects. PMID:35002526
A network-based integration for understanding racial disparity in prostate cancer. PMID:34998235
Orchestrating serine/threonine phosphorylation and elucidating downstream effects by short linear motifs. PMID:34989786
Large-scale protein-protein post-translational modification extraction with distant supervision and confidence calibrated BioBERT. PMID:34983371
Comprehensive structure and functional adaptations of the yeast nuclear pore complex. PMID:34982960
Plant Proteoforms Under Environmental Stress: Functional Proteins Arising From a Single Gene. PMID:34970290
The Identification of a Novel Calcium-Dependent Link Between NAD+ and Glucose Deprivation-Induced Increases in Protein O-GlcNAcylation and ER Stress. PMID:34950703
Selective EZH2 inhibitor zld1039 alleviates inflammation in cisplatin-induced acute kidney injury partially by enhancing RKIP and suppressing NF-κB p65 pathway. PMID:34937916
Tools, tactics and objectives to interrogate cellular roles of O-GlcNAc in disease. PMID:34934185
Targeting CK2 mediated signaling to impair/tackle SARS-CoV-2 infection: a computational biology approach. PMID:34930105
Heterocellular OSM-OSMR signalling reprograms fibroblasts to promote pancreatic cancer growth and metastasis. PMID:34921158
Metabolic endophenotype associated with right ventricular glucose uptake in pulmonary hypertension. PMID:34888034
The cryo-EM structure of the human neurofibromin dimer reveals the molecular basis for neurofibromatosis type 1. PMID:34887559
New Findings on LMO7 Transcripts, Proteins and Regulatory Regions in Human and Vertebrate Model Organisms and the Intracellular Distribution in Skeletal Muscle Cells. PMID:34884689
Transcription Regulators and Membraneless Organelles Challenges to Investigate Them. PMID:34884563
Development of an experiment-split method for benchmarking the generalization of a PTM site predictor: Lysine methylome as an example. PMID:34879076
A peptidoform based proteomic strategy for studying functions of post-translational modifications. PMID:34878717
Reciprocal regulation of chaperone-mediated autophagy and the circadian clock. PMID:34876687
Spatial-proteomics reveals phospho-signaling dynamics at subcellular resolution. PMID:34876567
What makes a histone variant a variant: Changing H2A to become H2A.Z. PMID:34871303
Personalized phosphoproteomics identifies functional signaling. PMID:34857927
PHOrming the inflammasome: phosphorylation is a critical switch in inflammasome signalling. PMID:34854899
De novo macrocyclic peptides for inhibiting, stabilizing, and probing the function of the retromer endosomal trafficking complex. PMID:34851660
ConsensusPathDB 2022: molecular interactions update as a resource for network biology. PMID:34850110
The Spliced Leader RNA Silencing (SLS) Pathway in Trypanosoma brucei Is Induced by Perturbations of Endoplasmic Reticulum, Golgi Complex, or Mitochondrial Protein Factors: Functional Analysis of SLS-Inducing Kinase PK3. PMID:34844425
Revisiting the Role of GSK3, A Modulator of Innate Immunity, in Idiopathic Inclusion Body Myositis. PMID:34831477
Willin/FRMD6: A Multi-Functional Neuronal Protein Associated with Alzheimer's Disease. PMID:34831245
p130Cas Is Correlated with EREG Expression and a Prognostic Factor Depending on Colorectal Cancer Stage and Localization Reducing FOLFIRI Efficacy. PMID:34830244
Mapping protein carboxymethylation sites provides insights into their role in proteostasis and cell proliferation. PMID:34795246
DeepPhospho accelerates DIA phosphoproteome profiling through in silico library generation. PMID:34795227
Genetic fusions favor tumorigenesis through degron loss in oncogenes. PMID:34795215
Is There a Histone Code for Cellular Quiescence? PMID:34778253
Individualized Proteogenomics Reveals the Mutational Landscape of Melanoma Patients in Response to Immunotherapy. PMID:34771574
Branched ubiquitin chain binding and deubiquitination by UCH37 facilitate proteasome clearance of stress-induced inclusions. PMID:34761751
Ubiquitination of G3BP1 mediates stress granule disassembly in a context-specific manner. PMID:34739333
Phosphorylation Regulates CIRBP Arginine Methylation, Transportin-1 Binding and Liquid-Liquid Phase Separation. PMID:34738012
Neuroblastoma signalling models unveil combination therapies targeting feedback-mediated resistance. PMID:34735429
Arginine methylation and ubiquitylation crosstalk controls DNA end-resection and homologous recombination repair. PMID:34728620
EGFR Regulates the Hippo pathway by promoting the tyrosine phosphorylation of MOB1. PMID:34725466
ConVarT: a search engine for matching human genetic variants with variants from non-human species. PMID:34718716
CDK1-Mediated Phosphorylation of BAG3 Promotes Mitotic Cell Shape Remodeling and the Molecular Assembly of Mitotic p62 Bodies. PMID:34685619
CELF Family Proteins in Cancer: Highlights on the RNA-Binding Protein/Noncoding RNA Regulatory Axis. PMID:34681716
Novel Antibodies for the Simple and Efficient Enrichment of Native O-GlcNAc Modified Peptides. PMID:34678516
Proteogenomics Reveals Perturbed Signaling Networks in Malignant Melanoma Cells Resistant to BRAF Inhibition. PMID:34673281
High-throughput functional characterization of protein phosphorylation sites in yeast. PMID:34663920
Palmitoylation targets the calcineurin phosphatase to the phosphatidylinositol 4-kinase complex at the plasma membrane. PMID:34663815
PP2A/B55α substrate recruitment as defined by the retinoblastoma-related protein p107. PMID:34661528
Inhibition of Arginine Methylation Impairs Platelet Function. PMID:34661075
Exploration of the Role of the C-Terminal Domain of Human DNA Topoisomerase IIα in Catalytic Activity. PMID:34660952
A novel phosphoproteomic landscape evoked in response to type I interferon in the brain and in glial cells. PMID:34656141
SGK2, 14-3-3, and HUWE1 Cooperate to Control the Localization, Stability, and Function of the Oncoprotein PTOV1. PMID:34654719
Strategies for mass spectrometry-based phosphoproteomics using isobaric tagging. PMID:34652972
Predicting PY motif-mediated protein-protein interactions in the Nedd4 family of ubiquitin ligases. PMID:34637467
SignaLink3: a multi-layered resource to uncover tissue-specific signaling networks. PMID:34634810
CNOT3 interacts with the Aurora B and MAPK/ERK kinases to promote survival of differentiating mesendodermal progenitor cells. PMID:34613789
USP37 regulates DNA damage response through stabilizing and deubiquitinating BLM. PMID:34606619
Acetylated Thioredoxin Reductase 1 Resists Oxidative Inactivation. PMID:34604175
The CRL4DCAF1 cullin-RING ubiquitin ligase is activated following a switch in oligomerization state. PMID:34595758
The Binary Toxin of Clostridioides difficile Alters the Proteome and Phosphoproteome of HEp-2 Cells. PMID:34594315
Structural basis for UFM1 transfer from UBA5 to UFC1. PMID:34588452
AlphaMap: an open-source python package for the visual annotation of proteomics data with sequence specific knowledge. PMID:34586352
Oestrogen Activates the MAP3K1 Cascade and β-Catenin to Promote Granulosa-like Cell Fate in a Human Testis-Derived Cell Line. PMID:34576208
The Intra- and Extra-Telomeric Role of TRF2 in the DNA Damage Response. PMID:34576063
Clinical, Biochemical, and Genetic Heterogeneity in Glutaric Aciduria Type II Patients. PMID:34573316
A highly multiplexed quantitative phosphosite assay for biology and preclinical studies. PMID:34569154
The Role of Akt in Acquired Cetuximab Resistant Head and Neck Squamous Cell Carcinoma: An In Vitro Study on a Novel Combination Strategy. PMID:34568028
Systems-Level Proteomics Evaluation of Microglia Response to Tumor-Supportive Anti-Inflammatory Cytokines. PMID:34566949
CAMKK2 regulates mitochondrial function by controlling succinate dehydrogenase expression, post-translational modification, megacomplex assembly, and activity in a cell-type-specific manner. PMID:34563205
Systematic Analysis of the Impact of R-Methylation on RBPs-RNA Interactions: A Proteomic Approach. PMID:34557518
The hypervariable region of atlastin-1 is a site for intrinsic and extrinsic regulation. PMID:34546351
Evolutionary and functional lessons from human-specific amino acid substitution matrices. PMID:34541526
Adipocytes disrupt the translational programme of acute lymphoblastic leukaemia to favour tumour survival and persistence. PMID:34535653
Proteogenomic characterization of pancreatic ductal adenocarcinoma. PMID:34534465
Novel variants in KAT6B spectrum of disorders expand our knowledge of clinical manifestations and molecular mechanisms. PMID:34519438
CISH attenuates homeostatic cytokine signaling to promote lung-specific macrophage programming and function. PMID:34516753
Preclinical and clinical progress for HDAC as a putative target for epigenetic remodeling and functionality of immune cells. PMID:34512154
Signaling defects associated with insulin resistance in nondiabetic and diabetic individuals and modification by sex. PMID:34506305
Independent transcriptomic and proteomic regulation by type I and II protein arginine methyltransferases. PMID:34505004
Insights into Conformational Dynamics and Allostery in DNMT1-H3Ub/USP7 Interactions. PMID:34500587
Regulation of Ferroptosis Pathway by Ubiquitination. PMID:34485285
Novel human cell expression method reveals the role and prevalence of posttranslational modification in nonmuscle tropomyosins. PMID:34478714
Identification and Classification of Novel Genetic Variants: En Route to the Diagnosis of Primary Ciliary Dyskinesia. PMID:34445527
Dynamic bi-directional phosphorylation events associated with the reciprocal regulation of synapses during homeostatic up- and down-scaling. PMID:34433048
A global map of associations between types of protein posttranslational modifications and human genetic diseases. PMID:34430807
14-3-3 proteins inactivate DAPK2 by promoting its dimerization and protecting key regulatory phosphosites. PMID:34413451
Why exercise builds muscles: titin mechanosensing controls skeletal muscle growth under load. PMID:34389312
Hepatitis C virus treatment with direct-acting antivirals induces rapid changes in the hepatic proteome. PMID:34379872
P2T2: Protein Panoramic annoTation Tool for the interpretation of protein coding genetic variants. PMID:34377961
Insight into membraneless organelles and their associated proteins: Drivers, Clients and Regulators. PMID:34377363
SCFFbxw5 targets kinesin-13 proteins to facilitate ciliogenesis. PMID:34368969
Phosphoinositide Recognition Sites Are Blocked by Metabolite Attachment. PMID:34368138
Mitochondrial HSP70 Chaperone System-The Influence of Post-Translational Modifications and Involvement in Human Diseases. PMID:34360841
Phosphorylation within Intrinsic Disordered Region Discriminates Histone Variant macroH2A1 Splicing Isoforms-macroH2A1.1 and macroH2A1.2. PMID:34356514
Comparison of proteomic methods in evaluating biomarker-AKI associations in cardiac surgery patients. PMID:34343625
Selective dephosphorylation by PP2A-B55 directs the meiosis I-meiosis II transition in oocytes. PMID:34342579
Multimodal single-cell omics analysis identifies epithelium-immune cell interactions and immune vulnerability associated with sex differences in COVID-19. PMID:34330889
KDM3A regulates alternative splicing of cell-cycle genes following DNA damage. PMID:34321328
The ribosome epitranscriptome: inert-or a platform for functional plasticity? PMID:34312287
Post-Translational Modifications Modulate Proteinopathies of TDP-43, FUS and hnRNP-A/B in Amyotrophic Lateral Sclerosis. PMID:34291086
CDK1 controls CHMP7-dependent nuclear envelope reformation. PMID:34286694
DDX21 is a p38-MAPK-sensitive nucleolar protein necessary for mouse preimplantation embryo development and cell-fate specification. PMID:34255976
Computationally scalable regression modeling for ultrahigh-dimensional omics data with ParProx. PMID:34254998
Akt phosphorylates insulin receptor substrate to limit PI3K-mediated PIP3 synthesis. PMID:34253290
An Azo Coupling-Based Chemoproteomic Approach to Systematically Profile the Tyrosine Reactivity in the Human Proteome. PMID:34251175
E-type prostanoid receptor 4 drives resolution of intestinal inflammation by blocking epithelial necroptosis. PMID:34239062
Inference of kinase-signaling networks in human myeloid cell line models by Phosphoproteomics using kinase activity enrichment analysis (KAEA). PMID:34238254
Integrated in silico MS-based phosphoproteomics and network enrichment analysis of RASopathy proteins. PMID:34229750
Regulation of ubiquitin and ubiquitin-like modifiers by phosphorylation. PMID:34214249
Molecular Mechanisms Regulating the DNA Repair Protein APE1: A Focus on Its Flexible N-Terminal Tail Domain. PMID:34208390
Identifying Cancer Drivers Using DRIVE: A Feature-Based Machine Learning Model for a Pan-Cancer Assessment of Somatic Missense Mutations. PMID:34205004
A multi-cellular molecular signaling and functional network map of C-C motif chemokine ligand 18 (CCL18): a chemokine with immunosuppressive and pro-tumor functions. PMID:34196939
PIM kinases inhibit AMPK activation and promote tumorigenicity by phosphorylating LKB1. PMID:34193159
Identification of Endogenous Kinase Substrates by Proximity Labeling Combined with Kinase Perturbation and Phosphorylation Motifs. PMID:34186244
Post-Translational Modifications of Deubiquitinating Enzymes: Expanding the Ubiquitin Code. PMID:34177595
p38-MAPK-mediated translation regulation during early blastocyst development is required for primitive endoderm differentiation in mice. PMID:34172827
Using Multilayer Heterogeneous Networks to Infer Functions of Phosphorylated Sites. PMID:34164982
Anti-inflammatory nanoparticles significantly improve muscle function in a murine model of advanced muscular dystrophy. PMID:34162554
Lamin post-translational modifications: emerging toggles of nuclear organization and function. PMID:34148760
Structural insights into an atypical secretory pathway kinase crucial for Toxoplasma gondii invasion. PMID:34145271
The extensive and functionally uncharacterized mitochondrial phosphoproteome. PMID:34144036
Identification of phosphosites that alter protein thermal stability. PMID:34140699
Making fundamental scientific discoveries by combining information from literature, databases, and computational tools - An example. PMID:34136100
Network module-based drug repositioning for pulmonary arterial hypertension. PMID:34132494
Target identification among known drugs by deep learning from heterogeneous networks. PMID:34123272
Phosphoproteomic identification of ULK substrates reveals VPS15-dependent ULK/VPS34 interplay in the regulation of autophagy. PMID:34121209
Measuring pathway database coverage of the phosphoproteome. PMID:34113485
Network medicine links SARS-CoV-2/COVID-19 infection to brain microvascular injury and neuroinflammation in dementia-like cognitive impairment. PMID:34108016
A protected complex of biofactors and antioxidants improved growth performance and modulated the immunometabolic phenotype of broiler chickens undergoing early life stress. PMID:34102483
Evolutionary crossroads of cell signaling: PP1 and PP2A substrate sites in intrinsically disordered regions. PMID:34100859
cAMP Signaling-Mediated Phosphorylation of Diacylglycerol Lipase α Regulates Interaction With Ankyrin-G and Dendritic Spine Morphology. PMID:34099188
Proteomics-Based Insights Into the SARS-CoV-2-Mediated COVID-19 Pandemic: A Review of the First Year of Research. PMID:34089862
SARS-CoV-2 infects human pancreatic β cells and elicits β cell impairment. PMID:34081912
CK1-mediated phosphorylation of FAM110A promotes its interaction with mitotic spindle and controls chromosomal alignment. PMID:34080749
The nonreceptor tyrosine kinase SRMS inhibits autophagy and promotes tumor growth by phosphorylating the scaffolding protein FKBP51. PMID:34077419
Mechnetor: a web server for exploring protein mechanism and the functional context of genetic variants. PMID:34076240
CX-4945 and siRNA-Mediated Knockdown of CK2 Improves Cisplatin Response in HPV(+) and HPV(-) HNSCC Cell Lines. PMID:34070147
Regulation of the Phosphoinositide Code by Phosphorylation of Membrane Readers. PMID:34069055
Utility and Mechanism of SHetA2 and Paclitaxel for Treatment of Endometrial Cancer. PMID:34066052
CRL4-DCAF12 Ubiquitin Ligase Controls MOV10 RNA Helicase during Spermatogenesis and T Cell Activation. PMID:34065512
A Proteomic Approach for Systematic Mapping of Substrates of Human Deubiquitinating Enzymes. PMID:34063716
IUPred3: prediction of protein disorder enhanced with unambiguous experimental annotation and visualization of evolutionary conservation. PMID:34048569
BRD4 methylation by the methyltransferase SETD6 regulates selective transcription to control mRNA translation. PMID:34039605
A spatial vascular transcriptomic, proteomic, and phosphoproteomic atlas unveils an angiocrine Tie-Wnt signaling axis in the liver. PMID:34038707
Comprehensive analysis of the lysine acetylome and succinylome in the hippocampus of gut microbiota-dysbiosis mice. PMID:34026284
KEA3: improved kinase enrichment analysis via data integration. PMID:34019655
Ovalbumin Antigen-Specific Activation of Human T Cell Receptor Closely Resembles Soluble Antibody Stimulation as Revealed by BOOST Phosphotyrosine Proteomics. PMID:34018748
Hybrid modelling for stroke care: Review and suggestions of new approaches for risk assessment and simulation of scenarios. PMID:34000646
EGFR phosphorylates HDAC1 to regulate its expression and anti-apoptotic function. PMID:33976119
RFX1: a promising therapeutic arsenal against cancer. PMID:33964962
Proteomic Studies of Primary Acute Myeloid Leukemia Cells Derived from Patients Before and during Disease-Stabilizing Treatment Based on All-Trans Retinoic Acid and Valproic Acid. PMID:33946813
Protamine Characterization by Top-Down Proteomics: Boosting Proteoform Identification with DBSCAN. PMID:33946530
SRC-3, a Steroid Receptor Coactivator: Implication in Cancer. PMID:33946224
Post-translational modification control of viral DNA sensors and innate immune signaling. PMID:33934827
The mammalian cholesterol synthesis enzyme squalene monooxygenase is proteasomally truncated to a constitutively active form. PMID:33933449
LanCLs add glutathione to dehydroamino acids generated at phosphorylated sites in the proteome. PMID:33932340
Itk Promotes the Integration of TCR and CD28 Costimulation through Its Direct Substrates SLP-76 and Gads. PMID:33931484
The C-terminal tail extension of myosin 16 acts as a molten globule, including intrinsically disordered regions, and interacts with the N-terminal ankyrin. PMID:33930467
Effect of Posttranslational Modifications on the Structure and Activity of FTO Demethylase. PMID:33925955
ING Proteins: Tumour Suppressors or Oncoproteins. PMID:33925563
Combining Mass Spectrometry-Based Phosphoproteomics with a Network-Based Approach to Reveal FLT3-Dependent Mechanisms of Chemoresistance. PMID:33925552
Cockayne Syndrome Group B (CSB): The Regulatory Framework Governing the Multifunctional Protein and Its Plausible Role in Cancer. PMID:33920220
Mechanisms and regulation underlying membraneless organelle plasticity control. PMID:33914074
Exploring the dermotoxicity of the mycotoxin deoxynivalenol: combined morphologic and proteomic profiling of human epidermal cells reveals alteration of lipid biosynthesis machinery and membrane structural integrity relevant for skin barrier function. PMID:33890134
Protein phosphatases in the RNAPII transcription cycle: erasers, sculptors, gatekeepers, and potential drug targets. PMID:33888562
EGFR-dependent tyrosine phosphorylation of integrin β4 is not required for downstream signaling events in cancer cell lines. PMID:33883672
SASH3 variants cause a novel form of X-linked combined immunodeficiency with immune dysregulation. PMID:33876203
Non-Genomic AhR-Signaling Modulates the Immune Response in Endotoxin-Activated Macrophages After Activation by the Environmental Stressor BaP. PMID:33868237
Global phosphoproteomics reveals DYRK1A regulates CDK1 activity in glioblastoma cells. PMID:33863878
A pan-cancer transcriptome analysis of exitron splicing identifies novel cancer driver genes and neoepitopes. PMID:33861991
Adventures of the undead at kinetochores. PMID:33860079
mTORC2 controls the activity of PKC and Akt by phosphorylating a conserved TOR interaction motif. PMID:33850054
Inositol treatment inhibits medulloblastoma through suppression of epigenetic-driven metabolic adaptation. PMID:33846320
Network-based modeling of herb combinations in traditional Chinese medicine. PMID:33834186
ActiveDriverDB: Interpreting Genetic Variation in Human and Cancer Genomes Using Post-translational Modification Sites and Signaling Networks (2021 Update). PMID:33834021
Dual Specificity Kinase DYRK3 Promotes Aggressiveness of Glioblastoma by Altering Mitochondrial Morphology and Function. PMID:33804169
Exploring Obscurin and SPEG Kinase Biology. PMID:33801198
The Participation of the Intrinsically Disordered Regions of the bHLH-PAS Transcription Factors in Disease Development. PMID:33799876
Network medicine links SARS-CoV-2/COVID-19 infection to brain microvascular injury and neuroinflammation in dementia-like cognitive impairment. PMID:33791705
Loss of the abasic site sensor HMCES is synthetic lethal with the activity of the APOBEC3A cytosine deaminase in cancer cells. PMID:33788831
Quantitative acetylome analysis reveals histone modifications that may predict prognosis in hepatitis B-related hepatocellular carcinoma. PMID:33783990
Pharmacological targeting of the novel β-catenin chromatin-associated kinase p38α in colorectal cancer stem cell tumorspheres and organoids. PMID:33767160
PTP-MEG2 regulates quantal size and fusion pore opening through two distinct structural bases and substrates. PMID:33764618
SH3BP4 promotes neuropilin-1 and α5-integrin endocytosis and is inhibited by Akt. PMID:33761321
Integrated intra- and intercellular signaling knowledge for multicellular omics analysis. PMID:33749993
Protein arginine methylation: from enigmatic functions to therapeutic targeting. PMID:33742187
Human RecQ Helicases in DNA Double-Strand Break Repair. PMID:33718381
Quantitative Proteomics Reveals that the OGT Interactome Is Remodeled in Response to Oxidative Stress. PMID:33716169
Schwann cell plasticity regulates neuroblastic tumor cell differentiation via epidermal growth factor-like protein 8. PMID:33712610
A genomic variant of ALPK2 is associated with increased liver fibrosis risk in HIV/HCV coinfected women. PMID:33705408
Significant non-existence of sequences in genomes and proteomes. PMID:33693858
GASC1 promotes hepatocellular carcinoma progression by inhibiting the degradation of ROCK2. PMID:33692332
Packed red blood cells inhibit T-cell activation via ROS-dependent signaling pathways. PMID:33676898
Editorial of Special Issue "Protein Post-Translational Modifications in Signal Transduction and Diseases". PMID:33668127
Akt Is S-Palmitoylated: A New Layer of Regulation for Akt. PMID:33659252
Phosphatase PP2A enhances MCL-1 protein half-life in multiple myeloma cells. PMID:33658484
Mapping of the contraction-induced phosphoproteome identifies TRIM28 as a significant regulator of skeletal muscle size and function. PMID:33657380
GSK3B induces autophagy by phosphorylating ULK1. PMID:33654220
The N-terminal domain of uracil-DNA glycosylase: Roles for disordered regions. PMID:33640758
Stable Isotope Labeling of Amino Acids in Flies (SILAF) Reveals Differential Phosphorylation of Mitochondrial Proteins Upon Loss of OXPHOS Subunits. PMID:33640490
Identification of Neuronal Pentraxins as Synaptic Binding Partners of C1q and the Involvement of NP1 in Synaptic Pruning in Adult Mice. PMID:33628204
Inflammasome activation controlled by the interplay between post-translational modifications: emerging drug target opportunities. PMID:33627128
Automating parameter selection to avoid implausible biological pathway models. PMID:33623016
Computational Screening of Phase-separating Proteins. PMID:33610793
Robust inference of kinase activity using functional networks. PMID:33608514
The one-carbon pool controls mitochondrial energy metabolism via complex I and iron-sulfur clusters. PMID:33608280
Divergence in alternative polyadenylation contributes to gene regulatory differences between humans and chimpanzees. PMID:33595436
RNF167 activates mTORC1 and promotes tumorigenesis by targeting CASTOR1 for ubiquitination and degradation. PMID:33594058
A systems-based method to repurpose marketed therapeutics for antiviral use: a SARS-CoV-2 case study. PMID:33593923
Protein Phosphorylation in Depolarized Synaptosomes: Dissecting Primary Effects of Calcium from Synaptic Vesicle Cycling. PMID:33582301
Systematic characterization of mutations altering protein degradation in human cancers. PMID:33567269
Phosphoproteomic Landscape of AML Cells Treated with the ATP-Competitive CK2 Inhibitor CX-4945. PMID:33562780
Cryo-EM structures of human RNA polymerase III in its unbound and transcribing states. PMID:33558764
Genetic variants of small airways and interstitial pulmonary disease in children. PMID:33526882
Extrinsic Regulators of mRNA Translation in Developing Brain: Story of WNTs. PMID:33525513
Computational resources for identifying and describing proteins driving liquid-liquid phase separation. PMID:33517364
My personal mutanome: a computational genomic medicine platform for searching network perturbing alleles linking genotype to phenotype. PMID:33514395
Post-Translational Modifications of the Energy Guardian AMP-Activated Protein Kinase. PMID:33513781
Export Control: Post-transcriptional Regulation of the COPII Trafficking Pathway. PMID:33511128
3D Functional Genomics Screens Identify CREBBP as a Targetable Driver in Aggressive Triple-Negative Breast Cancer. PMID:33509944
Mechanisms of TTNtv-Related Dilated Cardiomyopathy: Insights from Zebrafish Models. PMID:33504111
Proteome-wide profiling and mapping of post translational modifications in human hearts. PMID:33500497
Mitochondrial Kinases and the Role of Mitochondrial Protein Phosphorylation in Health and Disease. PMID:33498615
Regulation of COX Assembly and Function by Twin CX9C Proteins-Implications for Human Disease. PMID:33498264
Regulating the Regulators: Mechanisms of Substrate Selection of the O-GlcNAc Cycling Enzymes OGT and OGA. PMID:33498085
Mechanistic insights into KDM4A driven genomic instability. PMID:33492339
A disorder-related variant (E420K) of a PP2A-regulatory subunit (PPP2R5D) causes constitutively active AKT-mTOR signaling and uncoordinated cell growth. PMID:33482199
Gene co-expression in the interactome: moving from correlation toward causation via an integrated approach to disease module discovery. PMID:33479222
Systematic Identification of Protein Phosphorylation-Mediated Interactions. PMID:33476154
Post-translational control of the long and winding road to cholesterol. PMID:33453997
Protein kinase Cα regulates the nucleocytoplasmic shuttling of KRIT1. PMID:33443102
Data-independent acquisition method for ubiquitinome analysis reveals regulation of circadian biology. PMID:33431886
Iron Deficiency Reprograms Phosphorylation Signaling and Reduces O-GlcNAc Pathways in Neuronal Cells. PMID:33430126
Proteogenomic insights into the biology and treatment of HPV-negative head and neck squamous cell carcinoma. PMID:33417831
A network-based deep learning methodology for stratification of tumor mutations. PMID:33416857
Arginine methylation: the promise of a 'silver bullet' for brain tumours? PMID:33404912
CCAR1 and CCAR2 as gene chameleons with antagonistic duality: Preclinical, human translational, and mechanistic basis. PMID:33403784
Novel RB1 and MET Gene Mutations in a Case with Bilateral Retinoblastoma Followed by Multiple Metastatic Osteosarcoma. PMID:33375764
TMEFF2: A Transmembrane Proteoglycan with Multifaceted Actions in Cancer and Disease. PMID:33371267
SATB1-mediated chromatin landscape in T cells. PMID:33356851
Generation of an Interactome for the Tetratricopeptide Repeat Domain of O-GlcNAc Transferase Indicates a Role for the Enzyme in Intellectual Disability. PMID:33356293
Phosphorylation of seryl-tRNA synthetase by ATM/ATR is essential for hypoxia-induced angiogenesis. PMID:33351793
Tyrosine phosphorylation regulates hnRNPA2 granule protein partitioning and reduces neurodegeneration. PMID:33349959
Biological characteristics of aging in human acute myeloid leukemia cells: the possible importance of aldehyde dehydrogenase, the cytoskeleton and altered transcriptional regulation. PMID:33349623
Post-translational modification analysis of Saccharomyces cerevisiae histone methylation enzymes reveals phosphorylation sites of regulatory potential. PMID:33334889
Mutational survivorship bias: The case of PNKP. PMID:33332469
PKC downregulation upon rapamycin treatment attenuates mitochondrial disease. PMID:33324011
Development of a miRNA-controlled dual-sensing system and its application for targeting miR-21 signaling in tumorigenesis. PMID:33311703
The conformational and mutational landscape of the ubiquitin-like marker for autophagosome formation in cancer. PMID:33302793
Variant in NHLRC2 leads to increased hnRNP C2 in developing neurons and the hippocampus of a mouse model of FINCA disease. PMID:33297935
Phosphoproteomics identifies microglial Siglec-F inflammatory response during neurodegeneration. PMID:33289969
Proteomic signatures of 16 major types of human cancer reveal universal and cancer-type-specific proteins for the identification of potential therapeutic targets. PMID:33287876
FLEXIQuant-LF to quantify protein modification extent in label-free proteomics data. PMID:33284109
Accurate prediction of kinase-substrate networks using knowledge graphs. PMID:33270624
Post-Translational Modifications of G Protein-Coupled Receptors Control Cellular Signaling Dynamics in Space and Time. PMID:33268549
Occurrence of Ordered and Disordered Structural Elements in Postsynaptic Proteins Supports Optimization for Interaction Diversity. PMID:33267475
Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2. PMID:33259812
MOB: Pivotal Conserved Proteins in Cytokinesis, Cell Architecture and Tissue Homeostasis. PMID:33255245
Integrated Proteogenomic Characterization across Major Histological Types of Pediatric Brain Cancer. PMID:33242424
PTMsnp: A Web Server for the Identification of Driver Mutations That Affect Protein Post-translational Modification. PMID:33240890
Characterization and identification of lysine crotonylation sites based on machine learning method on both plant and mammalian. PMID:33235255
The FBXL family of F-box proteins: variations on a theme. PMID:33234069
A highly conserved glutamic acid in ALFY inhibits membrane binding to aid in aggregate clearance. PMID:33225481
canSAR: update to the cancer translational research and drug discovery knowledgebase. PMID:33219674
Characterization of an N-terminal Nav1.5 channel variant - a potential risk factor for arrhythmias and sudden death? PMID:33213388
Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy. PMID:33212010
In Silico Identification of SOX1 Post-Translational Modifications Highlights a Shared Protein Motif. PMID:33202879
Quantitative Interactomics of Lck-TurboID in Living Human T Cells Unveils T Cell Receptor Stimulation-Induced Proximal Lck Interactors. PMID:33185455
Recognition of proximally phosphorylated tyrosine residues and continuous analysis of phosphatase activity using a stable europium complex. PMID:33173266
In situ detection of protein interactions for recombinant therapeutic enzymes. PMID:33169829
Sirtuin 5 Is Regulated by the SCFCyclin F Ubiquitin Ligase and Is Involved in Cell Cycle Control. PMID:33168699
Mitochondrial quality control mechanisms as molecular targets in cardiac ischemia-reperfusion injury. PMID:33163341
A network medicine approach to investigation and population-based validation of disease manifestations and drug repurposing for COVID-19. PMID:33156843
Combinatorial expression of GPCR isoforms affects signalling and drug responses. PMID:33149304
New insights into the clinical and molecular spectrum of the novel CYFIP2-related neurodevelopmental disorder and impairment of the WRC-mediated actin dynamics. PMID:33149277
KinaseMD: kinase mutations and drug response database. PMID:33137204
ADPriboDB 2.0: an updated database of ADP-ribosylated proteins. PMID:33137182
Structure, mechanism, and regulation of mitochondrial DNA transcription initiation. PMID:33127643
FFAT motif phosphorylation controls formation and lipid transfer function of inter-organelle contacts. PMID:33124732
The MemMoRF database for recognizing disordered protein regions interacting with cellular membranes. PMID:33119751
Comprehensive characterization of amino acid positions in protein structures reveals molecular effect of missense variants. PMID:33106425
Cutting the Brakes on Ras-Cytoplasmic GAPs as Targets of Inactivation in Cancer. PMID:33096593
Enterovirus Infection Induces Massive Recruitment of All Isoforms of Small Cellular Arf GTPases to the Replication Organelles. PMID:33087467
Dimerization regulates the human APC/C-associated ubiquitin-conjugating enzyme UBE2S. PMID:33082289
Ubiquitomics: An Overview and Future. PMID:33080838
Selective inhibition of CDK7 reveals high-confidence targets and new models for TFIIH function in transcription. PMID:33060135
PAK4 methylation by the methyltransferase SETD6 attenuates cell adhesion. PMID:33051544
Lysine acetylation of cytoskeletal proteins: Emergence of an actin code. PMID:33044556
Uncovering DNA-PKcs ancient phylogeny, unique sequence motifs and insights for human disease. PMID:33035590
C-Terminal Tag Location Hampers in Vitro Profiling of OGT Peptide Substrates by mRNA Display. PMID:33022805
Cereblon Promotes the Ubiquitination and Proteasomal Degradation of Interleukin Enhancer-Binding Factor 2. PMID:33009960
The Huntingtin-interacting protein SETD2/HYPB is an actin lysine methyltransferase. PMID:33008892
Secretion of pro-oncogenic AGR2 protein in cancer. PMID:33005802
Two Sides of the Same Coin: The Roles of KLF6 in Physiology and Pathophysiology. PMID:32998281
ADPriboDB v2.0: An Updated Database of ADP-ribosylated Proteins. PMID:32995784
Chronic stepwise cerebral hypoperfusion differentially induces synaptic proteome changes in the frontal cortex, occipital cortex, and hippocampus in rats. PMID:32994510
A nonsense variant in Rap Guanine Nucleotide Exchange Factor 5 (RAPGEF5) is associated with equine familial isolated hypoparathyroidism in Thoroughbred foals. PMID:32986719
Overexpression of wild type or a Q311E mutant MB21D2 promotes a pro-oncogenic phenotype in HNSCC. PMID:32979859
ATR is essential for preservation of cell mechanics and nuclear integrity during interstitial migration. PMID:32973141
Protein Databases Related to Liquid-Liquid Phase Separation. PMID:32947964
Sequence specificity analysis of the SETD2 protein lysine methyltransferase and discovery of a SETD2 super-substrate. PMID:32939018
Dynamic mRNP Remodeling in Response to Internal and External Stimuli. PMID:32932892
Targeting Phosphotyrosine in Native Proteins with Conditional, Bispecific Antibody Traps. PMID:32924468
A pan-cancer assessment of alterations of the kinase domain of ULK1, an upstream regulator of autophagy. PMID:32913252
A functionally defined high-density NRF2 interactome reveals new conditional regulators of ARE transactivation. PMID:32911434
HDAC3 deacetylates the DNA mismatch repair factor MutSβ to stimulate triplet repeat expansions. PMID:32900932
Quantitative kinase and phosphatase profiling reveal that CDK1 phosphorylates PP2Ac to promote mitotic entry. PMID:32900880
A Cell-Autonomous Signature of Dysregulated Protein Phosphorylation Underlies Muscle Insulin Resistance in Type 2 Diabetes. PMID:32888406
Binding of inhibitors to active-site mutants of CD1, the enigmatic catalytic domain of histone deacetylase 6. PMID:32880591
Endoplasmic reticulum stress causes insulin resistance by inhibiting delivery of newly synthesized insulin receptors to the cell surface. PMID:32877278
Modifications of Titin Contribute to the Progression of Cardiomyopathy and Represent a Therapeutic Target for Treatment of Heart Failure. PMID:32859027
Structure, Function, and Regulation of the Blood-Brain Barrier Tight Junction in Central Nervous System Disorders. PMID:32848858
Distinct and sequential re-replication barriers ensure precise genome duplication. PMID:32841231
Differential processing and localization of human Nocturnin controls metabolism of mRNA and nicotinamide adenine dinucleotide cofactors. PMID:32839274
Myosin XVI in the Nervous System. PMID:32824179
Regulatory effects of post-translational modifications on zDHHC S-acyltransferases. PMID:32817054
Nuclear receptor phosphorylation in xenobiotic signal transduction. PMID:32788213
YB-1 Mediates TNF-Induced Pro-Survival Signaling by Regulating NF-κB Activation. PMID:32764479
FLUTE: Fast and reliable knowledge retrieval from biomedical literature. PMID:32761077
Current Knowledge on the Function of α-Methyl Acyl-CoA Racemase in Human Diseases. PMID:32760737
Pharmacoproteomics Identifies Kinase Pathways that Drive the Epithelial-Mesenchymal Transition and Drug Resistance in Hepatocellular Carcinoma. PMID:32755597
Coactosin Phosphorylation Controls Entamoeba histolytica Cell Membrane Protrusions and Cell Motility. PMID:32753489
KSP: an integrated method for predicting catalyzing kinases of phosphorylation sites in proteins. PMID:32753030
Co-phosphorylation networks reveal subtype-specific signaling modules in breast cancer. PMID:32730576
Role of O-Linked N-Acetylglucosamine Protein Modification in Cellular (Patho)Physiology. PMID:32730113
Exploring protein phosphorylation by combining computational approaches and biochemical methods. PMID:32728408
(Phospho)proteomic Profiling of Microsatellite Unstable CRC Cells Reveals Alterations in Nuclear Signaling and Cholesterol Metabolism Caused by Frameshift Mutation of NMD Regulator UPF3A. PMID:32718059
PhosphoEffect: Prioritizing Variants On or Adjacent to Phosphorylation Sites through Their Effect on Kinase Recognition Motifs. PMID:32712465
Kinase Interaction Network Expands Functional and Disease Roles of Human Kinases. PMID:32707033
The PPAR Ω Pocket: Renewed Opportunities for Drug Development. PMID:32695150
Regulation of histone deacetylase activities and functions by phosphorylation and its physiological relevance. PMID:32683534
Crystal Structures of Ternary Complexes of MEF2 and NKX2-5 Bound to DNA Reveal a Disease Related Protein-Protein Interaction Interface. PMID:32681840
Using phosphoproteomics data to understand cellular signaling: a comprehensive guide to bioinformatics resources. PMID:32676006
The Differential Phosphorylation-Dependent Signaling and Glucose Immunometabolic Responses Induced during Infection by Salmonella Enteritidis and Salmonella Heidelberg in Chicken Macrophage-like cells. PMID:32674261
Human carbonic anhydrases and post-translational modifications: a hidden world possibly affecting protein properties and functions. PMID:32648529
Phosphorylation of steroid receptor coactivator-3 (SRC-3) at serine 857 is regulated by the p38MAPK-MK2 axis and affects NF-κB-mediated transcription. PMID:32647362
Biochemical Characterization of Human Retroviral-Like Aspartic Protease 1 (ASPRV1). PMID:32640672
Network determinants of cardiovascular calcification and repositioned drug treatments. PMID:32638415
A nanotrap improves survival in severe sepsis by attenuating hyperinflammation. PMID:32636379
Molecular Basis for Ser/Thr Specificity in PKA Signaling. PMID:32630525
Structural Insights into Pseudokinase Domains of Receptor Tyrosine Kinases. PMID:32619402
Proteomic and Phosphoproteomic Maps of Lung Squamous Cell Carcinoma From Chinese Patients. PMID:32612956
Identification and validation of the phosphorylation sites on Aristaless-related homeobox protein. PMID:32608477
FYN and ABL Regulate the Interaction Networks of the DCBLD Receptor Family. PMID:32606017
A Fresh Look at the Structure, Regulation, and Functions of Fodrin. PMID:32601107
Glucocorticoids and serum- and glucocorticoid-inducible kinase 1 are potent regulators of CFTR in the native intestine: implications for stress-induced diarrhea. PMID:32567324
Non-cooperative 4E-BP2 folding with exchange between eIF4E-binding and binding-incompatible states tunes cap-dependent translation inhibition. PMID:32561718
DeepRMethylSite: a deep learning based approach for prediction of arginine methylation sites in proteins. PMID:32555810
The Insulin Receptor Adaptor IRS2 is an APC/C Substrate That Promotes Cell Cycle Protein Expression and a Robust Spindle Assembly Checkpoint. PMID:32554797
Network Medicine Framework for Identifying Drug Repurposing Opportunities for COVID-19. PMID:32550253
Mass Spectrometry-Based Discovery of in vitro Kinome Substrates. PMID:32547896
Vital and Distinct Roles of H2A.Z Isoforms in Hepatocellular Carcinoma. PMID:32547065
Post-translational modifications of Hsp90 and translating the chaperone code. PMID:32527727
Post-translational modifications of Hsp70 family proteins: Expanding the chaperone code. PMID:32518165
Glycogen synthase kinase (GSK)-3 and the double-strand RNA-dependent kinase, PKR: When two kinases for the common good turn bad. PMID:32512016
Phosphorylation of mitochondrial transcription factor B2 controls mitochondrial DNA binding and transcription. PMID:32505352
Use of the Polo-like kinase 4 (PLK4) inhibitor centrinone to investigate intracellular signalling networks using SILAC-based phosphoproteomics. PMID:32501498
dBMHCC: A comprehensive hepatocellular carcinoma (HCC) biomarker database provides a reliable prediction system for novel HCC phosphorylated biomarkers. PMID:32497121
LEM2 phase separation promotes ESCRT-mediated nuclear envelope reformation. PMID:32494070
FGFR4: A promising therapeutic target for breast cancer and other solid tumors. PMID:32492514
Dysfunctional oxidative phosphorylation shunts branched-chain amino acid catabolism onto lipogenesis in skeletal muscle. PMID:32488939
Integrated omics in Drosophila uncover a circadian kinome. PMID:32483184
Updating dual-specificity tyrosine-phosphorylation-regulated kinase 2 (DYRK2): molecular basis, functions and role in diseases. PMID:32462403
CAMKK2-CAMK4 signaling regulates transferrin trafficking, turnover, and iron homeostasis. PMID:32460794
TGF-β-Induced Phosphorylation of Usp9X Stabilizes Ankyrin-G and Regulates Dendritic Spine Development and Maintenance. PMID:32460012
Regulation of poly(a)-specific ribonuclease activity by reversible lysine acetylation. PMID:32457045
Genome Maintenance by DNA Helicase B. PMID:32455610
Phosphoproteomics identifies dual-site phosphorylation in an extended basophilic motif regulating FILIP1-mediated degradation of filamin-C. PMID:32444788
Post-translational Modification Crosstalk and Hotspots in Sirtuin Interactors Implicated in Cardiovascular Diseases. PMID:32425973
tappAS: a comprehensive computational framework for the analysis of the functional impact of differential splicing. PMID:32423416
Genotype-phenotype analysis of LMNA-related diseases predicts phenotype-selective alterations in lamin phosphorylation. PMID:32413188
Pharmacological inhibition of PRMT7 links arginine monomethylation to the cellular stress response. PMID:32409666
MISCAST: MIssense variant to protein StruCture Analysis web SuiTe. PMID:32402084
An integrative multi-omics approach uncovers the regulatory role of CDK7 and CDK4 in autophagy activation induced by silica nanoparticles. PMID:32397800
RESTful API for iPTMnet: a resource for protein post-translational modification network discovery. PMID:32395768
The interaction of the mitochondrial protein importer TOMM34 with HSP70 is regulated by TOMM34 phosphorylation and binding to 14-3-3 adaptors. PMID:32371396
Phosphorylation-dependent substrate selectivity of protein kinase B (AKT1). PMID:32350110
Deciphering MET-dependent modulation of global cellular responses to DNA damage by quantitative phosphoproteomics. PMID:32336009
A masked initiation region in retinoblastoma protein regulates its proteasomal degradation. PMID:32332747
Molecular Regulation of the RhoGAP GRAF3 and Its Capacity to Limit Blood Pressure In Vivo. PMID:32331391
HSF1: Primary Factor in Molecular Chaperone Expression and a Major Contributor to Cancer Morbidity. PMID:32331382
A Degenerate Peptide Library Approach to Reveal Sequence Determinants of Methyllysine-Driven Protein Interactions. PMID:32328492
A Non-Canonical Calmodulin Target Motif Comprising a Polybasic Region and Lipidated Terminal Residue Regulates Localization. PMID:32326637
A kinome-wide screen identifies a CDKL5-SOX9 regulatory axis in epithelial cell death and kidney injury. PMID:32317630
The PRR14 heterochromatin tether encodes modular domains that mediate and regulate nuclear lamina targeting. PMID:32317397
TNF-α inhibitor reduces drug-resistance to anti-PD-1: A mathematical model. PMID:32310956
RNA-Induced Conformational Switching and Clustering of G3BP Drive Stress Granule Assembly by Condensation. PMID:32302572
Revealing Dynamic Protein Acetylation across Subcellular Compartments. PMID:32290654
Functional diversity between HSP70 paralogs caused by variable interactions with specific co-chaperones. PMID:32284329
The MX-Helix of Muscle nAChR Subunits Regulates Receptor Assembly and Surface Trafficking. PMID:32265653
Hereditary Trichilemmal Cysts are Caused by Two Hits to the Same Copy of the Phospholipase C Delta 1 Gene (PLCD1). PMID:32265483
MeCP2 and Chromatin Compartmentalization. PMID:32260176
Insulin-induced serine 22 phosphorylation of retinoid X receptor alpha is dispensable for adipogenesis in brown adipocytes. PMID:32249683
Kinase inhibition profiles as a tool to identify kinases for specific phosphorylation sites. PMID:32245944
The C-terminal tails of the mitochondrial transcription factors Mtf1 and TFB2M are part of an autoinhibitory mechanism that regulates DNA binding. PMID:32241911
Delineation of phenotypes and genotypes related to cohesin structural protein RAD21. PMID:32193685
Proteome and Phosphoproteome Changes Associated with Prognosis in Acute Myeloid Leukemia. PMID:32192169
Phosphoproteomics identifies a bimodal EPHA2 receptor switch that promotes embryonic stem cell differentiation. PMID:32170114
Structure of E3 ligase E6AP with a proteasome-binding site provided by substrate receptor hRpn10. PMID:32157086
System-Wide Analysis of Protein Acetylation and Ubiquitination Reveals a Diversified Regulation in Human Cancer Cells. PMID:32155916
AXL as a Target in Breast Cancer Therapy. PMID:32148495
Mesenchymal MACF1 Facilitates SMAD7 Nuclear Translocation to Drive Bone Formation. PMID:32143362
Monitoring protein communities and their responses to therapeutics. PMID:32139903
A methylated lysine is a switch point for conformational communication in the chaperone Hsp90. PMID:32139682
Challenges and Reinterpretation of Antibody-Based Research on Phosphorylation of Tyr307 on PP2Ac. PMID:32130915
Conformational control of small GTPases by AMPylation. PMID:32123090
Acetylation of MORC2 by NAT10 regulates cell-cycle checkpoint control and resistance to DNA-damaging chemotherapy and radiotherapy in breast cancer. PMID:32112098
DISNET: a framework for extracting phenotypic disease information from public sources. PMID:32110491
Phosphotyrosine-based Phosphoproteomics for Target Identification and Drug Response Prediction in AML Cell Lines. PMID:32102969
Emerging roles of the αC-β4 loop in protein kinase structure, function, evolution, and disease. PMID:32101380
AMPK-dependent activation of the Cyclin Y/CDK16 complex controls autophagy. PMID:32098961
Exploring Integrative Analysis Using the BioMedical Evidence Graph. PMID:32097025
Ubiquitination of the scaffold protein IQGAP1 diminishes its interaction with and activation of the Rho GTPase CDC42. PMID:32094223
Comprehensive characterization of the phosphoproteome of gastric cancer from endoscopic biopsy specimens. PMID:32089736
PXR: a center of transcriptional regulation in cancer. PMID:32082968
A Munc18-1 mutant mimicking phosphorylation by Down Syndrome-related kinase Dyrk1a supports normal synaptic transmission and promotes recovery after intense activity. PMID:32081899
Controllability analysis of molecular pathways points to proteins that control the entire interaction network. PMID:32076007
Kelch-like protein 42 is a profibrotic ubiquitin E3 ligase involved in systemic sclerosis. PMID:32071084
Phosphoproteome and drug-response effects mediated by the three protein phosphatase 2A inhibitor proteins CIP2A, SET, and PME-1. PMID:32071079
Structural determinants of affinity and selectivity in the binding of inhibitors to histone deacetylase 6. PMID:32067866
Chemical Targeting of Membrane Transporters: Insights into Structure/Function Relationships. PMID:32064367
Mechanical regulation of glycolysis via cytoskeleton architecture. PMID:32051585
A Compact Quadrupole-Orbitrap Mass Spectrometer with FAIMS Interface Improves Proteome Coverage in Short LC Gradients. PMID:32051234
RASSF10 is frequently epigenetically inactivated in kidney cancer and its knockout promotes neoplasia in cancer prone mice. PMID:32047266
DeepKinZero: zero-shot learning for predicting kinase-phosphosite associations involving understudied kinases. PMID:32044914
Discovering the genes mediating the interactions between chronic respiratory diseases in the human interactome. PMID:32041952
RasGRP2 Structure, Function and Genetic Variants in Platelet Pathophysiology. PMID:32041177
Kinobead/LC-MS Phosphokinome Profiling Enables Rapid Analyses of Kinase-Dependent Cell Signaling Networks. PMID:32037842
Radiation activates myeloperoxidase (MPO) to generate active chlorine species (ACS) via a dephosphorylation mechanism - inhibitory effect of LGM2605. PMID:32035161
A Genetic Toggle for Chemical Control of Individual Plk1 Substrates. PMID:32017920
Regulation of cardiac O-GlcNAcylation: More than just nutrient availability. PMID:32014551
Grainyhead-like transcription factors in cancer - Focus on recent developments. PMID:32008358
DNA-dependent protein kinase regulates lysosomal AMP-dependent protein kinase activation and autophagy. PMID:31983282
Social Stress-Induced Postsynaptic Hyporesponsiveness in Glutamatergic Synapses Is Mediated by PSD-Zip70-Rap2 Pathway and Relates to Anxiety-Like Behaviors. PMID:31969804
A Multi-Omics Interpretable Machine Learning Model Reveals Modes of Action of Small Molecules. PMID:31969612
Mechanical forces induce an asthma gene signature in healthy airway epithelial cells. PMID:31969610
Reconstructing kinase network topologies from phosphoproteomics data reveals cancer-associated rewiring. PMID:31959955
Structural and Biophysical Analyses of Human N-Myc Downstream-Regulated Gene 3 (NDRG3) Protein. PMID:31935861
A protein-centric approach for exome variant aggregation enables sensitive association analysis with clinical outcomes. PMID:31930623
Defining the TLT-1 interactome from resting and activated human platelets. PMID:31923473
Current and Future Treatment Strategies for Rhabdomyosarcoma. PMID:31921698
Structural Insights Into TDP-43 and Effects of Post-translational Modifications. PMID:31920533
The sequential phosphorylation of PHF10 subunit of the PBAF chromatin-remodeling complex determines different properties of the PHF10 isoforms. PMID:31911482
Twin enzymes, divergent control: The cholesterogenic enzymes DHCR14 and LBR are differentially regulated transcriptionally and post-translationally. PMID:31911440
Structure of the BRK domain of the SWI/SNF chromatin remodeling complex subunit BRG1 reveals a potential role in protein-protein interactions. PMID:31909846
Presence and structure-activity relationship of intrinsically disordered regions across mucins. PMID:31908009
Biophysical prediction of protein-peptide interactions and signaling networks using machine learning. PMID:31907444
Transcriptional changes during hepatic ischemia-reperfusion in the rat. PMID:31891620
Crystal structures of p120RasGAP N-terminal SH2 domain in its apo form and in complex with a p190RhoGAP phosphotyrosine peptide. PMID:31891593
Single Nucleotide Polymorphism rs6942067 Is a Risk Factor in Young and in Non-Smoking Patients with HPV Negative Head and Neck Squamous Cell Carcinoma. PMID:31878157
Allosteric mechanism for site-specific ubiquitination of FANCD2. PMID:31873223
Regulation of INF2-mediated actin polymerization through site-specific lysine acetylation of actin itself. PMID:31871199
The Emerging Role of Cytidine Deaminase in Human Diseases: A New Opportunity for Therapy? PMID:31870623
An ultrasensitive fiveplex activity assay for cellular kinases. PMID:31857650
Lipid droplet-associated kinase STK25 regulates peroxisomal activity and metabolic stress response in steatotic liver. PMID:31857389
The Giant Protein Titin's Role in Cardiomyopathy: Genetic, Transcriptional, and Post-translational Modifications of TTN and Their Contribution to Cardiac Disease. PMID:31849696
Mass Spectrometry Based Immunopeptidomics Leads to Robust Predictions of Phosphorylated HLA Class I Ligands. PMID:31848261
The human DEPhOsphorylation Database DEPOD: 2019 update. PMID:31836896
cAMP-EPAC-Dependent Regulation of Gephyrin Phosphorylation and GABAAR Trapping at Inhibitory Synapses. PMID:31835170
Characterization of the c10orf76-PI4KB complex and its necessity for Golgi PI4P levels and enterovirus replication. PMID:31829496
Alterations of the interactome of Bcl-2 proteins in breast cancer at the transcriptional, mutational and structural level. PMID:31825969
Metabolic rewiring of the hypertensive kidney. PMID:31822592
Systematic analysis of linker histone PTM hotspots reveals phosphorylation sites that modulate homologous recombination and DSB repair. PMID:31821952
The functional landscape of the human phosphoproteome. PMID:31819260
Intramitochondrial Src kinase links mitochondrial dysfunctions and aggressiveness of breast cancer cells. PMID:31819039
RASSF10 Is a TGFβ-Target That Regulates ASPP2 and E-Cadherin Expression and Acts as Tumor Suppressor That Is Epigenetically Downregulated in Advanced Cancer. PMID:31817988
Usp9X Controls Ankyrin-Repeat Domain Protein Homeostasis during Dendritic Spine Development. PMID:31813652
AMPK leads to phosphorylation of the transcription factor Nrf2, tuning transactivation of selected target genes. PMID:31805502
Epigenetic therapy of novel tumour suppressor ZAR1 and its cancer biomarker function. PMID:31801617
Exploring Structural Determinants of Inhibitor Affinity and Selectivity in Complexes with Histone Deacetylase 6. PMID:31793776
Global redox proteome and phosphoproteome analysis reveals redox switch in Akt. PMID:31792197
The in vivo ISGylome links ISG15 to metabolic pathways and autophagy upon Listeria monocytogenes infection. PMID:31772204
Global targeting of functional tyrosines using sulfur-triazole exchange chemistry. PMID:31768034
Proteomics of Long-Lived Mammals. PMID:31737995
From expression footprints to causal pathways: contextualizing large signaling networks with CARNIVAL. PMID:31728204
Cul3-Klhl18 ubiquitin ligase modulates rod transducin translocation during light-dark adaptation. PMID:31696965
Structural analysis of human SEPHS2 protein, a selenocysteine machinery component, over-expressed in triple negative breast cancer. PMID:31695102
Sequence and Structure Properties Uncover the Natural Classification of Protein Complexes Formed by Intrinsically Disordered Proteins via Mutual Synergistic Folding. PMID:31683980
Ion concentration polarization (ICP) of proteins at silicon micropillar nanogaps. PMID:31682605
An expanded mouse testis transcriptome and mass spectrometry defines novel proteins. PMID:31677600
Capturing the Mechanism Underlying TOP mRNA Binding to LARP1. PMID:31676287
Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma. PMID:31675502
The TargetMine Data Warehouse: Enhancement and Updates. PMID:31649722
Pathway Commons 2019 Update: integration, analysis and exploration of pathway data. PMID:31647099
Regulation of large and small G proteins by ubiquitination. PMID:31645437
Leveraging New Definitions of the LxVP SLiM To Discover Novel Calcineurin Regulators and Substrates. PMID:31633908
Interactome of the Autoimmune Risk Protein ANKRD55. PMID:31620119
The Evolution of Tau Phosphorylation and Interactions. PMID:31619983
Substrate-based kinase activity inference identifies MK2 as driver of colitis. PMID:31617572
Developmentally regulated KCC2 phosphorylation is essential for dynamic GABA-mediated inhibition and survival. PMID:31615901
Preparation of a new construct of human histone deacetylase 8 for the crystallization of enzyme-inhibitor complexes. PMID:31606091
Uncovering Thousands of New Peptides with Sequence-Mask-Search Hybrid De Novo Peptide Sequencing Framework. PMID:31591261
PhaSepDB: a database of liquid-liquid phase separation related proteins. PMID:31584089
Pyk2-dependent phosphorylation of LSR enhances localization of LSR and tricellulin at tricellular tight junctions. PMID:31574128
Directing Traffic: Regulation of COPI Transport by Post-translational Modifications. PMID:31572722
Pyk2-dependent phosphorylation of LSR enhances localization of LSR and tricellulin at tricellular tight junctions. PMID:31574128
Directing Traffic: Regulation of COPI Transport by Post-translational Modifications. PMID:31572722
Translating neural stem cells to neurons in the mammalian brain. PMID:31551564
Phosphorylation of OXPHOS Machinery Subunits: Functional Implications in Cell Biology and Disease. PMID:31543713
Lysine Methylation Regulators Moonlighting outside the Epigenome. PMID:31539507
Proteogenomic Network Analysis of Context-Specific KRAS Signaling in Mouse-to-Human Cross-Species Translation. PMID:31521603
Nuclear decoupling is part of a rapid protein-level cellular response to high-intensity mechanical loading. PMID:31515493
Reticulocyte and red blood cell deformation triggers specific phosphorylation events. PMID:31506283
Protein kinase C mediates the phosphorylation of the Nem1-Spo7 protein phosphatase complex in yeast. PMID:31501244
A Survey of Gene Prioritization Tools for Mendelian and Complex Human Diseases. PMID:31494632
Physiological, Pathological, and Targetable Membraneless Organelles in Neurons. PMID:31493925
DUSP8 phosphatase: structure, functions, expression regulation and the role in human diseases. PMID:31467668
High-fat diet in a mouse insulin-resistant model induces widespread rewiring of the phosphotyrosine signaling network. PMID:31464373
The Complex Phosphorylation Patterns that Regulate the Activity of Hsp70 and Its Cochaperones. PMID:31450862
Arabidopsis CTP:phosphocholine cytidylyltransferase 1 is phosphorylated and inhibited by sucrose nonfermenting 1-related protein kinase 1 (SnRK1). PMID:31439667
Phosphorylation of importin-α1 by CDK1-cyclin B1 controls mitotic spindle assembly. PMID:31434716
Genetically encoded fluorescent biosensors illuminate kinase signaling in cancer. PMID:31434714
Strong anion exchange-mediated phosphoproteomics reveals extensive human non-canonical phosphorylation. PMID:31433507
Discovery of Missing Methylation Sites on Endogenous Peptides of Human Cell Lines. PMID:31429054
Tandem Mass Tag Labeling Facilitates Reversed-Phase Liquid Chromatography-Mass Spectrometry Analysis of Hydrophilic Phosphopeptides. PMID:31418558
PAK4 suppresses RELB to prevent senescence-like growth arrest in breast cancer. PMID:31399573
Identification of lysine methylation in the core GTPase domain by GoMADScan. PMID:31390367
Ataxin-3 Links NOD2 and TLR2 Mediated Innate Immune Sensing and Metabolism in Myeloid Cells. PMID:31379806
Structure, regulation, and (patho-)physiological functions of the stress-induced protein kinase CK1 delta (CSNK1D). PMID:31376410
A genome-wide positioning systems network algorithm for in silico drug repurposing. PMID:31375661
Aspartate Residues Far from the Active Site Drive O-GlcNAc Transferase Substrate Selection. PMID:31373491
Improving prediction of phenotypic drug response on cancer cell lines using deep convolutional network. PMID:31357929
Peroxisomal Hydrogen Peroxide Metabolism and Signaling in Health and Disease. PMID:31357514
Proteomic Analysis of Breast Cancer Resistance to the Anticancer Drug RH1 Reveals the Importance of Cancer Stem Cells. PMID:31336714
Kinetic Tuning of HDAC Inhibitors Affords Potent Inducers of Progranulin Expression. PMID:31330099
Large-scale Discovery of Substrates of the Human Kinome. PMID:31324866
Substrate docking-mediated specific and efficient lysine methylation by the SET domain-containing histone methyltransferase SETD7. PMID:31324717
A multi-lock inhibitory mechanism for fine-tuning enzyme activities of the HECT family E3 ligases. PMID:31320636
ERK-dependent proteasome degradation of Txnip regulates thioredoxin oxidoreductase activity. PMID:31320475
Hook3 is a scaffold for the opposite-polarity microtubule-based motors cytoplasmic dynein-1 and KIF1C. PMID:31320392
PTM-Logo: a program for generation of sequence logos based on position-specific background amino-acid probabilities. PMID:31318409
The Tousled-like kinases regulate genome and epigenome stability: implications in development and disease. PMID:31302748
Sprouty1 Controls Genitourinary Development via its N-Terminal Tyrosine. PMID:31300484
Structural Basis for Recruitment of DAPK1 to the KLHL20 E3 Ligase. PMID:31279627
Identification of a novel EphB4 phosphodegron regulated by the autocrine IGFII/IRA axis in malignant mesothelioma. PMID:31270394
Ridge regression estimated linear probability model predictions of O-glycosylation in proteins with structural and sequence data. PMID:31253080
Hepatocyte PRMT1 protects from alcohol induced liver injury by modulating oxidative stress responses. PMID:31235809
Evolution of protein kinase substrate recognition at the active site. PMID:31233486
An Integrative Analysis of Tumor Proteomic and Phosphoproteomic Profiles to Examine the Relationships Between Kinase Activity and Phosphorylation. PMID:31227600
The histone variant H2A.Z in gene regulation. PMID:31200754
Ouabain-regulated phosphoproteome reveals molecular mechanisms for Na+, K+-ATPase control of cell adhesion, proliferation, and survival. PMID:31199885
PTMphinder: an R package for PTM site localization and motif extraction from proteomic datasets. PMID:31198645
Regulated Phosphosignaling Associated with Breast Cancer Subtypes and Druggability. PMID:31196969
Nitration-induced ubiquitination and degradation control quality of ERK1. PMID:31196894
TET2 missense variants in human neoplasia. A proposal of structural and functional classification. PMID:31187595
MOB (Mps one Binder) Proteins in the Hippo Pathway and Cancer. PMID:31185650
Viral Appropriation: Laying Claim to Host Nuclear Transport Machinery. PMID:31181773
Phosphorylation mapping of Laminin β1-chain: Kinases in association with active sites. PMID:31180068
Phosphorylation of TET2 by AMPK is indispensable in myogenic differentiation. PMID:31164154
PRISMOID: a comprehensive 3D structure database for post-translational modifications and mutations with functional impact. PMID:31161204
Mapping phospho-catalytic dependencies of therapy-resistant tumours reveals actionable vulnerabilities. PMID:31160710
Protein phosphatase 2A as a therapeutic target in inflammation and neurodegeneration. PMID:31158394
Modeling post-translational modifications and cancer-associated mutations that impact the heterochromatin protein 1α-importin α heterodimers. PMID:31152607
Proteome-wide analysis of chaperone-mediated autophagy targeting motifs. PMID:31150375
p90 ribosomal S6 kinase (RSK) phosphorylates myosin phosphatase and thereby controls edge dynamics during cell migration. PMID:31138649
Detailed Dissection of UBE3A-Mediated DDI1 Ubiquitination. PMID:31130875
Comprehensive substrate specificity profiling of the human Nek kinome reveals unexpected signaling outputs. PMID:31124786
WebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs. PMID:31114916
The carboxy-terminus, a key regulator of protein function. PMID:31106589
Targeting protein methylation: from chemical tools to precision medicines. PMID:31104094
Cyclin-dependent kinase 1-mediated phosphorylation of SET at serine 7 is essential for its oncogenic activity. PMID:31097686
Parallel Post-Translational Modification Scanning Enhancing Hydrogen-Deuterium Exchange-Mass Spectrometry Coverage of Key Structural Regions. PMID:31082219
Splice-Aware Multiple Sequence Alignment of Protein Isoforms. PMID:31080963
Phosphorylation of Tyr-950 in the proteasome scaffolding protein RPN2 modulates its interaction with the ubiquitin receptor RPN13. PMID:31064842
Stemness underpinning all steps of human colorectal cancer defines the core of effective therapeutic strategies. PMID:31056474
Structural plasticity of actin-spectrin membrane skeleton and functional role of actin and spectrin in axon degeneration. PMID:31042147
Conserved phosphorylation hotspots in eukaryotic protein domain families. PMID:31036831
Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities. PMID:31031003
Two Sides of the Coin: Ezrin/Radixin/Moesin and Merlin Control Membrane Structure and Contact Inhibition. PMID:31018575
The AKT kinase signaling network is rewired by PTEN to control proximal BCR signaling in germinal center B cells. PMID:31011187
Crystal structure of human RIOK2 bound to a specific inhibitor. PMID:30991936
Posttranslational modifications of titin from cardiac muscle: how, where, and what for? PMID:30989819
Comparative Analysis of the Transcriptome and Proteome during Mouse Placental Development. PMID:30986076
ProteinExplorer: A Repository-Scale Resource for Exploration of Protein Detection in Public Mass Spectrometry Data Sets. PMID:30985146
INKA, an integrative data analysis pipeline for phosphoproteomic inference of active kinases. PMID:30979792
Identification, Quantification, and System Analysis of Protein N-ε Lysine Methylation in Anucleate Blood Platelets. PMID:30977292
Interplay between coding and exonic splicing regulatory sequences. PMID:30962178
Non-canonical ubiquitination of the cholesterol-regulated degron of squalene monooxygenase. PMID:30940729
Design and molecular dynamic simulation of a new double-epitope tolerogenic protein as a potential vaccine for multiple sclerosis disease. PMID:30936929
A Network Module for the Perseus Software for Computational Proteomics Facilitates Proteome Interaction Graph Analysis. PMID:30931570
The homophilic receptor PTPRK selectively dephosphorylates multiple junctional regulators to promote cell-cell adhesion. PMID:30924770
Differential role for phosphorylation in alternative polyadenylation function versus nuclear import of SR-like protein CPSF6. PMID:30916345
Connectivity problems on heterogeneous graphs. PMID:30899321
Comprehensive profiling of the STE20 kinase family defines features essential for selective substrate targeting and signaling output. PMID:30897078
IRSp53 coordinates AMPK and 14-3-3 signaling to regulate filopodia dynamics and directed cell migration. PMID:30893014
Pathogenetic basis of Takenouchi-Kosaki syndrome: Electron microscopy study using platelets in patients and functional studies in a Caenorhabditis elegans model. PMID:30872706
In vitro phosphorylation of von Willebrand factor by FAM20c enhances its ability to support platelet adhesion. PMID:30864273
PTMselect: optimization of protein modifications discovery by mass spectrometry. PMID:30862887
Mechanical Force Induces Phosphorylation-Mediated Signaling that Underlies Tissue Response and Robustness in Xenopus Embryos. PMID:30852251
Collective influencers in protein interaction networks. PMID:30850642
Design and characterization of mutant and wildtype huntingtin proteins produced from a toolkit of scalable eukaryotic expression systems. PMID:30842263
Positive-unlabelled learning of glycosylation sites in the human proteome. PMID:30841845
Isoform-specific GSK3A activity is negatively correlated with human sperm motility. PMID:30824926
Quantitative proteomic analyses of dynamic signalling events in cortical neurons undergoing excitotoxic cell death. PMID:30824683
The temporal profile of activity-dependent presynaptic phospho-signalling reveals long-lasting patterns of poststimulus regulation. PMID:30822303
Cell Metabolism Control Through O-GlcNAcylation of STAT5: A Full or Empty Fuel Tank Makes a Big Difference for Cancer Cell Growth and Survival. PMID:30818760
CoPhosK: A method for comprehensive kinase substrate annotation using co-phosphorylation analysis. PMID:30811403
Regulatory mechanisms in postsynaptic phosphorylation networks. PMID:30807903
An Advanced Strategy for Comprehensive Profiling of ADP-ribosylation Sites Using Mass Spectrometry-based Proteomics. PMID:30798302
The Case for Proteomics and Phospho-Proteomics in Personalized Cancer Medicine. PMID:30790462
Molecular modeling of LDLR aids interpretation of genomic variants. PMID:30778614
Quantification and discovery of sequence determinants of protein-per-mRNA amount in 29 human tissues. PMID:30777893
Structures of the heart specific SERCA2a Ca2+-ATPase. PMID:30777856
Phosphoregulated FMRP phase separation models activity-dependent translation through bidirectional control of mRNA granule formation. PMID:30765518
Posttranslational modifications of mitochondrial fission and fusion proteins in cardiac physiology and pathophysiology. PMID:30758993
Structure, mechanism, and inhibition of the zinc-dependent histone deacetylases. PMID:30743180
PKC and PKN in heart disease. PMID:30742812
Molecular basis for autoinhibition of RIAM regulated by FAK in integrin activation. PMID:30733287
Rewiring of RSK-PDZ Interactome by Linear Motif Phosphorylation. PMID:30726710
CAMKII as a therapeutic target for growth factor-induced retinal and choroidal neovascularization. PMID:30721154
Mechanism of IRSp53 inhibition by 14-3-3. PMID:30696821
A CATH domain functional family based approach to identify putative cancer driver genes and driver mutations. PMID:30670742
ATM is activated by ATP depletion and modulates mitochondrial function through NRF1. PMID:30642892
Understanding m6A Function Through Uncovering the Diversity Roles of YTH Domain-Containing Proteins. PMID:30637606
Mitogenic Signals Stimulate the CREB Coactivator CRTC3 through PP2A Recruitment. PMID:30611118
Anthrax toxin requires ZDHHC5-mediated palmitoylation of its surface-processing host enzymes. PMID:30610172
Capturing variation impact on molecular interactions in the IMEx Consortium mutations data set. PMID:30602777
Molecular subtyping of cancer and nomination of kinase candidates for inhibition with phosphoproteomics: Reanalysis of CPTAC ovarian cancer. PMID:30594550
Dual Mechanisms of LYN Kinase Dysregulation Drive Aggressive Behavior in Breast Cancer Cells. PMID:30590041
Friend or foe-Post-translational modifications as regulators of phase separation and RNP granule dynamics. PMID:30587571
Clinically Relevant Post-Translational Modification Analyses-Maturing Workflows and Bioinformatics Tools. PMID:30577541
Regulation of MLL/COMPASS stability through its proteolytic cleavage by taspase1 as a possible approach for clinical therapy of leukemia. PMID:30573454
Adrenergic Regulation of Drp1-Driven Mitochondrial Fission in Cardiac Physio-Pathology. PMID:30567380
A Curated Resource for Phosphosite-specific Signature Analysis. PMID:30563849
Loss of Ca2+/Calmodulin Dependent Protein Kinase Kinase 2 Leads to Aberrant Transferrin Phosphorylation and Trafficking: A Potential Biomarker for Alzheimer's Disease. PMID:30525042
Proteome-wide Tyrosine Phosphorylation Analysis Reveals Dysregulated Signaling Pathways in Ovarian Tumors. PMID:30523211
Vimentin on the move: new developments in cell migration. PMID:30505430
Single-Cell Imaging of Metastatic Potential of Cancer Cells. PMID:30500482
A functional proteomics platform to reveal the sequence determinants of lysine methyltransferase substrate selectivity. PMID:30498785
canSAR: update to the cancer translational research and drug discovery knowledgebase. PMID:30496479
Clinical potential of mass spectrometry-based proteogenomics. PMID:30487530
LC-MS/MS analysis of the dog serum phosphoproteome reveals novel and conserved phosphorylation sites: Phosphoprotein patterns in babesiosis caused by Babesia canis, a case study. PMID:30485286
A rapid computational approach identifies SPICE1 as an Aurora kinase substrate. PMID:30485161
Adipocyte-secreted BMP8b mediates adrenergic-induced remodeling of the neuro-vascular network in adipose tissue. PMID:30478315
Ribosome Stoichiometry: From Form to Function. PMID:30473427
Rotavirus VP3 targets MAVS for degradation to inhibit type III interferon expression in intestinal epithelial cells. PMID:30460894
A Novel Glycoproteomics Workflow Reveals Dynamic O-GlcNAcylation of COPγ1 as a Candidate Regulator of Protein Trafficking. PMID:30459710
Mapping the O-glycoproteome using site-specific extraction of O-linked glycopeptides (EXoO). PMID:30459171
Interaction modulation through arrays of clustered methyl-arginine protein modifications. PMID:30456387
Chronic platelet-derived growth factor receptor signaling exerts control over initiation of protein translation in glioma. PMID:30456354
Targeting CDK9 Reactivates Epigenetically Silenced Genes in Cancer. PMID:30454645
Phosphorylation of Histone H4T80 Triggers DNA Damage Checkpoint Recovery. PMID:30454561
15 years of PhosphoSitePlus®: integrating post-translationally modified sites, disease variants and isoforms. PMID:30445427
Accurate delineation of cell cycle phase transitions in living cells with PIP-FUCCI. PMID:30421640
ALMS1 and Alström syndrome: a recessive form of metabolic, neurosensory and cardiac deficits. PMID:30421101
G protein subunit phosphorylation as a regulatory mechanism in heterotrimeric G protein signaling in mammals, yeast, and plants. PMID:30413679
iProteinDB: An Integrative Database of Drosophila Post-translational Modifications. PMID:30397019
The protein interaction networks of mucolipins and two-pore channels. PMID:30395881
Anticipation of food intake induces phosphorylation switch to regulate basolateral amino acid transporter LAT4 (SLC43A2) function. PMID:30379325
Beclin 1 Phosphorylation - at the Center of Autophagy Regulation. PMID:30370269
The master regulator FUBP1: its emerging role in normal cell function and malignant development. PMID:30343319
Proteomic profiling and functional characterization of post-translational modifications of the fission yeast RNA exosome. PMID:30321377
A type 2 diabetes disease module with a high collective influence for Cdk2 and PTPLAD1 is localized in endosomes. PMID:30300385
Large-scale comparative assessment of computational predictors for lysine post-translational modification sites. PMID:30285084
Cdt1 variants reveal unanticipated aspects of interactions with cyclin/CDK and MCM important for normal genome replication. PMID:30281379
Fyn Regulates Binding Partners of Cyclic-AMP Dependent Protein Kinase A. PMID:30274258
The clinical spectrum of CASQ1-related myopathy. PMID:30258016
Dynamic regulation of dynein localization revealed by small molecule inhibitors of ubiquitination enzymes. PMID:30257893
Cold shock proteins: from cellular mechanisms to pathophysiology and disease. PMID:30257675
Synthesizing Signaling Pathways from Temporal Phosphoproteomic Data. PMID:30257219
A new tool for studying waterfowl immune and metabolic responses: Molecular level analysis using kinome profiling. PMID:30250721
Human MICAL1: Activation by the small GTPase Rab8 and small-angle X-ray scattering studies on the oligomerization state of MICAL1 and its complex with Rab8. PMID:30242933
Serine Phosphorylation by mTORC1 Promotes IRS-1 Degradation through SCFβ-TRCP E3 Ubiquitin Ligase. PMID:30240640
The Human SLC1A5 (ASCT2) Amino Acid Transporter: From Function to Structure and Role in Cell Biology. PMID:30234109
Extracellular Phosphorylation of TIMP-2 by Secreted c-Src Tyrosine Kinase Controls MMP-2 Activity. PMID:30227959
Altered oligomeric states in pathogenic ALS2 variants associated with juvenile motor neuron diseases cause loss of ALS2-mediated endosomal function. PMID:30224357
AWESOME: a database of SNPs that affect protein post-translational modifications. PMID:30215764
Proteomics, Post-translational Modifications, and Integrative Analyses Reveal Molecular Heterogeneity within Medulloblastoma Subgroups. PMID:30205044
Myc-Associated Zinc Finger Protein Regulates the Proinflammatory Response in Colitis and Colon Cancer via STAT3 Signaling. PMID:30181395
The Protein Coded by a Short Open Reading Frame, Not by the Annotated Coding Sequence, Is the Main Gene Product of the Dual-Coding Gene MIEF1. PMID:30181344
PKCε contributes to lipid-induced insulin resistance through cross talk with p70S6K and through previously unknown regulators of insulin signaling. PMID:30181290
Fibroblasts Mobilize Tumor Cell Glycogen to Promote Proliferation and Metastasis. PMID:30174305
Tyrosine Phosphorylation of Mitochondrial Creatine Kinase 1 Enhances a Druggable Tumor Energy Shuttle Pathway. PMID:30174304
The tuberous sclerosis complex subunit TBC1D7 is stabilized by Akt phosphorylation-mediated 14-3-3 binding. PMID:30143532
Proteome-wide analysis of phospho-regulated PDZ domain interactions. PMID:30126976
Maneuvers on PCNA Rings during DNA Replication and Repair. PMID:30126151
A Methodological Assessment and Characterization of Genetically-Driven Variation in Three Human Phosphoproteomes. PMID:30108239
Conservation of kinase-phosphorylation site pairings: Evidence for an evolutionarily dynamic phosphoproteome. PMID:30106995
14-3-3γ binds regulator of G protein signaling 14 (RGS14) at distinct sites to inhibit the RGS14:Gαi-AlF4- signaling complex and RGS14 nuclear localization. PMID:30093406
Non-muscle myosin II drives vesicle loss during human reticulocyte maturation. PMID:30076174
Reconstructing phosphorylation signalling networks from quantitative phosphoproteomic data. PMID:30072490
Pan-Cancer Analysis Reveals the Functional Importance of Protein Lysine Modification in Cancer Development. PMID:30065750
Improved phosphoproteomic analysis for phosphosignaling and active-kinome profiling in Matrigel-embedded spheroids and patient-derived organoids. PMID:30061712
TGIF1 homeodomain interacts with Smad MH1 domain and represses TGF-β signaling. PMID:30060237
HIV-1 Nefs Are Cargo-Sensitive AP-1 Trimerization Switches in Tetherin Downregulation. PMID:30053425
Phosphorylation of synaptic GTPase-activating protein (synGAP) by polo-like kinase (Plk2) alters the ratio of its GAP activity toward HRas, Rap1 and Rap2 GTPases. PMID:30049443
Post-translational modifications at the ATP-positioning G-loop that regulate protein kinase activity. PMID:30048755
The established and the predicted roles of dynein light chain in the regulation of mitochondrial apoptosis. PMID:30019621
Kinome-wide identification of phosphorylation networks in eukaryotic proteomes. PMID:30016513
Deep mutational analysis reveals functional trade-offs in the sequences of EGFR autophosphorylation sites. PMID:30012625
Evolutionary Divergent Suppressor Mutations in Conformational Diseases. PMID:30011855
Network-based approach to prediction and population-based validation of in silico drug repurposing. PMID:30002366
Zyxin promotes colon cancer tumorigenesis in a mitotic phosphorylation-dependent manner and through CDK8-mediated YAP activation. PMID:29967145
Molecular basis of Tousled-Like Kinase 2 activation. PMID:29955062
Post-translational buffering leads to convergent protein expression levels between primates. PMID:29950183
Systems-Based Interactome Analysis for Hematopoiesis Effect of Angelicae sinensis Radix: Regulated Network of Cell Proliferation towards Hemopoiesis. PMID:29943236
Proteomic determination of the lysine acetylome and phosphoproteome in the rat native inner medullary collecting duct. PMID:29932826
Kinase Substrate Profiling Using a Proteome-wide Serine-Oriented Human Peptide Library. PMID:29920078
The dynamic and stress-adaptive signaling hub of 14-3-3: emerging mechanisms of regulation and context-dependent protein-protein interactions. PMID:29915393
Methods and approaches to disease mechanisms using systems kinomics. PMID:29911197
Direct Phosphorylation of SRC Homology 3 Domains by Tyrosine Kinase Receptors Disassembles Ligand-Induced Signaling Networks. PMID:29910111
NDRG1 regulates neutral lipid metabolism in breast cancer cells. PMID:29898756
Encoding human serine phosphopeptides in bacteria for proteome-wide identification of phosphorylation-dependent interactions. PMID:29889213
PTMscape: an open source tool to predict generic post-translational modifications and map modification crosstalk in protein domains and biological processes. PMID:29876573
Melanoma-associated mutants within the serine-rich domain of PAK5 direct kinase activity to mitogenic pathways. PMID:29875996
Genetic Analysis of Rare Human Variants of Regulators of G Protein Signaling Proteins and Their Role in Human Physiology and Disease. PMID:29871944
IUPred2A: context-dependent prediction of protein disorder as a function of redox state and protein binding. PMID:29860432
JAK1-mediated Sirt1 phosphorylation functions as a negative feedback of the JAK1-STAT3 pathway. PMID:29789426
Integration of protein phosphorylation, acetylation, and methylation data sets to outline lung cancer signaling networks. PMID:29789295
Utilizing Optimized Tools to Investigate PTM Crosstalk: Identifying Potential PTM Crosstalk of Acetylated Mitochondrial Proteins. PMID:29786648
Structural basis of O-GlcNAc recognition by mammalian 14-3-3 proteins. PMID:29784830
The BCKDH Kinase and Phosphatase Integrate BCAA and Lipid Metabolism via Regulation of ATP-Citrate Lyase. PMID:29779826
Cyclin-dependent kinase 1 (CDK1) and CDK2 have opposing roles in regulating interactions of splicing factor 3B1 with chromatin. PMID:29764937
Inhibition of interleukin-1 receptor-associated kinase-1 is a therapeutic strategy for acute myeloid leukemia subtypes. PMID:29743719
Streamlined Tandem Mass Tag (SL-TMT) Protocol: An Efficient Strategy for Quantitative (Phospho)proteome Profiling Using Tandem Mass Tag-Synchronous Precursor Selection-MS3. PMID:29734811
The BUB3-BUB1 Complex Promotes Telomere DNA Replication. PMID:29727616
Dissecting Structure-Encoded Determinants of Allosteric Cross-Talk between Post-Translational Modification Sites in the Hsp90 Chaperones. PMID:29720613
Non-canonical activation of DAPK2 by AMPK constitutes a new pathway linking metabolic stress to autophagy. PMID:29717115
Pervasive Protein Thermal Stability Variation during the Cell Cycle. PMID:29706546
Structural analysis of human ARS2 as a platform for co-transcriptional RNA sorting. PMID:29703953
Infection Reveals a Modification of SIRT2 Critical for Chromatin Association. PMID:29694890
Phosphorylation of XIAP at threonine 180 controls its activity in Wnt signaling. PMID:29678905
Phosphoproteomic insights into processes influenced by the kinase-like protein DIA1/C3orf58. PMID:29666759
Proteomic analysis defines kinase taxonomies specific for subtypes of breast cancer. PMID:29643987
Tracing the evolution of the heterotrimeric G protein α subunit in Metazoa. PMID:29642851
Pathogenic Germline Variants in 10,389 Adult Cancers. PMID:29625052
Driver Fusions and Their Implications in the Development and Treatment of Human Cancers. PMID:29617662
L3MBTL2 orchestrates ubiquitin signalling by dictating the sequential recruitment of RNF8 and RNF168 after DNA damage. PMID:29581593
Proteomic Characterization of the Neural Ectoderm Fated Cell Clones in the Xenopus laevis Embryo by High-Resolution Mass Spectrometry. PMID:29578674
Computational modeling suggests impaired interactions between NKX2.5 and GATA4 in individuals carrying a novel pathogenic D16N NKX2.5 mutation. PMID:29568389
The SRC-family tyrosine kinase HCK shapes the landscape of SKAP2 interactome. PMID:29568343
The Catalytically Inactive Mutation of the Ubiquitin-Conjugating Enzyme CDC34 Affects its Stability and Cell Proliferation. PMID:29564676
Protein S-Nitrosylation Controls Glycogen Synthase Kinase 3β Function Independent of Its Phosphorylation State. PMID:29563102
A homologous mapping method for three-dimensional reconstruction of protein networks reveals disease-associated mutations. PMID:29560828
The Role of Post-Translational Modifications on Prion-Like Aggregation and Liquid-Phase Separation of FUS. PMID:29547565
Fine-tuning of substrate preferences of the Src-family kinase Lck revealed through a high-throughput specificity screen. PMID:29547119
Role of novel histone modifications in cancer. PMID:29541423
The Rab11-binding protein RELCH/KIAA1468 controls intracellular cholesterol distribution. PMID:29514919
Phosphoproteomics Analysis Identifies Novel Candidate Substrates of the Nonreceptor Tyrosine Kinase, Src-related Kinase Lacking C-terminal Regulatory Tyrosine and N-terminal Myristoylation Sites (SRMS). PMID:29496907
Integrated in vivo multiomics analysis identifies p21-activated kinase signaling as a driver of colitis. PMID:29487189
First profiling of lysine crotonylation of myofilament proteins and ribosomal proteins in zebrafish embryos. PMID:29483630
Human mitochondrial pyruvate carrier 2 as an autonomous membrane transporter. PMID:29472561
In Vivo Phosphoproteome Analysis Reveals Kinome Reprogramming in Hepatocellular Carcinoma. PMID:29472430
Proteomic identification and characterization of hepatic glyoxalase 1 dysregulation in non-alcoholic fatty liver disease. PMID:29456458
StructureMapper: a high-throughput algorithm for analyzing protein sequence locations in structural data. PMID:29452363
Regulation of eukaryotic elongation factor 1 alpha (eEF1A) by dynamic lysine methylation. PMID:29447067
A single N-terminal phosphomimic disrupts TDP-43 polymerization, phase separation, and RNA splicing. PMID:29438978
RIPK4 activity in keratinocytes is controlled by the SCFβ-TrCP ubiquitin ligase to maintain cortical actin organization. PMID:29435596
A posttranslational modification of the mitotic kinesin Eg5 that enhances its mechanochemical coupling and alters its mitotic function. PMID:29432173
Pi-Pi contacts are an overlooked protein feature relevant to phase separation. PMID:29424691
Troponin through the looking-glass: emerging roles beyond regulation of striated muscle contraction. PMID:29416706
Platelet procoagulant phenotype is modulated by a p38-MK2 axis that regulates RTN4/Nogo proximal to the endoplasmic reticulum: utility of pathway analysis. PMID:29412690
HDAC Inhibition Improves the Sarcoendoplasmic Reticulum Ca2+-ATPase Activity in Cardiac Myocytes. PMID:29385061
Group-I PAKs-mediated phosphorylation of HACE1 at serine 385 regulates its oligomerization state and Rac1 ubiquitination. PMID:29362425
Phosphorylation of the Transient Receptor Potential Ankyrin 1 by Cyclin-dependent Kinase 5 affects Chemo-nociception. PMID:29352128
Phosphoproteomics-Based Profiling of Kinase Activities in Cancer Cells. PMID:29344887
Changes in contractile protein expression are linked to ventricular stiffness in infants with pulmonary hypertension or right ventricular hypertrophy due to congenital heart disease. PMID:29344379
Degradation of FBXO31 by APC/C is regulated by AKT- and ATM-mediated phosphorylation. PMID:29343641
Proteome-Wide Characterization of Phosphorylation-Induced Conformational Changes in Breast Cancer. PMID:29332387
Electrostatic Interactions in Protein Structure, Folding, Binding, and Condensation. PMID:29319301
Characterizing ZC3H18, a Multi-domain Protein at the Interface of RNA Production and Destruction Decisions. PMID:29298432
TG02 inhibits proteasome inhibitor-induced HSF1 serine 326 phosphorylation and heat shock response in multiple myeloma. PMID:29296831
Association of papillomavirus E6 proteins with either MAML1 or E6AP clusters E6 proteins by structure, function, and evolutionary relatedness. PMID:29281732
Live-cell measurements of kinase activity in single cells using translocation reporters. PMID:29266096
Histone deacetylase 6 (HDAC6) deacetylates extracellular signal-regulated kinase 1 (ERK1) and thereby stimulates ERK1 activity. PMID:29259132
Specificity of Phosphorylation Responses to Mitogen Activated Protein (MAP) Kinase Pathway Inhibitors in Melanoma Cells. PMID:29255136
Pharmacogenomics of GPCR Drug Targets. PMID:29249361
3DCONS-DB: A Database of Position-Specific Scoring Matrices in Protein Structures. PMID:29244774
Identification of Candidate Casein Kinase 2 Substrates in Mitosis by Quantitative Phosphoproteomics. PMID:29214152
Unusual zinc-binding mode of HDAC6-selective hydroxamate inhibitors. PMID:29203661
Targeting Oncogenic Transcription Factors: Therapeutic Implications of Endogenous STAT Inhibitors. PMID:29198438
Post-translational regulation of metabolism in fumarate hydratase deficient cancer cells. PMID:29191787
Structural basis for the recognition of kinesin family member 21A (KIF21A) by the ankyrin domains of KANK1 and KANK2 proteins. PMID:29183992
Global profiling of lysine reactivity and ligandability in the human proteome. PMID:29168484
iPTMnet: an integrated resource for protein post-translational modification network discovery. PMID:29145615
Host Methyltransferases and Demethylases: Potential New Epigenetic Targets for HIV Cure Strategies and Beyond. PMID:29140109
Metabolic reprogramming ensures cancer cell survival despite oncogenic signaling blockade. PMID:29138276
Drug target ontology to classify and integrate drug discovery data. PMID:29122012
Re-evaluation of protein kinase CK2 pleiotropy: new insights provided by a phosphoproteomics analysis of CK2 knockout cells. PMID:29119230
Acetylation Regulates Thioredoxin Reductase Oligomerization and Activity. PMID:29117711
ASpedia: a comprehensive encyclopedia of human alternative splicing. PMID:29106599
Design and Profiling of a Subcellular Targeted Optogenetic cAMP-Dependent Protein Kinase. PMID:29104065
Reading m6A in the Transcriptome: m6A-Binding Proteins. PMID:29103884
Structural basis for mutually exclusive co-transcriptional nuclear cap-binding complexes with either NELF-E or ARS2. PMID:29101316
Identification of the PAK4 interactome reveals PAK4 phosphorylation of N-WASP and promotion of Arp2/3-dependent actin polymerization. PMID:29100370
Fyn-dependent phosphorylation of PlexinA1 and PlexinA2 at conserved tyrosines is essential for zebrafish eye development. PMID:29091353
The human transient receptor potential vanilloid 3 channel is sensitized via the ERK pathway. PMID:29084846
Phosphorylation of tight junction transmembrane proteins: Many sites, much to do. PMID:29083946
Prediction of protein disorder based on IUPred. PMID:29076577
Active site-adjacent phosphorylation at Tyr-397 by c-Abl kinase inactivates caspase-9. PMID:29066624
Histidine kinases and the missing phosphoproteome from prokaryotes to eukaryotes. PMID:29058706
MCM2-regulated functional networks in lung cancer by multi-dimensional proteomic approach. PMID:29038488
Phosphoproteomics Reveals Regulatory T Cell-Mediated DEF6 Dephosphorylation That Affects Cytokine Expression in Human Conventional T Cells. PMID:28993769
Improved Method for Determining Absolute Phosphorylation Stoichiometry Using Bayesian Statistics and Isobaric Labeling. PMID:28985074
Proteasome-independent polyubiquitin linkage regulates synapse scaffolding, efficacy, and plasticity. PMID:28973854
A machine learning approach for predicting methionine oxidation sites. PMID:28962549
Converging Small Ubiquitin-like Modifier (SUMO) and Ubiquitin Signaling: Improved Methodology Identifies Co-modified Target Proteins. PMID:28951443
MYO18A: An unusual myosin. PMID:28942352
The spliceosomal proteins PPIH and PRPF4 exhibit bi-partite binding. PMID:28935721
Petri Net-Based Model of Helicobacter pylori Mediated Disruption of Tight Junction Proteins in Stomach Lining during Gastric Carcinoma. PMID:28932213
The mitotic checkpoint complex (MCC): looking back and forth after 15 years. PMID:28920074
Tartrate-resistant acid phosphatase (TRAP/ACP5) promotes metastasis-related properties via TGFβ2/TβR and CD44 in MDA-MB-231 breast cancer cells. PMID:28915803
Predicted Functional Implications of Phosphorylation of Regulator of G Protein Signaling Protein in Plants. PMID:28890722
A study of the structural properties of sites modified by the O-linked 6-N-acetylglucosamine transferase. PMID:28886091
PP2A-B' holoenzyme substrate recognition, regulation and role in cytokinesis. PMID:28884018
Quantitative Phosphoproteomic Analysis Reveals Key Mechanisms of Cellular Proliferation in Liver Cancer Cells. PMID:28883432
Deep Phospho- and Phosphotyrosine Proteomics Identified Active Kinases and Phosphorylation Networks in Colorectal Cancer Cell Lines Resistant to Cetuximab. PMID:28874695
Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells. PMID:28854368
Quantitative phosphoproteomic analysis of acquired cancer drug resistance to pazopanib and dasatinib. PMID:28842319
Constitutive and activation-dependent phosphorylation of lymphocyte phosphatase-associated phosphoprotein (LPAP). PMID:28827793
Integrative Analysis Identifies Four Molecular and Clinical Subsets in Uveal Melanoma. PMID:28810145
Surviving Stress: Modulation of ATF4-Mediated Stress Responses in Normal and Malignant Cells. PMID:28797581
Evolution of the p53-MDM2 pathway. PMID:28774266
Design and Evolution of a Macrocyclic Peptide Inhibitor of the Sonic Hedgehog/Patched Interaction. PMID:28759213
Inferring Methionine Sulfoxidation and serine Phosphorylation crosstalk from Phylogenetic analyses. PMID:28750604
p38 MAPK signaling and phosphorylations in the BRCT1 domain regulate XRCC1 recruitment to sites of DNA damage. PMID:28740101
Cyclin-dependent kinase 1 (CDK1)-mediated mitotic phosphorylation of the transcriptional co-repressor Vgll4 inhibits its tumor-suppressing activity. PMID:28739871
CrossCheck: an open-source web tool for high-throughput screen data analysis. PMID:28724888
Stability of the PHF10 subunit of PBAF signature module is regulated by phosphorylation: role of β-TrCP. PMID:28717195
Selective Affinity Enrichment of Nitrotyrosine-Containing Peptides for Quantitative Analysis in Complex Samples. PMID:28714690
Centriolar Satellites Control GABARAP Ubiquitination and GABARAP-Mediated Autophagy. PMID:28712572
Scalable Text Mining Assisted Curation of Post-Translationally Modified Proteoforms in the Protein Ontology. PMID:28706471
A tail of two voltages: Proteomic comparison of the three electric organs of the electric eel. PMID:28695212
The HDAC inhibitor panobinostat (LBH589) exerts in vivo anti-leukaemic activity against MLL-rearranged acute lymphoblastic leukaemia and involves the RNF20/RNF40/WAC-H2B ubiquitination axis. PMID:28690313
Bcl3 Phosphorylation by Akt, Erk2, and IKK Is Required for Its Transcriptional Activity. PMID:28689659
Allosteric regulation of epigenetic modifying enzymes. PMID:28689145
Isoelectric point-based fractionation by HiRIEF coupled to LC-MS allows for in-depth quantitative analysis of the phosphoproteome. PMID:28674419
Kinase activity ranking using phosphoproteomics data (KARP) quantifies the contribution of protein kinases to the regulation of cell viability. PMID:28674151
Quantitative proteomics identifies altered O-GlcNAcylation of structural, synaptic and memory-associated proteins in Alzheimer's disease. PMID:28657654
mTORC2 Regulates Amino Acid Metabolism in Cancer by Phosphorylation of the Cystine-Glutamate Antiporter xCT. PMID:28648777
Src family kinase phosphorylation of the motor domain of the human kinesin-5, Eg5. PMID:28646493
CTLA-4-mediated posttranslational modifications direct cytotoxic T-lymphocyte differentiation. PMID:28644433
A PLC-γ1 Feedback Pathway Regulates Lck Substrate Phosphorylation at the T-Cell Receptor and SLP-76 Complex. PMID:28644030
Analyses of PDE-regulated phosphoproteomes reveal unique and specific cAMP-signaling modules in T cells. PMID:28634298
Relatively frequent switching of transcription start sites during cerebellar development. PMID:28610618
Data on the association of the nuclear envelope protein Sun1 with nucleoli. PMID:28580408
Myosin Va's adaptor protein melanophilin enforces track selection on the microtubule and actin networks in vitro. PMID:28559319
The p90 ribosomal S6 kinase-UBR5 pathway controls Toll-like receptor signaling via miRNA-induced translational inhibition of tumor necrosis factor receptor-associated factor 3. PMID:28559278
Biological and Physicochemical Functions of Ubiquitylation Revealed by Synthetic Chemistry Approaches. PMID:28555012
Site-specific phosphorylation of casein kinase 1 δ (CK1δ) regulates its activity towards the circadian regulator PER2. PMID:28545154
Assembly of the U5 snRNP component PRPF8 is controlled by the HSP90/R2TP chaperones. PMID:28515276
Tampering with springs: phosphorylation of titin affecting the mechanical function of cardiomyocytes. PMID:28510118
Ezrin interacts with S100A4 via both its N- and C-terminal domains. PMID:28493957
Caught in the act - protein adaptation and the expanding roles of the PACS proteins in tissue homeostasis and disease. PMID:28476937
Highly sensitive and specific protein detection via combined capillary isoelectric focusing and proximity ligation. PMID:28473697
HER2-positive breast cancer cells expressing elevated FAM83A are sensitive to FAM83A loss. PMID:28463969
Methods, Tools and Current Perspectives in Proteogenomics. PMID:28456751
Quantitative cardiac phosphoproteomics profiling during ischemia-reperfusion in an immature swine model. PMID:28455290
The Interplay of Cofactor Interactions and Post-translational Modifications in the Regulation of the AAA+ ATPase p97. PMID:28451587
Chemokine (C-C motif) receptor 7 (CCR7) associates with the tumour immune microenvironment but not progression in invasive breast carcinoma. PMID:28451459
Playing polo during mitosis: PLK1 takes the lead. PMID:28436952
Protein kinase D1 (PKD1) phosphorylation on Ser203 by type I p21-activated kinase (PAK) regulates PKD1 localization. PMID:28408623
Comparative studies of vertebrate iduronate 2-sulfatase (IDS) genes and proteins: evolution of A mammalian X-linked gene. PMID:28401457
A Class of Reactive Acyl-CoA Species Reveals the Non-enzymatic Origins of Protein Acylation. PMID:28380375
MOB1 Mediated Phospho-recognition in the Core Mammalian Hippo Pathway. PMID:28373298
Regulation of Protein Interactions by Mps One Binder (MOB1) Phosphorylation. PMID:28373297
Systematic identification of phosphorylation-mediated protein interaction switches. PMID:28346509
Polo-like kinase-dependent phosphorylation of the synaptonemal complex protein SYP-4 regulates double-strand break formation through a negative feedback loop. PMID:28346135
Integrated Strategies to Gain a Systems-Level View of Dynamic Signaling Networks. PMID:28336062
Estimating the total number of phosphoproteins and phosphorylation sites in eukaryotic proteomes. PMID:28327990
Pulling a Ligase out of a "HAT": pCAF Mediates Ubiquitination of the Class II Transactivator. PMID:28286521
Integrative Proteomics and Phosphoproteomics Profiling Reveals Dynamic Signaling Networks and Bioenergetics Pathways Underlying T Cell Activation. PMID:28285833
Protein Kinase CK2: Intricate Relationships within Regulatory Cellular Networks. PMID:28273877
Molecular Analysis of BRCA1 in Human Breast Cancer Cells Under Oxidative Stress. PMID:28262780
Partial Immunoblotting of 2D-Gels: A Novel Method to Identify Post-Translationally Modified Proteins Exemplified for the Myelin Acetylome. PMID:28248254
Analysis of a cAMP regulated coactivator family reveals an alternative phosphorylation motif for AMPK family members. PMID:28235073
Systematic analysis of non-structural protein features for the prediction of PTM function potential by artificial neural networks. PMID:28225828
Plasmodium falciparum CRK4 directs continuous rounds of DNA replication during schizogony. PMID:28211852
Phosphorylation of zinc channel ZIP7 drives MAPK, PI3K and mTOR growth and proliferation signalling. PMID:28205653
Benchmarking substrate-based kinase activity inference using phosphoproteomic data. PMID:28200105
Multiplexed Phosphoproteomic Profiling Using Titanium Dioxide and Immunoaffinity Enrichments Reveals Complementary Phosphorylation Events. PMID:28171727
Interrogating the hidden phosphoproteome. PMID:28165663
From the research laboratory to the database: the Caenorhabditis elegans kinome in UniProtKB. PMID:28159896
Mitochondrial dynamics in neuronal injury, development and plasticity. PMID:28154157
iPTMnet: Integrative Bioinformatics for Studying PTM Networks. PMID:28150246
Analysis of Protein Phosphorylation and Its Functional Impact on Protein-Protein Interactions via Text Mining of the Scientific Literature. PMID:28150240
Protein Bioinformatics Databases and Resources. PMID:28150231
The Atypical Ubiquitin E2 Conjugase UBE2L3 Is an Indirect Caspase-1 Target and Controls IL-1β Secretion by Inflammasomes. PMID:28147281
Pannexin channel and connexin hemichannel expression in vascular function and inflammation. PMID:28124621
A Golden Age for Working with Public Proteomics Data. PMID:28118949
Epigenetic profiling of human brain differential DNA methylation networks in schizophrenia. PMID:28117656
The novel lysine specific methyltransferase METTL21B affects mRNA translation through inducible and dynamic methylation of Lys-165 in human eukaryotic elongation factor 1 alpha (eEF1A). PMID:28108655
Deep Coverage of Global Protein Expression and Phosphorylation in Breast Tumor Cell Lines Using TMT 10-plex Isobaric Labeling. PMID:28102081
Cushing's syndrome mutant PKAL205R exhibits altered substrate specificity. PMID:28100013
DENEDDYLASE1 Protein Counters Automodification of Neddylating Enzymes to Maintain NEDD8 Protein Homeostasis in Arabidopsis. PMID:28096463
Methionine residues around phosphorylation sites are preferentially oxidized in vivo under stress conditions. PMID:28079140
Phosphoproteomic comparison of Pik3ca and Pten signalling identifies the nucleotidase NT5C as a novel AKT substrate. PMID:28059163
Functional constraints on adaptive evolution of protein ubiquitination sites. PMID:28054638
Mechanisms of Yersinia YopO kinase substrate specificity. PMID:28051168
Regulation and role of post-translational modifications of enhancer of zeste homologue 2 in cancer development. PMID:28042497
A Role for the Twins Protein Phosphatase (PP2A-B55) in the Maintenance of Drosophila Genome Integrity. PMID:28040742
Novel Structural Approaches to Study GPCR Regulation. PMID:28025563
Regulation and Function of Cdt1; A Key Factor in Cell Proliferation and Genome Stability. PMID:28025526
Ubiquitylation Directly Induces Fold Destabilization of Proteins. PMID:27991582
CDK Substrate Phosphorylation and Ordering the Cell Cycle. PMID:27984725
Overexpression of protein kinase STK25 in mice exacerbates ectopic lipid accumulation, mitochondrial dysfunction and insulin resistance in skeletal muscle. PMID:27981357
BRD4 promotes p63 and GRHL3 expression downstream of FOXO in mammary epithelial cells. PMID:27980063
Towards an open grapevine information system. PMID:27917288
The control of inflammation via the phosphorylation and dephosphorylation of tristetraprolin: a tale of two phosphatases. PMID:27911715
The PLK4-STIL-SAS-6 module at the core of centriole duplication. PMID:27911707
An atlas of human kinase regulation. PMID:27909043
Investigating cytokinesis failure as a strategy in cancer therapy. PMID:27895316
Mitochondrial Sirtuin Network Reveals Dynamic SIRT3-Dependent Deacetylation in Response to Membrane Depolarization. PMID:27881304
RNF166 Determines Recruitment of Adaptor Proteins during Antibacterial Autophagy. PMID:27880896
Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry. PMID:27869121
Post-translational modification by acetylation regulates the mitochondrial carnitine/acylcarnitine transport protein. PMID:27864727
K-BILDS: A Kinase Substrate Discovery Tool. PMID:27860220
Extracellular Protein Phosphorylation, the Neglected Side of the Modification. PMID:27834735
Coupling an EML4-ALK-centric interactome with RNA interference identifies sensitizers to ALK inhibitors. PMID:27811184
Calcium is not required for triggering volume restoration in hypotonically challenged A549 epithelial cells. PMID:27796579
Large-Scale Analysis of Breast Cancer-Related Conformational Changes in Proteins Using Limited Proteolysis. PMID:27794609
WERAM: a database of writers, erasers and readers of histone acetylation and methylation in eukaryotes. PMID:27789692
Phosphorylation Regulating the Ratio of Intracellular CRY1 Protein Determines the Circadian Period. PMID:27721804
Crosstalk of HNF4α with extracellular and intracellular signaling pathways in the regulation of hepatic metabolism of drugs and lipids. PMID:27709008
An electrostatic selection mechanism controls sequential kinase signaling downstream of the T cell receptor. PMID:27700984
Proteome-wide Structural Analysis of PTM Hotspots Reveals Regulatory Elements Predicted to Impact Biological Function and Disease. PMID:27697855
Temporal proteomic analysis of HIV infection reveals remodelling of the host phosphoproteome by lentiviral Vif variants. PMID:27690223
The Primary Effect on the Proteome of ARID1A-mutated Ovarian Clear Cell Carcinoma is Downregulation of the Mevalonate Pathway at the Post-transcriptional Level. PMID:27654507
Cannabinoid signalling inhibits sarcoplasmic Ca2+ release and regulates excitation-contraction coupling in mammalian skeletal muscle. PMID:27641745
Proteome complexity and the forces that drive proteome imbalance. PMID:27629639
Cell cycle-dependent phosphorylation of Sec4p controls membrane deposition during cytokinesis. PMID:27621363
Calcineurin Targets Involved in Stress Survival and Fungal Virulence. PMID:27611567
SCAP/SREBP pathway is required for the full steroidogenic response to cyclic AMP. PMID:27601673
Distinct microenvironmental cues stimulate divergent TLR4-mediated signaling pathways in macrophages. PMID:27577261
Substrate Affinity Differentially Influences Protein Kinase C Regulation and Inhibitor Potency. PMID:27555323
Integrating genomic information with protein sequence and 3D atomic level structure at the RCSB protein data bank. PMID:27551105
Topology and structure of an engineered human cohesin complex bound to Pds5B. PMID:27549742
A machine learning strategy for predicting localization of post-translational modification sites in protein-protein interacting regions. PMID:27534850
Rewiring MAP kinases in Saccharomyces cerevisiae to regulate novel targets through ubiquitination. PMID:27525484
Paralog-Specific Patterns of Structural Disorder and Phosphorylation in the Vertebrate SH3-SH2-Tyrosine Kinase Protein Family. PMID:27519537
Phos-tag SDS-PAGE resolves agonist- and isoform-specific activation patterns for PKD2 and PKD3 in cardiomyocytes and cardiac fibroblasts. PMID:27515283
ADPriboDB: The database of ADP-ribosylated proteins. PMID:27507885
Keratins Are Going Nuclear. PMID:27505414
Preclinical models for interrogating drug action in human cancers using Stable Isotope Resolved Metabolomics (SIRM). PMID:27489532
Dynamic phosphorylation of RelA on Ser42 and Ser45 in response to TNFα stimulation regulates DNA binding and transcription. PMID:27466442
Phosphorylation of Cysteine String Protein Triggers a Major Conformational Switch. PMID:27452402
Proteoform-Specific Insights into Cellular Proteome Regulation. PMID:27451424
Proteomic discovery of host kinase signaling in bacterial infections. PMID:27440122
DDK dependent regulation of TOP2A at centromeres revealed by a chemical genetics approach. PMID:27407105
Phosphorylation of residues inside the SNARE complex suppresses secretory vesicle fusion. PMID:27402227
The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins. PMID:27374120
Structural Mechanisms and Drug Discovery Prospects of Rho GTPases. PMID:27304967
Regulating Rho GTPases and their regulators. PMID:27301673
Multiple determinants of splicing repression activity in the polypyrimidine tract binding proteins, PTBP1 and PTBP2. PMID:27288314
Insights into Lysine Deacetylation of Natively Folded Substrate Proteins by Sirtuins. PMID:27226597
Ajuba Phosphorylation by CDK1 Promotes Cell Proliferation and Tumorigenesis. PMID:27226586
FAM83 proteins: Fostering new interactions to drive oncogenic signaling and therapeutic resistance. PMID:27221039
Dysregulated signaling hubs of liver lipid metabolism reveal hepatocellular carcinoma pathogenesis. PMID:27216817
Research Resources for Nuclear Receptor Signaling Pathways. PMID:27216565
Post-translational regulation of the cleaved fragment of Par-4 in ovarian and endometrial cancer cells. PMID:27175591
systemsDock: a web server for network pharmacology-based prediction and analysis. PMID:27131384
VDAC2-specific cellular functions and the underlying structure. PMID:27116927
Unbiased identification of substrates of protein tyrosine phosphatase ptp-3 in C. elegans. PMID:27067626
Computational Analysis of the Predicted Evolutionary Conservation of Human Phosphorylation Sites. PMID:27046079
Decoding Polo-like kinase 1 signaling along the kinetochore-centromere axis. PMID:27043190
Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry. PMID:27018578
dbPAF: an integrative database of protein phosphorylation in animals and fungi. PMID:27010073
Functional Diversification after Gene Duplication: Paralog Specific Regions of Structural Disorder and Phosphorylation in p53, p63, and p73. PMID:27003913
DephosSite: a machine learning approach for discovering phosphotase-specific dephosphorylation sites. PMID:27002216
Novel autophosphorylation sites of Src family kinases regulate kinase activity and SH2 domain-binding capacity. PMID:27001024
Nuclear Localization of the Autism Candidate Gene Neurobeachin and Functional Interaction with the NOTCH1 Intracellular Domain Indicate a Role in Regulating Transcription. PMID:26999814
A phosphotyrosine switch regulates organic cation transporters. PMID:26979622
The current state of the art of quantitative phosphoproteomics and its applications to diabetes research. PMID:26960075
Large-Scale Profiling of Kinase Dependencies in Cancer Cell Lines. PMID:26947069
Structure-Based Identification of HDAC8 Non-histone Substrates. PMID:26933971
An Atlas of the Human Kinome Reveals the Mutational Landscape Underlying Dysregulated Phosphorylation Cascades in Cancer. PMID:26921330
GIV/Girdin (Gα-interacting, Vesicle-associated Protein/Girdin) Creates a Positive Feedback Loop That Potentiates Outside-in Integrin Signaling in Cancer Cells. PMID:26887938
Deubiquitination and Activation of AMPK by USP10. PMID:26876938
In Silico Analysis of the Structural and Biochemical Features of the NMD Factor UPF1 in Ustilago maydis. PMID:26863136
Assays for Posttranslational Modifications of Intermediate Filament Proteins. PMID:26795469
Dephosphorylating eukaryotic RNA polymerase II. PMID:26779935
Tripartite degrons confer diversity and specificity on regulated protein degradation in the ubiquitin-proteasome system. PMID:26732515
Recommendations for the Generation, Quantification, Storage, and Handling of Peptides Used for Mass Spectrometry-Based Assays. PMID:26719571
Quantitative analysis of the interplay between hsc70 and its co-chaperone HspBP1. PMID:26713263
Human Holliday junction resolvase GEN1 uses a chromodomain for efficient DNA recognition and cleavage. PMID:26682650
Systems Proteomics View of the Endogenous Human Claudin Protein Family. PMID:26680015
canSAR: an updated cancer research and drug discovery knowledgebase. PMID:26673713
Polo-like kinase 2 acting as a promoter in human tumor cells with an abundance of TAp73. PMID:26640387
Current and Novel Aspects on the Non-lysosomal β-Glucosylceramidase GBA2. PMID:26603294
Systematic Analysis and Prediction of In Situ Cross Talk of O-GlcNAcylation and Phosphorylation. PMID:26601103
dbPTM 2016: 10-year anniversary of a resource for post-translational modification of proteins. PMID:26578568
p21-activated kinase group II small compound inhibitor GNE-2861 perturbs estrogen receptor alpha signaling and restores tamoxifen-sensitivity in breast cancer cells. PMID:26554417
An update on transcriptional and post-translational regulation of brain voltage-gated sodium channels. PMID:26503606
SIGNOR: a database of causal relationships between biological entities. PMID:26467481
E2 superfamily of ubiquitin-conjugating enzymes: constitutively active or activated through phosphorylation in the catalytic cleft. PMID:26463729
Exploring the potential of public proteomics data. PMID:26449181
The Regulatory Domain of Squalene Monooxygenase Contains a Re-entrant Loop and Senses Cholesterol via a Conformational Change. PMID:26434806
Hyperplasia in glands with hormone excess. PMID:26407873
Characterization of the cardiac succinylome and its role in ischemia-reperfusion injury. PMID:26388266
Posttranslational Regulation of Human DNA Polymerase ι. PMID:26370087
Beads-free protein immunoprecipitation for a mass spectrometry-based interactome and posttranslational modifications analysis. PMID:26336360
PhosphOrtholog: a web-based tool for cross-species mapping of orthologous protein post-translational modifications. PMID:26283093
The Inner Centromere Protein (INCENP) Coil Is a Single α-Helix (SAH) Domain That Binds Directly to Microtubules and Is Important for Chromosome Passenger Complex (CPC) Localization and Function in Mitosis. PMID:26175154
Exploring G protein-coupled receptor signaling networks using SILAC-based phosphoproteomics. PMID:26160508
Study of phosphorylation events for cancer diagnoses and treatment. PMID:26055493
Effect of sialylation on EGFR phosphorylation and resistance to tyrosine kinase inhibition. PMID:25971727
Current strategies and findings in clinically relevant post-translational modification-specific proteomics. PMID:25955281
SELPHI: correlation-based identification of kinase-associated networks from global phospho-proteomics data sets. PMID:25948583
Intersections between mitochondrial sirtuin signaling and tumor cell metabolism. PMID:25898275
Neuroblastoma tyrosine kinase signaling networks involve FYN and LYN in endosomes and lipid rafts. PMID:25884760
Signaling, Regulation, and Specificity of the Type II p21-activated Kinases. PMID:25855792
PhosphoSitePlus: a comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse PubMed citations: 742.

742 articles citing: PhosphoSitePlus: a comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse

KSTAR: An algorithm to predict patient-specific kinase activities from phosphoproteomic data. PMID:35879309
Mini-review: Recent advances in post-translational modification site prediction based on deep learning. PMID:35860402
Posttranslational Regulation of Inflammasomes, Its Potential as Biomarkers and in the Identification of Novel Drugs Targets. PMID:35800898
Time-resolved phosphoproteome and proteome analysis reveals kinase signaling on master transcription factors during myogenesis. PMID:35721465
Identifying Candidate Flavonoids for Non-Alcoholic Fatty Liver Disease by Network-Based Strategy. PMID:35721123
Diet high in branched-chain amino acid promotes PDAC development by USP1-mediated BCAT2 stabilization. PMID:35663242
What Is Parvalbumin for? PMID:35625584
Allosteric regulation controls actin-bundling properties of human plastins. PMID:35589838
Identification of Phosphorylation and Other Post-Translational Modifications in the Central C4C5 Domains of Murine Cardiac Myosin Binding Protein C. PMID:35573219
An atlas of posttranslational modifications on RNA binding proteins. PMID:35438783
STE20 phosphorylation of AMPK-related kinases revealed by biochemical purifications combined with genetics. PMID:35413284
Evaluation of Jumonji C lysine demethylase substrate preference to guide identification of in vitro substrates. PMID:35378885
DOC2b Enhances β-Cell Function via a Novel Tyrosine Phosphorylation-Dependent Mechanism. PMID:35377441
Computational analyses of mechanism of action (MoA): data, methods and integration. PMID:35360890
Temporal dynamics from phosphoproteomics using endoscopic biopsy specimens provides new therapeutic targets in stage IV gastric cancer. PMID:35338158
Epitope-based peptide vaccine design and elucidation of novel compounds against 3C like protein of SARS-CoV-2. PMID:35324925
Protein methylation in mitochondria. PMID:35247388
A human kinase yeast array for the identification of kinases modulating phosphorylation-dependent protein-protein interactions. PMID:35225431
RIF1 acts in DNA repair through phosphopeptide recognition of 53BP1. PMID:35216668
Advanced Glycation End-Products (AGEs) of Lysine and Effects of Anti-TCR/Anti-TNF-α Antibody-Based Therapy in the LEW.1AR1-iddm Rat, an Animal Model of Human Type 1 Diabetes. PMID:35163462
EMBER: Multi-label prediction of kinase-substrate phosphorylation events through deep learning. PMID:35157015
The aqueous humor proteome is intrinsically disordered. PMID:35128080
Functions and Regulation of Translation Elongation Factors. PMID:35127825
Structure-based prediction of HDAC6 substrates validated by enzymatic assay reveals determinants of promiscuity and detects new potential substrates. PMID:35110592
Cytoplasmic switch of ARS2 isoforms promotes nonsense-mediated mRNA decay and arsenic sensitivity. PMID:35104878
Integrin-linked kinase (ILK): the known vs. the unknown and perspectives. PMID:35089438
Erythropoietin Interacts with Specific S100 Proteins. PMID:35053268
Proteome-scale mapping of binding sites in the unstructured regions of the human proteome. PMID:35044719
KANPHOS: A Database of Kinase-Associated Neural Protein Phosphorylation in the Brain. PMID:35011609
Identification of transcriptional regulatory network associated with response of host epithelial cells to SARS-CoV-2. PMID:34907210
PhosPiR: an automated phosphoproteomic pipeline in R. PMID:34882763
Targeted Mass Spectrometry Enables Multiplexed Quantification of Immunomodulatory Proteins in Clinical Biospecimens. PMID:34858420
Multiomic characterization of oncogenic signaling mediated by wild-type and mutant RIT1. PMID:34846918
The Spliced Leader RNA Silencing (SLS) Pathway in Trypanosoma brucei Is Induced by Perturbations of Endoplasmic Reticulum, Golgi Complex, or Mitochondrial Protein Factors: Functional Analysis of SLS-Inducing Kinase PK3. PMID:34844425
Structure, Activity and Function of the Dual Protein Lysine and Protein N-Terminal Methyltransferase METTL13. PMID:34832997
Overexpression of Lin28A in neural progenitor cells in vivo does not lead to brain tumor formation but results in reduced spine density. PMID:34801069
Locally Adjust Networks Based on Connectivity and Semantic Similarities for Disease Module Detection. PMID:34759955
Lysine acetylation regulates the interaction between proteins and membranes. PMID:34753925
Cholesterol Regulates the Tumor Adaptive Resistance to MAPK Pathway Inhibition. PMID:34751028
Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. PMID:34671754
Proteomics analysis identifies PEA-15 as an endosomal phosphoprotein that regulates α5β1 integrin endocytosis. PMID:34615962
The genome of the naturally evolved obesity-prone Ossabaw miniature pig. PMID:34585119
Structural Insights into Protein Regulation by Phosphorylation and Substrate Recognition of Protein Kinases/Phosphatases. PMID:34575106
CAMKK2 regulates mitochondrial function by controlling succinate dehydrogenase expression, post-translational modification, megacomplex assembly, and activity in a cell-type-specific manner. PMID:34563205
Role of protein phosphatase 2A in kidney disease (Review). PMID:34539832
Kinase-Catalyzed Biotinylation to Map Cell Signaling Pathways: Application to Epidermal Growth Factor Signaling. PMID:34491762
The α-Arrestin ARRDC3 Is an Emerging Multifunctional Adaptor Protein in Cancer. PMID:34465145
Mitotic WNT signalling orchestrates neurogenesis in the developing neocortex. PMID:34431536
A global map of associations between types of protein posttranslational modifications and human genetic diseases. PMID:34430807
A proteogenomic portrait of lung squamous cell carcinoma. PMID:34358469
FHL2 anchors mitochondria to actin and adapts mitochondrial dynamics to glucose supply. PMID:34342639
Decoding Post-Translational Modification Crosstalk With Proteomics. PMID:34339852
The secreted tyrosine kinase VLK is essential for normal platelet activation and thrombus formation. PMID:34329392
Tyrosine Phosphoproteomics of Patient-Derived Xenografts Reveals Ephrin Type-B Receptor 4 Tyrosine Kinase as a Therapeutic Target in Pancreatic Cancer. PMID:34298619
Post-Translational Modifications Modulate Proteinopathies of TDP-43, FUS and hnRNP-A/B in Amyotrophic Lateral Sclerosis. PMID:34291086
Possible Therapeutic Strategy Involving the Purine Synthesis Pathway Regulated by ITK in Tongue Squamous Cell Carcinoma. PMID:34283052
Exploiting polypharmacology to dissect host kinases and kinase inhibitors that modulate endothelial barrier integrity. PMID:34216546
Regulation of ubiquitin and ubiquitin-like modifiers by phosphorylation. PMID:34214249
On the Need to Tell Apart Fraternal Twins eEF1A1 and eEF1A2, and Their Respective Outfits. PMID:34203525
Protocol for the processing and downstream analysis of phosphoproteomic data with PhosR. PMID:34151303
Network-based systems pharmacology reveals heterogeneity in LCK and BCL2 signaling and therapeutic sensitivity of T-cell acute lymphoblastic leukemia. PMID:34151288
Development and biological applications of sulfur-triazole exchange (SuTEx) chemistry. PMID:34095850
Evaluating Mechanisms of IDH1 Regulation through Site-Specific Acetylation Mimics. PMID:34065652
Ecm29-Dependent Proteasome Localization Regulates Cytoskeleton Remodeling at the Immune Synapse. PMID:34055780
Large-scale identification of protein histidine methylation in human cells. PMID:34046594
Mechanism of p38 MAPK-induced EGFR endocytosis and its crosstalk with ligand-induced pathways. PMID:34032851
Ovalbumin Antigen-Specific Activation of Human T Cell Receptor Closely Resembles Soluble Antibody Stimulation as Revealed by BOOST Phosphotyrosine Proteomics. PMID:34018748
The Arp2/3 Inhibitory Protein Arpin Is Required for Intestinal Epithelial Barrier Integrity. PMID:34012961
Copy number aberrations drive kinase rewiring, leading to genetic vulnerabilities in cancer. PMID:34010657
AP-3-dependent targeting of flippase ATP8A1 to lamellar bodies suppresses activation of YAP in alveolar epithelial type 2 cells. PMID:33990468
Proteomic Interrogation in Cancer Biomarker. PMID:33983585
Cereblon Regulates the Proteotoxicity of Tau by Tuning the Chaperone Activity of DNAJA1. PMID:33972400
DHODH and cancer: promising prospects to be explored. PMID:33971967
A data-independent acquisition-based global phosphoproteomics system enables deep profiling. PMID:33953186
Prognostic relevance of the hexosamine biosynthesis pathway activation in leiomyosarcoma. PMID:33941787
ERK1/2: An Integrator of Signals That Alters Cardiac Homeostasis and Growth. PMID:33923899
multiSLIDE is a web server for exploring connected elements of biological pathways in multi-omics data. PMID:33863886
A Review of Small-Molecule Inhibitors of One-Carbon Enzymes: SHMT2 and MTHFD2 in the Spotlight. PMID:33860190
Human RecQ Helicases in DNA Double-Strand Break Repair. PMID:33718381
New insights into the molecular mechanisms of axon guidance receptor regulation and signaling. PMID:33706917
Regulation of OATP1B1 Function by Tyrosine Kinase-mediated Phosphorylation. PMID:33664059
System-wide identification and prioritization of enzyme substrates by thermal analysis. PMID:33637753
Spatiotemporal dissection of the cell cycle with single-cell proteogenomics. PMID:33627808
KinPred: A unified and sustainable approach for harnessing proteome-level human kinase-substrate predictions. PMID:33556051
Pro-Resolving FPR2 Agonists Regulate NADPH Oxidase-Dependent Phosphorylation of HSP27, OSR1, and MARCKS and Activation of the Respective Upstream Kinases. PMID:33477989
Kinase-substrate Edge Biomarkers Provide a More Accurate Prognostic Prediction in ER-negative Breast Cancer. PMID:33450402
The Role of Hypoxia-Inducible Factor Post-Translational Modifications in Regulating Its Localisation, Stability, and Activity. PMID:33383924
In Silico Identification of Potential Phosphorylation in the Cytoplasmic Domain of Epithelial Cell Adhesion Molecule. PMID:33324790
Accurate prediction of kinase-substrate networks using knowledge graphs. PMID:33270624
Integrative proteomics reveals principles of dynamic phosphosignaling networks in human erythropoiesis. PMID:33259127
Phosphorylation of the RB C-terminus regulates condensin II release from chromatin. PMID:33219128
The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation. PMID:33184237
Hyperactive CDK2 Activity in Basal-like Breast Cancer Imposes a Genome Integrity Liability that Can Be Exploited by Targeting DNA Polymerase ε. PMID:33152268
Microchip-Based Structure Determination of Disease-Relevant p53. PMID:33124814
GasPhos: Protein Phosphorylation Site Prediction Using a New Feature Selection Approach with a GA-Aided Ant Colony System. PMID:33114312
A Progressive Loss of phosphoSer138-Profilin Aligns with Symptomatic Course in the R6/2 Mouse Model of Huntington's Disease: Possible Sex-Dependent Signaling. PMID:33108594
Purification and Regulation of Pyruvate Kinase from the Foot Muscle of the Anoxia and Freeze Tolerant Marine Snail, Littorina littorea. PMID:33095404
Phosphoproteomics and Bioinformatics Analyses Reveal Key Roles of GSK-3 and AKAP4 in Mouse Sperm Capacitation. PMID:33023073
Stat2 stability regulation: an intersection between immunity and carcinogenesis. PMID:32973222
Targeting Phosphotyrosine in Native Proteins with Conditional, Bispecific Antibody Traps. PMID:32924468
Dynamic remodelling of the human host cell proteome and phosphoproteome upon enterovirus infection. PMID:32859902
Network-based modeling of drug effects on disease module in systemic sclerosis. PMID:32770109
The Chemical Biology of Reversible Lysine Post-translational Modifications. PMID:32698016
Footprint-based functional analysis of multiomic data. PMID:32685770
Profilin: many facets of a small protein. PMID:32661903
Network-based characterization of disease-disease relationships in terms of drugs and therapeutic targets. PMID:32657408
Network-principled deep generative models for designing drug combinations as graph sets. PMID:32657357
Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma. PMID:32649874
Phosphorylation of ACTN4 Leads to Podocyte Vulnerability and Proteinuric Glomerulosclerosis. PMID:32540856
Proteogenomic Characterization of Ovarian HGSC Implicates Mitotic Kinases, Replication Stress in Observed Chromosomal Instability. PMID:32529193
From Beef to Bees: High-Throughput Kinome Analysis to Understand Host Responses of Livestock Species to Infectious Diseases and Industry-Associated Stress. PMID:32499776
dBMHCC: A comprehensive hepatocellular carcinoma (HCC) biomarker database provides a reliable prediction system for novel HCC phosphorylated biomarkers. PMID:32497121
Phosphorylation Sites in Protein Kinases and Phosphatases Regulated by Formyl Peptide Receptor 2 Signaling. PMID:32471307
Proteome-wide identification of arginine methylation in colorectal cancer tissues from patients. PMID:32467672
Intrinsic Disorder in Tetratricopeptide Repeat Proteins. PMID:32466138
CAMKK2-CAMK4 signaling regulates transferrin trafficking, turnover, and iron homeostasis. PMID:32460794
Post-translational Modification Crosstalk and Hotspots in Sirtuin Interactors Implicated in Cardiovascular Diseases. PMID:32425973
Staurosporine and NEM mainly impair WNK-SPAK/OSR1 mediated phosphorylation of KCC2 and NKCC1. PMID:32413057
Bioinformatics Methods for Mass Spectrometry-Based Proteomics Data Analysis. PMID:32326049
Emerging links between endosomal pH and cancer. PMID:32253638
Proteome and Phosphoproteome Analysis of Brown Adipocytes Reveals That RICTOR Loss Dampens Global Insulin/AKT Signaling. PMID:32234964
Quantitative phosphoproteomics to unravel the cellular response to chemical stressors with different modes of action. PMID:32189037
Differential dephosphorylation of CTP:phosphocholine cytidylyltransferase upon translocation to nuclear membranes and lipid droplets. PMID:32186954
Lysine Acetylation Reshapes the Downstream Signaling Landscape of Vav1 in Lymphocytes. PMID:32143292
TGFBR2 mediated phosphorylation of BUB1 at Ser-318 is required for transforming growth factor-β signaling. PMID:32143140
Why and how to investigate the role of protein phosphorylation in ZIP and ZnT zinc transporter activity and regulation. PMID:32076742
The Shb scaffold binds the Nck adaptor protein, p120 RasGAP, and Chimaerins and thereby facilitates heterotypic cell segregation by the receptor EphB2. PMID:32060095
Analysis of Interactions Stabilized by Fusicoccin A Reveals an Expanded Suite of Potential 14-3-3 Binding Partners. PMID:31971771
Murine xenograft bioreactors for human immunopeptidome discovery. PMID:31811195
ERK1/2 Phosphorylation of FHOD Connects Signaling and Nuclear Positioning Alternations in Cardiac Laminopathy. PMID:31794718
Integrating protein localization with automated signaling pathway reconstruction. PMID:31787091
Phosphoproteomic analysis sheds light on intracellular signaling cascades triggered by Formyl-Peptide Receptor 2. PMID:31784636
DNA damage response and repair pathway modulation by non-histone protein methylation: implications in neurodegeneration. PMID:31749026
Interactome of the Autoimmune Risk Protein ANKRD55. PMID:31620119
De novo identification of essential protein domains from CRISPR-Cas9 tiling-sgRNA knockout screens. PMID:31586052
N-GlycositeAtlas: a database resource for mass spectrometry-based human N-linked glycoprotein and glycosylation site mapping. PMID:31516400
Reconstructing signaling pathways using regular language constrained paths. PMID:31510694
Proteomic Analysis of Lipid Rafts from RBL-2H3 Mast Cells. PMID:31405203
A STAT3-based gene signature stratifies glioma patients for targeted therapy. PMID:31399589
Simultaneous precise editing of multiple genes in human cells. PMID:31392986
Identification of lysine methylation in the core GTPase domain by GoMADScan. PMID:31390367
Phosphoproteomics reveals conserved exercise-stimulated signaling and AMPK regulation of store-operated calcium entry. PMID:31381180
Lysine methyltransferase SETD6 modifies histones on a glycine-lysine motif. PMID:31370726
Global view of the RAF-MEK-ERK module and its immediate downstream effectors. PMID:31350469
Impaired plasma membrane localization of ubiquitin ligase complex underlies 3-M syndrome development. PMID:31343991
Human FAM173A is a mitochondrial lysine-specific methyltransferase that targets adenine nucleotide translocase and affects mitochondrial respiration. PMID:31213526
Analysis and prediction of human acetylation using a cascade classifier based on support vector machine. PMID:31208321
Regulated Phosphosignaling Associated with Breast Cancer Subtypes and Druggability. PMID:31196969
Multiomics Profiling Establishes the Polypharmacology of FDA-Approved CDK4/6 Inhibitors and the Potential for Differential Clinical Activity. PMID:31178407
PRISMOID: a comprehensive 3D structure database for post-translational modifications and mutations with functional impact. PMID:31161204
Mapping connections in signaling networks with ambiguous modularity. PMID:31149348
Multi-omic Profiling Reveals Dynamics of the Phased Progression of Pluripotency. PMID:31078527
Conserved phosphorylation hotspots in eukaryotic protein domain families. PMID:31036831
Phosphorylation of a serine/proline-rich motif in oxysterol binding protein-related protein 4L (ORP4L) regulates cholesterol and vimentin binding. PMID:30925160
Proteasome Dependent Actin Remodeling Facilitates Antigen Extraction at the Immune Synapse of B Cells. PMID:30873155
Post-transcriptional regulatory patterns revealed by protein-RNA interactions. PMID:30867517
RAD51D splice variants and cancer-associated mutations reveal XRCC2 interaction to be critical for homologous recombination. PMID:30836272
Prediction of response to anti-cancer drugs becomes robust via network integration of molecular data. PMID:30787419
DYRK1A regulates the recruitment of 53BP1 to the sites of DNA damage in part through interaction with RNF169. PMID:30773093
The arginine methyltransferase PRMT5 and PRMT1 distinctly regulate the degradation of anti-apoptotic protein CFLARL in human lung cancer cells. PMID:30736843
GlyStruct: glycation prediction using structural properties of amino acid residues. PMID:30717650
DOC2B promotes insulin sensitivity in mice via a novel KLC1-dependent mechanism in skeletal muscle. PMID:30707251
Parathyroid hormone initiates dynamic NHERF1 phosphorylation cycling and conformational changes that regulate NPT2A-dependent phosphate transport. PMID:30696771
Structural insights into the tyrosine phosphorylation-mediated inhibition of SH3 domain-ligand interactions. PMID:30659095
KSIMC: Predicting Kinase⁻Substrate Interactions Based on Matrix Completion. PMID:30646505
Determination of host proteins composing the microenvironment of coronavirus replicase complexes by proximity-labeling. PMID:30632963
Multisite Phosphorylation of S6K1 Directs a Kinase Phospho-code that Determines Substrate Selection. PMID:30612880
DeepPhos: prediction of protein phosphorylation sites with deep learning. PMID:30601936
MoMo: discovery of statistically significant post-translational modification motifs. PMID:30596994
Friend or foe-Post-translational modifications as regulators of phase separation and RNP granule dynamics. PMID:30587571
Clinically Relevant Post-Translational Modification Analyses-Maturing Workflows and Bioinformatics Tools. PMID:30577541
A resource of variant effect predictions of single nucleotide variants in model organisms. PMID:30573687
Lysine methylation by the mitochondrial methyltransferase FAM173B optimizes the function of mitochondrial ATP synthase. PMID:30530489
Single-Cell Imaging of Metastatic Potential of Cancer Cells. PMID:30500482
Phosphorylation of Cx43 residue Y313 by Src contributes to blocking the interaction with Drebrin and disassembling gap junctions. PMID:30448479
Critical observations that shaped our understanding of the function(s) of intracellular glycosylation (O-GlcNAc). PMID:30414174
iProteinDB: An Integrative Database of Drosophila Post-translational Modifications. PMID:30397019
qPhos: a database of protein phosphorylation dynamics in humans. PMID:30380102
Application of Proteomics Technologies in Oil Palm Research. PMID:30367348
Oncogenic activation of PI3K induces progenitor cell differentiation to suppress epidermal growth. PMID:30361695
Src kinase phosphorylates Notch1 to inhibit MAML binding. PMID:30341382
SUMOgo: Prediction of sumoylation sites on lysines by motif screening models and the effects of various post-translational modifications. PMID:30341374
Substrate priming enhances phosphorylation by the budding yeast kinases Kin1 and Kin2. PMID:30305396
Context-enriched interactome powered by proteomics helps the identification of novel regulators of macrophage activation. PMID:30303482
Lysine Acetylation Regulates Alanyl-tRNA Synthetase Activity in Escherichia coli. PMID:30274179
Computational comparison of two new fusion proteins for multiple sclerosis. PMID:30271441
Dynamic disulfide exchange in a crystallin protein in the human eye lens promotes cataract-associated aggregation. PMID:30242128
Exome-wide analysis identifies three low-frequency missense variants associated with pancreatic cancer risk in Chinese populations. PMID:30206226
Phosphoregulation of the intracellular termini of K+-Cl- cotransporter 2 (KCC2) enables flexible control of its activity. PMID:30201606
Prediction of Protein Acetylation Sites using Kernel Naive Bayes Classifier Based on Protein Sequences Profiling. PMID:30108418
A Methodological Assessment and Characterization of Genetically-Driven Variation in Three Human Phosphoproteomes. PMID:30108239
Conservation of kinase-phosphorylation site pairings: Evidence for an evolutionarily dynamic phosphoproteome. PMID:30106995
Discerning evolutionary trends in post-translational modification and the effect of intrinsic disorder: Analysis of methylation, acetylation and ubiquitination sites in human proteins. PMID:30096183
Phosphorylation of synaptic GTPase-activating protein (synGAP) by polo-like kinase (Plk2) alters the ratio of its GAP activity toward HRas, Rap1 and Rap2 GTPases. PMID:30049443
Cofilin and profilin: partners in cancer aggressiveness. PMID:30027463
Radio-sensitizing effects of VE-821 and beyond: Distinct phosphoproteomic and metabolomic changes after ATR inhibition in irradiated MOLT-4 cells. PMID:30001349
Affinity switching of the LEDGF/p75 IBD interactome is governed by kinase-dependent phosphorylation. PMID:29997176
PTM-ssMP: A Web Server for Predicting Different Types of Post-translational Modification Sites Using Novel Site-specific Modification Profile. PMID:29989096
Protein phosphatase 2A is crucial for sarcomere organization in Caenorhabditis elegans striated muscle. PMID:29949401
Identification and expression of alternatively spliced novel isoforms of cancer associated MYD88 lacking death domain in mouse. PMID:29948634
Site-specific characterization of endogenous SUMOylation across species and organs. PMID:29942033
Proximal Pathway Enrichment Analysis for Targeting Comorbid Diseases via Network Endopharmacology. PMID:29932108
EviNet: a web platform for network enrichment analysis with flexible definition of gene sets. PMID:29893885
Connexin43 Carboxyl-Terminal Domain Directly Interacts with β-Catenin. PMID:29882937
A systems immunology approach identifies the collective impact of 5 miRs in Th2 inflammation. PMID:29875322
Genetic Analysis of Rare Human Variants of Regulators of G Protein Signaling Proteins and Their Role in Human Physiology and Disease. PMID:29871944
Evaluation of functionality for serine and threonine phosphorylation with different evolutionary ages in human and mouse. PMID:29866046
Cisplatin-induced non-canonical endocytosis of EGFR via p38 phosphorylation of the C-terminal region containing Ser-1015 in non-small cell lung cancer cells. PMID:29805654
Network-Based Disease Module Discovery by a Novel Seed Connector Algorithm with Pathobiological Implications. PMID:29791871
Integration of protein phosphorylation, acetylation, and methylation data sets to outline lung cancer signaling networks. PMID:29789295
Structural basis of O-GlcNAc recognition by mammalian 14-3-3 proteins. PMID:29784830
A proteomics landscape of circadian clock in mouse liver. PMID:29674717
Measuring phenotype-phenotype similarity through the interactome. PMID:29671400
Phosphoproteomic insights into processes influenced by the kinase-like protein DIA1/C3orf58. PMID:29666759
Phosphorylation of xeroderma pigmentosum group C regulates ultraviolet-induced DNA damage repair. PMID:29660033
Small proline-rich protein 2B drives stress-dependent p53 degradation and fibroblast proliferation in heart failure. PMID:29581288
Systematic characterization of pan-cancer mutation clusters. PMID:29572294
Role of novel histone modifications in cancer. PMID:29541423
Protein kinase C: perfectly balanced. PMID:29513138
O-GlcNAc Transferase Recognizes Protein Substrates Using an Asparagine Ladder in the Tetratricopeptide Repeat (TPR) Superhelix. PMID:29485866
A single N-terminal phosphomimic disrupts TDP-43 polymerization, phase separation, and RNA splicing. PMID:29438978
Mechanisms for DNA-damaging agent-induced inactivation of ErbB2 and ErbB3 via the ERK and p38 signaling pathways. PMID:29434871
Pi-Pi contacts are an overlooked protein feature relevant to phase separation. PMID:29424691
An integrative functional genomics framework for effective identification of novel regulatory variants in genome-phenome studies. PMID:29378629
Identifying Novel Signaling Pathways: An Exercise Scientists Guide to Phosphoproteomics. PMID:29346157
ksrMKL: a novel method for identification of kinase-substrate relationships using multiple kernel learning. PMID:29340231
A Novel Phosphorylation Site-Kinase Network-Based Method for the Accurate Prediction of Kinase-Substrate Relationships. PMID:29312990
CIPPN: computational identification of protein pupylation sites by using neural network. PMID:29312575
Interplay between Janus Kinase/Signal Transducer and Activator of Transcription Signaling Activated by Type I Interferons and Viral Antagonism. PMID:29312301
Gene Network Analysis of Interstitial Macrophages After Treatment with Induced Pluripotent Stem Cells Secretome (iPSC-cm) in the Bleomycin Injured Rat Lung. PMID:29256173
MARCKS-related protein regulates cytoskeletal organization at cell-cell and cell-substrate contacts in epithelial cells. PMID:29222109
Recent Advances in Substrate Identification of Protein Kinases in Plants and Their Role in Stress Management. PMID:29204081
Src homology 2 domains enhance tyrosine phosphorylation in vivo by protecting binding sites in their target proteins from dephosphorylation. PMID:29162725
Integrating proteomics with electrochemistry for identifying kinase biomarkers. PMID:29142712
ActiveDriverDB: human disease mutations and genome variation in post-translational modification sites of proteins. PMID:29126202
Predicting CK2 beta-dependent substrates using linear patterns. PMID:29124183
Recent advances in phosphoproteomics and application to neurological diseases. PMID:29094114
Site-specific identification and quantitation of endogenous SUMO modifications under native conditions. PMID:29079793
Sendai virus recruits cellular villin to remodel actin cytoskeleton during fusion with hepatocytes. PMID:29074568
MusiteDeep: a deep-learning framework for general and kinase-specific phosphorylation site prediction. PMID:29036382
LiverWiki: a wiki-based database for human liver. PMID:29029599
Regulation of mitosis-meiosis transition by the ubiquitin ligase β-TrCP in male germ cells. PMID:28982686
MAPPIN: a method for annotating, predicting pathogenicity and mode of inheritance for nonsynonymous variants. PMID:28977528
The ESRP1-GPR137 axis contributes to intestinal pathogenesis. PMID:28975893
Phosphoproteomics Profiling of Nonsmall Cell Lung Cancer Cells Treated with a Novel Phosphatase Activator. PMID:28961369
Phosphoproteome-based kinase activity profiling reveals the critical role of MAP2K2 and PLK1 in neuronal autophagy. PMID:28933595
Uncovering human METTL12 as a mitochondrial methyltransferase that modulates citrate synthase activity through metabolite-sensitive lysine methylation. PMID:28887308
PP2A-B' holoenzyme substrate recognition, regulation and role in cytokinesis. PMID:28884018
eIF4B phosphorylation at Ser504 links synaptic activity with protein translation in physiology and pathology. PMID:28874824
Vertebrate GAF/ThPOK: emerging functions in chromatin architecture and transcriptional regulation. PMID:28856379
Using ALoFT to determine the impact of putative loss-of-function variants in protein-coding genes. PMID:28851873
Alternative splicing discriminates molecular subtypes and has prognostic impact in diffuse large B-cell lymphoma. PMID:28841210
Defining Human Tyrosine Kinase Phosphorylation Networks Using Yeast as an In Vivo Model Substrate. PMID:28837810
Constitutive and activation-dependent phosphorylation of lymphocyte phosphatase-associated phosphoprotein (LPAP). PMID:28827793
Systematic and Quantitative Assessment of Hydrogen Peroxide Reactivity With Cysteines Across Human Proteomes. PMID:28827280
PRmePRed: A protein arginine methylation prediction tool. PMID:28813517
PhosphoPredict: A bioinformatics tool for prediction of human kinase-specific phosphorylation substrates and sites by integrating heterogeneous feature selection. PMID:28761071
Inferring Methionine Sulfoxidation and serine Phosphorylation crosstalk from Phylogenetic analyses. PMID:28750604
The M-phase specific hyperphosphorylation of Staufen2 involved the cyclin-dependent kinase CDK1. PMID:28705199
Linking functions: an additional role for an intrinsically disordered linker domain in the transcriptional coactivator CBP. PMID:28680062
The KSEA App: a web-based tool for kinase activity inference from quantitative phosphoproteomics. PMID:28655153
Quantitative Phosphoproteomics Reveals a Role for Collapsin Response Mediator Protein 2 in PDGF-Induced Cell Migration. PMID:28638064
In silico re-identification of properties of drug target proteins. PMID:28617227
Site-specific incorporation of phosphotyrosine using an expanded genetic code. PMID:28604697
Argininosuccinate synthase 1 is an intrinsic Akt repressor transactivated by p53. PMID:28560349
GLADIATOR: a global approach for elucidating disease modules. PMID:28549478
Methylation of human eukaryotic elongation factor alpha (eEF1A) by a member of a novel protein lysine methyltransferase family modulates mRNA translation. PMID:28520920
Serum Protein Profile in Women With Pregnancy Morbidity Associated With Antiphospholipid Syndrome. PMID:28479750
Prediction of post-translational modification sites using multiple kernel support vector machine. PMID:28462053
Co-occurring protein phosphorylation are functionally associated. PMID:28459814
Into the linker's DENN: A tyrosine's control of autophagy. PMID:28455410
Phosphoproteome Analysis Reveals Differential Mode of Action of Sorafenib in Wildtype and Mutated FLT3 Acute Myeloid Leukemia (AML) Cells. PMID:28450419
PIF* promotes brain re-myelination locally while regulating systemic inflammation- clinically relevant multiple sclerosis M.smegmatis model. PMID:28423529
Identification of protein features encoded by alternative exons using Exon Ontology. PMID:28420690
Hyper-O-GlcNAcylation activates nuclear factor κ-light-chain-enhancer of activated B cells (NF-κB) signaling through interplay with phosphorylation and acetylation. PMID:28416608
Tspan2: a tetraspanin protein involved in oligodendrogenesis and cancer metastasis. PMID:28408487
SLiMSearch: a framework for proteome-wide discovery and annotation of functional modules in intrinsically disordered regions. PMID:28387819
SIRT4 Is a Lysine Deacylase that Controls Leucine Metabolism and Insulin Secretion. PMID:28380376
Tissue-Specific Signaling Networks Rewired by Major Somatic Mutations in Human Cancer Revealed by Proteome-Wide Discovery. PMID:28364002
Systematic identification of phosphorylation-mediated protein interaction switches. PMID:28346509
Architecture and mechanism of the central gear in an ancient molecular timer. PMID:28330987
Deciphering the Acute Cellular Phosphoproteome Response to Irradiation with X-rays, Protons and Carbon Ions. PMID:28302921
SCFFBXO17 E3 ligase modulates inflammation by regulating proteasomal degradation of glycogen synthase kinase-3β in lung epithelia. PMID:28298444
Protein Kinase CK2: Intricate Relationships within Regulatory Cellular Networks. PMID:28273877
Regulation of DENND3, the exchange factor for the small GTPase Rab12 through an intramolecular interaction. PMID:28249939
Phosphoproteome Discovery in Human Biological Fluids. PMID:28248247
A Comprehensive Gene Expression Meta-analysis Identifies Novel Immune Signatures in Rheumatoid Arthritis Patients. PMID:28210261
Stress-induced O-GlcNAcylation: an adaptive process of injured cells. PMID:28202678
Hormonally up-regulated neu-associated kinase: A novel target for breast cancer progression. PMID:28189783
Multiplexed Phosphoproteomic Profiling Using Titanium Dioxide and Immunoaffinity Enrichments Reveals Complementary Phosphorylation Events. PMID:28171727
S. pombe Uba1-Ubc15 Structure Reveals a Novel Regulatory Mechanism of Ubiquitin E2 Activity. PMID:28162934
Decreased Mitochondrial Pyruvate Transport Activity in the Diabetic Heart: ROLE OF MITOCHONDRIAL PYRUVATE CARRIER 2 (MPC2) ACETYLATION. PMID:28154187
The nonreceptor tyrosine kinase c-Src attenuates SCF(β-TrCP) E3-ligase activity abrogating Taz proteasomal degradation. PMID:28154141
Mapping Biological Networks from Quantitative Data-Independent Acquisition Mass Spectrometry: Data to Knowledge Pipelines. PMID:28150249
Assessment of roles for the Rho-specific guanine nucleotide dissociation inhibitor Ly-GDI in platelet function: a spatial systems approach. PMID:28148498
Extracellular Signal-Regulated Kinases 1 and 2 Phosphorylate Gab2 To Promote a Negative-Feedback Loop That Attenuates Phosphoinositide 3-Kinase/Akt Signaling. PMID:28096188
Anillin Phosphorylation Controls Timely Membrane Association and Successful Cytokinesis. PMID:28081137
O-GlcNAcylation of STAT5 controls tyrosine phosphorylation and oncogenic transcription in STAT5-dependent malignancies. PMID:28074064
Structural prediction of the interaction of the tumor suppressor p27KIP1 with cyclin A/CDK2 identifies a novel catalytically relevant determinant. PMID:28056778
Driver gene classification reveals a substantial overrepresentation of tumor suppressors among very large chromatin-regulating proteins. PMID:28008934
Impaired liver regeneration in aged mice can be rescued by silencing Hippo core kinases MST1 and MST2. PMID:27940445
Proteome-Scale Investigation of Protein Allosteric Regulation Perturbed by Somatic Mutations in 7,000 Cancer Genomes. PMID:27939638
PHLPPing through history: a decade in the life of PHLPP phosphatases. PMID:27913677
A Proteomic Approach to Analyze the Aspirin-mediated Lysine Acetylome. PMID:27913581
Feature-based classification of human transcription factors into hypothetical sub-classes related to regulatory function. PMID:27842491
Glucose-regulated and drug-perturbed phosphoproteome reveals molecular mechanisms controlling insulin secretion. PMID:27841257
Roles and regulation of protein phosphatase 2A (PP2A) in the heart. PMID:27832939
A rapid and cost-effective fluorescence detection in tube (FDIT) method to analyze protein phosphorylation. PMID:27822293
Coupling an EML4-ALK-centric interactome with RNA interference identifies sensitizers to ALK inhibitors. PMID:27811184
Multi-OMIC profiling of survival and metabolic signaling networks in cells subjected to photodynamic therapy. PMID:27803950
Phosphorylation of STAT2 on serine-734 negatively regulates the IFN-α-induced antiviral response. PMID:27802159
KAT2A/KAT2B-targeted acetylome reveals a role for PLK4 acetylation in preventing centrosome amplification. PMID:27796307
Regulation of mRNA capping in the cell cycle. PMID:27791484
K-CLASP: A Tool to Identify Phosphosite Specific Kinases and Interacting Proteins. PMID:27726338
GlycoMinestruct: a new bioinformatics tool for highly accurate mapping of the human N-linked and O-linked glycoproteomes by incorporating structural features. PMID:27708373
Regulation of divalent metal transporter-1 by serine phosphorylation. PMID:27681840
Characterization and phosphoproteomic analysis of a human immortalized podocyte model of Fabry disease generated using CRISPR/Cas9 technology. PMID:27681560
Combined Antibody/Lectin Enrichment Identifies Extensive Changes in the O-GlcNAc Sub-proteome upon Oxidative Stress. PMID:27669760
Ultra-deep tyrosine phosphoproteomics enabled by a phosphotyrosine superbinder. PMID:27642862
Nonhistone Lysine Methylation in the Regulation of Cancer Pathways. PMID:27580749
Quantitative profiling of spreading-coupled protein tyrosine phosphorylation in migratory cells. PMID:27554326
Functional characterization of EI24-induced autophagy in the degradation of RING-domain E3 ligases. PMID:27541728
miR-625-3p regulates oxaliplatin resistance by targeting MAP2K6-p38 signalling in human colorectal adenocarcinoma cells. PMID:27526785
Rewiring MAP kinases in Saccharomyces cerevisiae to regulate novel targets through ubiquitination. PMID:27525484
Phosphoproteomics to Characterize Host Response During Influenza A Virus Infection of Human Macrophages. PMID:27486199
PreImplantation factor (PIF) therapy provides comprehensive protection against radiation induced pathologies. PMID:27449294
PredPhos: an ensemble framework for structure-based prediction of phosphorylation sites. PMID:27437197
Temporal Regulation of the Bacillus subtilis Acetylome and Evidence for a Role of MreB Acetylation in Cell Wall Growth. PMID:27376153
The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins. PMID:27374120
Unraveling Kinase Activation Dynamics Using Kinase-Substrate Relationships from Temporal Large-Scale Phosphoproteomics Studies. PMID:27336693
Sequence- and Structure-Based Analysis of Tissue-Specific Phosphorylation Sites. PMID:27332813
A Role for the Chromatin-Remodeling Factor BAZ1A in Neurodevelopment. PMID:27328812
Endophenotype Network Models: Common Core of Complex Diseases. PMID:27278246
Structural Basis of the Recruitment of Ubiquitin-specific Protease USP15 by Spliceosome Recycling Factor SART3. PMID:27255711
Threonine 89 Is an Important Residue of Profilin-1 That Is Phosphorylatable by Protein Kinase A. PMID:27228149
Improved Species-Specific Lysine Acetylation Site Prediction Based on a Large Variety of Features Set. PMID:27183223
Frequent mutations in acetylation and ubiquitination sites suggest novel driver mechanisms of cancer. PMID:27175787
A homology-based pipeline for global prediction of post-translational modification sites. PMID:27174170
Nuclear PKC-θ facilitates rapid transcriptional responses in human memory CD4+ T cells through p65 and H2B phosphorylation. PMID:27149922
KinasePA: Phosphoproteomics data annotation using hypothesis driven kinase perturbation analysis. PMID:27145998
The mitochondrial Ca2+ uniporter: regulation by auxiliary subunits and signal transduction pathways. PMID:27122161
Pooled-matrix protein interaction screens using Barcode Fusion Genetics. PMID:27107012
A metabolic labeling approach for glycoproteomic analysis reveals altered glycoprotein expression upon GALNT3 knockdown in ovarian cancer cells. PMID:27095597
Commercially available antibodies can be applied in quantitative multiplexed peptide immunoaffinity enrichment targeted mass spectrometry assays. PMID:27094115
Controllability analysis of the directed human protein interaction network identifies disease genes and drug targets. PMID:27091990
Prioritizing functional phosphorylation sites based on multiple feature integration. PMID:27090940
Parallel Regulation of von Hippel-Lindau Disease by pVHL-Mediated Degradation of B-Myb and Hypoxia-Inducible Factor α. PMID:27090638
ProViz-a web-based visualization tool to investigate the functional and evolutionary features of protein sequences. PMID:27085803
Regulation of Platelet Derived Growth Factor Signaling by Leukocyte Common Antigen-related (LAR) Protein Tyrosine Phosphatase: A Quantitative Phosphoproteomics Study. PMID:27074791
Time-resolved multimodal analysis of Src Homology 2 (SH2) domain binding in signaling by receptor tyrosine kinases. PMID:27071344
Poly-ubiquitination in TNFR1-mediated necroptosis. PMID:27066894
Induction of Macrophage Function in Human THP-1 Cells Is Associated with Rewiring of MAPK Signaling and Activation of MAP3K7 (TAK1) Protein Kinase. PMID:27066479
The Functional Human C-Terminome. PMID:27050421
Computational Analysis of the Predicted Evolutionary Conservation of Human Phosphorylation Sites. PMID:27046079
Phosphoproteome Analysis of Invasion and Metastasis-Related Factors in Pancreatic Cancer Cells. PMID:27014871
The deubiquitinase Usp27x stabilizes the BH3-only protein Bim and enhances apoptosis. PMID:27013495
Huntingtin's spherical solenoid structure enables polyglutamine tract-dependent modulation of its structure and function. PMID:27003594
A phosphotyrosine switch regulates organic cation transporters. PMID:26979622
The current state of the art of quantitative phosphoproteomics and its applications to diabetes research. PMID:26960075
Phosphorylation and function of DGAT1 in skeletal muscle cells. PMID:26942218
Live imaging of transforming growth factor-β activated kinase 1 activation in Lewis lung carcinoma 3LL cells implanted into syngeneic mice and treated with polyinosinic:polycytidylic acid. PMID:26931406
O-GlcNAcylation: a bridge between glucose and cell differentiation. PMID:26929182
The Functional Significance of Posttranslational Modifications on Polo-Like Kinase 1 Revealed by Chemical Genetic Complementation. PMID:26919439
Deubiquitylation of Protein Cargo Is Not an Essential Step in Exosome Formation. PMID:26884507
Using the CPTAC Assay Portal to Identify and Implement Highly Characterized Targeted Proteomics Assays. PMID:26867747
Multisite tyrosine phosphorylation of the N-terminus of Mint1/X11α by Src kinase regulates the trafficking of amyloid precursor protein. PMID:26865271
ATRIP Deacetylation by SIRT2 Drives ATR Checkpoint Activation by Promoting Binding to RPA-ssDNA. PMID:26854234
The exploration of network motifs as potential drug targets from post-translational regulatory networks. PMID:26853265
Network-based in silico drug efficacy screening. PMID:26831545
Effects of MacroH2A and H2A.Z on Nucleosome Dynamics as Elucidated by Molecular Dynamics Simulations. PMID:26789756
The Shp2-induced epithelial disorganization defect is reversed by HDAC6 inhibition independent of Cdc42. PMID:26783207
Weighing up the possibilities: Controlling translation by ubiquitylation and sumoylation. PMID:26779408
Decreased N-TAF1 expression in X-linked dystonia-parkinsonism patient-specific neural stem cells. PMID:26769797
The upstreams and downstreams of H3K79 methylation by DOT1L. PMID:26728620
Slack sodium-activated potassium channel membrane expression requires p38 mitogen-activated protein kinase phosphorylation. PMID:26721627
Germline BAP1 Mutational Landscape of Asbestos-Exposed Malignant Mesothelioma Patients with Family History of Cancer. PMID:26719535
Identification of significantly mutated regions across cancer types highlights a rich landscape of functional molecular alterations. PMID:26691984
Evidence supporting a critical contribution of intrinsically disordered regions to the biochemical behavior of full-length human HP1γ. PMID:26680990
A two-layered machine learning method to identify protein O-GlcNAcylation sites with O-GlcNAc transferase substrate motifs. PMID:26680539
Common errors in mass spectrometry-based analysis of post-translational modifications. PMID:26667783
A Comparison of the Chicken and Turkey Proteomes and Phosphoproteomes in the Development of Poultry-Specific Immuno-Metabolism Kinome Peptide Arrays. PMID:26664921
Peptide Arrays for Kinome Analysis of Livestock Species. PMID:26664912
Reproducible Analysis of Post-Translational Modifications in Proteomes--Application to Human Mutations. PMID:26659599
Integrated analysis of global proteome, phosphoproteome, and glycoproteome enables complementary interpretation of disease-related protein networks. PMID:26657352
The Cardiac Stress Response Factor Ms1 Can Bind to DNA and Has a Function in the Nucleus. PMID:26656831
Discovery of a nucleocytoplasmic O-mannose glycoproteome in yeast. PMID:26644575
Immobilized Metal Affinity Chromatography Coupled to Multiple Reaction Monitoring Enables Reproducible Quantification of Phospho-signaling. PMID:26621847
Glucose Regulated Protein 78 Phosphorylation in Sperm Undergoes Dynamic Changes during Maturation. PMID:26618558
Evolution of disorder in Mediator complex and its functional relevance. PMID:26590257
Glycogen synthase kinase-3-mediated phosphorylation of serine 73 targets sterol response element binding protein-1c (SREBP-1c) for proteasomal degradation. PMID:26589965
Altered regulation of PDK4 expression promotes antiestrogen resistance in human breast cancer cells. PMID:26576332
Uncovering Phosphorylation-Based Specificities through Functional Interaction Networks. PMID:26572964
EGF-receptor specificity for phosphotyrosine-primed substrates provides signal integration with Src. PMID:26551075
Phosphoproteomics in the Age of Rapid and Deep Proteome Profiling. PMID:26539879
Exploring the phosphoproteome profiles during Xenopus egg activation by calcium stimulation using a fully automated phosphopeptide purification system. PMID:26530081
Germ-line variants identified by next generation sequencing in a panel of estrogen and cancer associated genes correlate with poor clinical outcome in Lynch syndrome patients. PMID:26517685
Regulation of RIPK1's cell death function by phosphorylation. PMID:26516792
TransVar: a multilevel variant annotator for precision genomics. PMID:26513549
Bioinformatics Knowledge Map for Analysis of Beta-Catenin Function in Cancer. PMID:26509276
Evolution of the highly networked deubiquitinating enzymes USP4, USP15, and USP11. PMID:26503449
New Insights into the RNA-Binding and E3 Ubiquitin Ligase Activities of Roquins. PMID:26489670
Changes in Protein Expression and Lysine Acetylation Induced by Decreased Glutathione Levels in Astrocytes. PMID:26486419
Lysine Acetylation of CREBH Regulates Fasting-Induced Hepatic Lipid Metabolism. PMID:26438600
Global Phosphoproteomic Analysis of Human Skeletal Muscle Reveals a Network of Exercise-Regulated Kinases and AMPK Substrates. PMID:26437602
Motifs of VDAC2 required for mitochondrial Bak import and tBid-induced apoptosis. PMID:26417093
Synaptic Effects of Munc18-1 Alternative Splicing in Excitatory Hippocampal Neurons. PMID:26407320
Positive-unlabeled ensemble learning for kinase substrate prediction from dynamic phosphoproteomics data. PMID:26395771
mapDIA: Preprocessing and statistical analysis of quantitative proteomics data from data independent acquisition mass spectrometry. PMID:26381204
CDK1 phosphorylation of TAZ in mitosis inhibits its oncogenic activity. PMID:26375055
Phosphoproteomic analysis reveals Smarcb1 dependent EGFR signaling in Malignant Rhabdoid tumor cells. PMID:26370283
RLIMS-P 2.0: A Generalizable Rule-Based Information Extraction System for Literature Mining of Protein Phosphorylation Information. PMID:26357075
Robust production of recombinant phosphoproteins using cell-free protein synthesis. PMID:26350765
A flexible codon in genomically recoded Escherichia coli permits programmable protein phosphorylation. PMID:26350500
SwissPalm: Protein Palmitoylation database. PMID:26339475
Receptor sequestration in response to β-arrestin-2 phosphorylation by ERK1/2 governs steady-state levels of GPCR cell-surface expression. PMID:26324936
Prediction of Functionally Important Phospho-Regulatory Events in Xenopus laevis Oocytes. PMID:26312481
Advances in computational approaches for prioritizing driver mutations and significantly mutated genes in cancer genomes. PMID:26307061
PhosphOrtholog: a web-based tool for cross-species mapping of orthologous protein post-translational modifications. PMID:26283093
mTOR regulates MAPKAPK2 translation to control the senescence-associated secretory phenotype. PMID:26280535
Label-free quantitative phosphoproteomics with novel pairwise abundance normalization reveals synergistic RAS and CIP2A signaling. PMID:26278961
Global Analysis of Protein Expression and Phosphorylation Levels in Nicotine-Treated Pancreatic Stellate Cells. PMID:26265067
Knowledge-Based Analysis for Detecting Key Signaling Events from Time-Series Phosphoproteomics Data. PMID:26252020
The NHERF2 sequence adjacent and upstream of the ERM-binding domain affects NHERF2-ezrin binding and dexamethasone stimulated NHE3 activity. PMID:26251448
Analysis of Phosphorylation-dependent Protein Interactions of Adhesion and Degranulation Promoting Adaptor Protein (ADAP) Reveals Novel Interaction Partners Required for Chemokine-directed T cell Migration. PMID:26246585
Prediction of human disease-associated phosphorylation sites with combined feature selection approach and support vector machine. PMID:26243832
The PI3K/AKT Pathway and Renal Cell Carcinoma. PMID:26233890
Proteomic Analysis Reveals Distinct Metabolic Differences Between Granulocyte-Macrophage Colony Stimulating Factor (GM-CSF) and Macrophage Colony Stimulating Factor (M-CSF) Grown Macrophages Derived from Murine Bone Marrow Cells. PMID:26229149
Ligand-Binding Affinity at the Insulin Receptor Isoform-A and Subsequent IR-A Tyrosine Phosphorylation Kinetics are Important Determinants of Mitogenic Biological Outcomes. PMID:26217307
The pro-inflammatory cytokine 14-3-3ε is a ligand of CD13 in cartilage. PMID:26208633
Tau post-translational modifications in wild-type and human amyloid precursor protein transgenic mice. PMID:26192747
Atlas of Cancer Signalling Network: a systems biology resource for integrative analysis of cancer data with Google Maps. PMID:26192618
Comprehensive Protein Interactome Analysis of a Key RNA Helicase: Detection of Novel Stress Granule Proteins. PMID:26184334
The Inner Centromere Protein (INCENP) Coil Is a Single α-Helix (SAH) Domain That Binds Directly to Microtubules and Is Important for Chromosome Passenger Complex (CPC) Localization and Function in Mitosis. PMID:26175154
Regulation of Catalytic and Non-catalytic Functions of the Drosophila Ste20 Kinase Slik by Activation Segment Phosphorylation. PMID:26170449
Crucial roles of RSK in cell motility by catalysing serine phosphorylation of EphA2. PMID:26158630
CEP63 deficiency promotes p53-dependent microcephaly and reveals a role for the centrosome in meiotic recombination. PMID:26158450
Systematic Analysis of the Genetic Variability That Impacts SUMO Conjugation and Their Involvement in Human Diseases. PMID:26154679
Interleukin-2 Receptor β Thr-450 Phosphorylation Is a Positive Regulator for Receptor Complex Stability and Activation of Signaling Molecules. PMID:26152718
Akt-mediated phosphorylation controls the activity of the Y-box protein MSY3 in skeletal muscle. PMID:26146542
Phosphoproteomic Analysis of KSHV-Infected Cells Reveals Roles of ORF45-Activated RSK during Lytic Replication. PMID:26133373
A comprehensive quantitative phosphoproteome analysis of rice in response to bacterial blight. PMID:26112675
SH2-PLA: a sensitive in-solution approach for quantification of modular domain binding by proximity ligation and real-time PCR. PMID:26112401
Kinase-interacting substrate screening is a novel method to identify kinase substrates. PMID:26101221
A Comparative Analysis and Review of lysyl Residues Affected by Posttranslational Modifications. PMID:26085811
Nonenzymatic Protein Acetylation Detected by NAPPA Protein Arrays. PMID:26083674
Confrontation of fibroblasts with cancer cells in vitro: gene network analysis of transcriptome changes and differential capacity to inhibit tumor growth. PMID:26081588
Opposing calcium-dependent signalling pathways control skeletal muscle differentiation by regulating a chromatin remodelling enzyme. PMID:26081415
Arginine methylation of HSP70 regulates retinoid acid-mediated RARβ2 gene activation. PMID:26080448
Dynamic Alterations to α-Actinin Accompanying Sarcomere Disassembly and Reassembly during Cardiomyocyte Mitosis. PMID:26076379
System-wide identification of wild-type SUMO-2 conjugation sites. PMID:26073453
Phosphorylation of myosin regulatory light chain controls myosin head conformation in cardiac muscle. PMID:26057075
Global Phosphoproteomic Mapping of Early Mitotic Exit in Human Cells Identifies Novel Substrate Dephosphorylation Motifs. PMID:26055452
Phosphoproteomic Analysis of Cell-Based Resistance to BRAF Inhibitor Therapy in Melanoma. PMID:26029660
Adaptation of HepG2 cells to a steady-state reduction in the content of protein phosphatase 6 (PP6) catalytic subunit. PMID:25999147
Peptide Immunoaffinity Enrichment and Targeted Mass Spectrometry Enables Multiplex, Quantitative Pharmacodynamic Studies of Phospho-Signaling. PMID:25987412
Current strategies and findings in clinically relevant post-translational modification-specific proteomics. PMID:25955281
Large-scale analysis of the evolutionary histories of phosphorylation motifs in the human genome. PMID:25949811
SELPHI: correlation-based identification of kinase-associated networks from global phospho-proteomics data sets. PMID:25948583
MIMP: predicting the impact of mutations on kinase-substrate phosphorylation. PMID:25938373
Comparative proteomic analysis of spermatozoa isolated by swim-up or density gradient centrifugation. PMID:25928042
Degree of recruitment of DOT1L to MLL-AF9 defines level of H3K79 Di- and tri-methylation on target genes and transformation potential. PMID:25921540
The role of Plk3 in oncogenesis. PMID:25915845
Regulation of RAF protein kinases in ERK signalling. PMID:25907612
The Viral G Protein-Coupled Receptor ORF74 Hijacks β-Arrestins for Endocytic Trafficking in Response to Human Chemokines. PMID:25894435
A property-based analysis of human transcription factors. PMID:25890365
Src family kinases interfere with dimerization of STAT5A through a phosphotyrosine-SH2 domain interaction. PMID:25885255
Global quantitative analysis of phosphorylation underlying phencyclidine signaling and sensorimotor gating in the prefrontal cortex. PMID:25869802
Tubulation by amphiphysin requires concentration-dependent switching from wedging to scaffolding. PMID:25865245
Computational prediction of protein-protein interactions. PMID:25859943
A DIseAse MOdule Detection (DIAMOnD) algorithm derived from a systematic analysis of connectivity patterns of disease proteins in the human interactome. PMID:25853560
A Phosphoproteomic Comparison of B-RAFV600E and MKK1/2 Inhibitors in Melanoma Cells. PMID:25850435
Cavin family proteins and the assembly of caveolae. PMID:25829513
A novel role of farnesylation in targeting a mitotic checkpoint protein, human Spindly, to kinetochores. PMID:25825516
A multi-omics approach identifies key hubs associated with cell type-specific responses of airway epithelial cells to staphylococcal alpha-toxin. PMID:25816343
Phospho-tyrosine dependent protein-protein interaction network. PMID:25814554
Large-scale determination of absolute phosphorylation stoichiometries in human cells by motif-targeting quantitative proteomics. PMID:25814448
AKT phosphorylates H3-threonine 45 to facilitate termination of gene transcription in response to DNA damage. PMID:25813038
Phosphorylation and Alternative Splicing of 7B2 Reduce Prohormone Convertase 2 Activation. PMID:25811241
Scalable production in human cells and biochemical characterization of full-length normal and mutant huntingtin. PMID:25799558
Role for Tyrosine Phosphorylation of A-kinase Anchoring Protein 8 (AKAP8) in Its Dissociation from Chromatin and the Nuclear Matrix. PMID:25770215
New potential eukaryotic substrates of the mycobacterial protein tyrosine phosphatase PtpA: hints of a bacterial modulation of macrophage bioenergetics state. PMID:25743628
Loss of MIG6 Accelerates Initiation and Progression of Mutant Epidermal Growth Factor Receptor-Driven Lung Adenocarcinoma. PMID:25735773
Web resources for mass spectrometry-based proteomics. PMID:25721607
Therapeutic opportunities within the DNA damage response. PMID:25709118
Quantitative phosphoproteomics analysis reveals a key role of insulin growth factor 1 receptor (IGF1R) tyrosine kinase in human sperm capacitation. PMID:25693802
The roles of post-translational modifications in the context of protein interaction networks. PMID:25692714
Phosphorylation of targeting protein for Xenopus kinesin-like protein 2 (TPX2) at threonine 72 in spindle assembly. PMID:25688093
Communication between the N and C termini is required for copper-stimulated Ser/Thr phosphorylation of Cu(I)-ATPase (ATP7B). PMID:25666620
A mechanism of global shape-dependent recognition and phosphorylation of filamin by protein kinase A. PMID:25666618
Integrated RNA- and protein profiling of fermentation and respiration in diploid budding yeast provides insight into nutrient control of cell growth and development. PMID:25662576
Binding of Kif23-iso1/CHO1 to 14-3-3 is regulated by sequential phosphorylations at two LATS kinase consensus sites. PMID:25658096
Quantitative proteomics analysis of CaMKII phosphorylation and the CaMKII interactome in the mouse forebrain. PMID:25650780
Visualization of LC-MS/MS proteomics data in MaxQuant. PMID:25644178
Tyrosine phosphorylation of WW proteins. PMID:25627656
Evolutionary constraint and disease associations of post-translational modification sites in human genomes. PMID:25611800
Systematic characterization and prediction of post-translational modification cross-talk. PMID:25605461
TAM receptor signaling in immune homeostasis. PMID:25594431
Tyrosine phosphorylation of the Lyn Src homology 2 (SH2) domain modulates its binding affinity and specificity. PMID:25587033
A novel post-translational modification of nucleolin, SUMOylation at Lys-294, mediates arsenite-induced cell death by regulating gadd45α mRNA stability. PMID:25561743
Altered Transcriptional Control Networks with Trans-Differentiation of Isogenic Mutant-KRas NSCLC Models. PMID:25538889
dbPPT: a comprehensive database of protein phosphorylation in plants. PMID:25534750
Computational methods and opportunities for phosphorylation network medicine. PMID:25530950
Network-based association of hypoxia-responsive genes with cardiovascular diseases. PMID:25530704
Antibody-based detection of protein phosphorylation status to track the efficacy of novel therapies using nanogram protein quantities from stem cells and cell lines. PMID:25521791
Characterization and identification of protein O-GlcNAcylation sites with substrate specificity. PMID:25521204
PhosphoSitePlus, 2014: mutations, PTMs and recalibrations. PMID:25514926
Non-histone protein methylation as a regulator of cellular signalling and function. PMID:25491103
Centralspindlin assembly and 2 phosphorylations on MgcRacGAP by Polo-like kinase 1 initiate Ect2 binding in early cytokinesis. PMID:25486482
Mutation analysis of large tumor suppressor genes LATS1 and LATS2 supports a tumor suppressor role in human cancer. PMID:25482410
Computational phosphoproteomics: from identification to localization. PMID:25475148
Systems Medicine: from molecular features and models to the clinic in COPD. PMID:25471042
Crosstalk between signaling pathways provided by single and multiple protein phosphorylation sites. PMID:25451034
PyTMs: a useful PyMOL plugin for modeling common post-translational modifications. PMID:25431162
Kinetic analysis of BCL11B multisite phosphorylation-dephosphorylation and coupled sumoylation in primary thymocytes by multiple reaction monitoring mass spectroscopy. PMID:25423098
Comparative phosphoproteomic analysis of mammalian glomeruli reveals conserved podocin C-terminal phosphorylation as a determinant of slit diaphragm complex architecture. PMID:25420462
A proteome-scale map of the human interactome network. PMID:25416956
Human METTL20 is a mitochondrial lysine methyltransferase that targets the β subunit of electron transfer flavoprotein (ETFβ) and modulates its activity. PMID:25416781
ProteomeScout: a repository and analysis resource for post-translational modifications and proteins. PMID:25414335
An ERK/Cdk5 axis controls the diabetogenic actions of PPARγ. PMID:25409143
Identifying novel targets of oncogenic EGF receptor signaling in lung cancer through global phosphoproteomics. PMID:25404012
dbSNO 2.0: a resource for exploring structural environment, functional and disease association and regulatory network of protein S-nitrosylation. PMID:25399423
Folic acid deficiency induces premature hearing loss through mechanisms involving cochlear oxidative stress and impairment of homocysteine metabolism. PMID:25384423
A multiscale statistical mechanical framework integrates biophysical and genomic data to assemble cancer networks. PMID:25362484
PTMcode v2: a resource for functional associations of post-translational modifications within and between proteins. PMID:25361965
Integrating phosphoproteomics in systems biology. PMID:25349677
Role for NUP62 depletion and PYK2 redistribution in dendritic retraction resulting from chronic stress. PMID:25349423
CYLD-mediated signaling and diseases. PMID:25342597
Identification of the PLK2-dependent phosphopeptidome by quantitative proteomics [corrected]. PMID:25338102
The human DEPhOsphorylation database DEPOD: a 2015 update. PMID:25332398
Substrate trapping proteomics reveals targets of the βTrCP2/FBXW11 ubiquitin ligase. PMID:25332235
Incorporating computational resources in a cancer research program. PMID:25324189
A comprehensive proteomic and phosphoproteomic analysis of yeast deletion mutants of 14-3-3 orthologs and associated effects of rapamycin. PMID:25315811
Inferring protein modulation from gene expression data using conditional mutual information. PMID:25314274
Testing whether metazoan tyrosine loss was driven by selection against promiscuous phosphorylation. PMID:25312910
Differential regulation of FGFR3 by PTPN1 and PTPN2. PMID:25311528
Ancestral resurrection reveals evolutionary mechanisms of kinase plasticity. PMID:25310241
A clathrin coat assembly role for the muniscin protein central linker revealed by TALEN-mediated gene editing. PMID:25303365
Activation of diverse signalling pathways by oncogenic PIK3CA mutations. PMID:25247763
Distinguishing between driver and passenger mutations in individual cancer genomes by network enrichment analysis. PMID:25236784
Human germline and pan-cancer variomes and their distinct functional profiles. PMID:25232094
Uncovering global SUMOylation signaling networks in a site-specific manner. PMID:25218447
Profiling the tyrosine phosphoproteome of different mouse mammary tumour models reveals distinct, model-specific signalling networks and conserved oncogenic pathways. PMID:25200860
Developmentally-Dynamic Murine Brain Proteomes and Phosphoproteomes Revealed by Quantitative Proteomics. PMID:25177544
MeCP2 post-translational modifications: a mechanism to control its involvement in synaptic plasticity and homeostasis? PMID:25165434
Making proteomics data accessible and reusable: current state of proteomics databases and repositories. PMID:25158685
Asymmetric mRNA localization contributes to fidelity and sensitivity of spatially localized systems. PMID:25150862
The development and application of a quantitative peptide microarray based approach to protein interaction domain specificity space. PMID:25135669
RLIMS-P: an online text-mining tool for literature-based extraction of protein phosphorylation information. PMID:25122463
Mapping of SUMO sites and analysis of SUMOylation changes induced by external stimuli. PMID:25114211
Lean Big Data integration in systems biology and systems pharmacology. PMID:25109570
Heterogeneity of glycolysis in cancers and therapeutic opportunities. PMID:25093285
Interplay of DNA damage and cell cycle signaling at the level of human replication protein A. PMID:25091156
Phosphorylation of unique domains of Src family kinases. PMID:25071818
A novel phosphorylation-independent interaction between SMG6 and UPF1 is essential for human NMD. PMID:25053839
Structure of the DDB1-CRBN E3 ubiquitin ligase in complex with thalidomide. PMID:25043012
Accurate in silico identification of species-specific acetylation sites by integrating protein sequence-derived and functional features. PMID:25042424
Identification of extracellular signal-regulated kinase 1 (ERK1) direct substrates using stable isotope labeled kinase assay-linked phosphoproteomics. PMID:25022875
Investigating co-evolution of functionally associated phosphosites in human. PMID:25005854
Quantitative network mapping of the human kinome interactome reveals new clues for rational kinase inhibitor discovery and individualized cancer therapy. PMID:25003367
Glucose regulates mitochondrial motility via Milton modification by O-GlcNAc transferase. PMID:24995978
Histone H3 lysine 27 acetylation is altered in colon cancer. PMID:24994966
Elucidation of the evolutionary expansion of phosphorylation signaling networks using comparative phosphomotif analysis. PMID:24981518
Boolean ErbB network reconstructions and perturbation simulations reveal individual drug response in different breast cancer cell lines. PMID:24970389
Global discovery of high-NaCl-induced changes of protein phosphorylation. PMID:24965592
Alterations in the cerebellar (Phospho)proteome of a cyclic guanosine monophosphate (cGMP)-dependent protein kinase knockout mouse. PMID:24925903
Nanomechanical property maps of breast cancer cells as determined by multiharmonic atomic force microscopy reveal Syk-dependent changes in microtubule stability mediated by MAP1B. PMID:24914616
The CK1 Family: Contribution to Cellular Stress Response and Its Role in Carcinogenesis. PMID:24904820
Identification of developmentally-specific kinotypes and mechanisms of Varroa mite resistance through whole-organism, kinome analysis of honeybee. PMID:24904639
Heterogeneity of pancreatic cancer metastases in a single patient revealed by quantitative proteomics. PMID:24895378
Tandem mass spectral libraries of peptides in digests of individual proteins: Human Serum Albumin (HSA). PMID:24889059
Surviving the infarct: A profile of cardiac myosin binding protein-C pathogenicity, diagnostic utility, and proteomics in the ischemic myocardium. PMID:24888514
The structural and functional signatures of proteins that undergo multiple events of post-translational modification. PMID:24888500
Studying tumorigenesis through network evolution and somatic mutational perturbations in the cancer interactome. PMID:24881052
GPS-SUMO: a tool for the prediction of sumoylation sites and SUMO-interaction motifs. PMID:24880689
MoDPepInt: an interactive web server for prediction of modular domain-peptide interactions. PMID:24872426
PTM-SD: a database of structurally resolved and annotated posttranslational modifications in proteins. PMID:24857970
Single-step enrichment by Ti4+-IMAC and label-free quantitation enables in-depth monitoring of phosphorylation dynamics with high reproducibility and temporal resolution. PMID:24850871
A novel regulatory locus of phosphorylation in the C terminus of the potassium chloride cotransporter KCC2 that interferes with N-ethylmaleimide or staurosporine-mediated activation. PMID:24849604
Combining affinity proteomics and network context to identify new phosphatase substrates and adapters in growth pathways. PMID:24847354
Survey of phosphorylation near drug binding sites in the Protein Data Bank (PDB) and their effects. PMID:24833420
A Proteome-wide Domain-centric Perspective on Protein Phosphorylation. PMID:24830415
Complexity of metastasis-associated SDF-1 ligand signaling in breast cancer stem cells. PMID:24828528
CaMKII and stress mix it up in mitochondria. PMID:24822046
FMRP S499 is phosphorylated independent of mTORC1-S6K1 activity. PMID:24806451
Phosphokinase antibody arrays on dendron-coated surface. PMID:24802362
Adrenergic signaling regulates mitochondrial Ca2+ uptake through Pyk2-dependent tyrosine phosphorylation of the mitochondrial Ca2+ uniporter. PMID:24800979
A phosphotyrosine switch for cargo sequestration at clathrin-coated buds. PMID:24798335
Cancer-relevant splicing factor CAPERα engages the essential splicing factor SF3b155 in a specific ternary complex. PMID:24795046
Proteome-wide identification of SUMO2 modification sites. PMID:24782567
Classification of intrinsically disordered regions and proteins. PMID:24773235
RegPhos 2.0: an updated resource to explore protein kinase-substrate phosphorylation networks in mammals. PMID:24771658
Signatures of natural selection on mutations of residues with multiple posttranslational modifications. PMID:24739307
Modulation of the chromatin phosphoproteome by the Haspin protein kinase. PMID:24732914
What's that gene (or protein)? Online resources for exploring functions of genes, transcripts, and proteins. PMID:24723265
Ischemia in tumors induces early and sustained phosphorylation changes in stress kinase pathways but does not affect global protein levels. PMID:24719451
Inhibitor of apoptosis-stimulating protein of p53 (iASPP) is required for neuronal survival after axonal injury. PMID:24714389
SysPTM 2.0: an updated systematic resource for post-translational modification. PMID:24705204
Building and exploring an integrated human kinase network: global organization and medical entry points. PMID:24704859
Unraveling the complexities of DNA-dependent protein kinase autophosphorylation. PMID:24687855
PSEA: Kinase-specific prediction and analysis of human phosphorylation substrates. PMID:24681538
Interactome analysis of AMP-activated protein kinase (AMPK)-α1 and -β1 in INS-1 pancreatic beta-cells by affinity purification-mass spectrometry. PMID:24625528
Dynamic phosphorylation of HP1α regulates mitotic progression in human cells. PMID:24619172
Structural interrogation of phosphoproteome identified by mass spectrometry reveals allowed and disallowed regions of phosphoconformation. PMID:24618394
Hsp90-dependent assembly of the DBC2/RhoBTB2-Cullin3 E3-ligase complex. PMID:24608665
LAceP: lysine acetylation site prediction using logistic regression classifiers. PMID:24586884
Incorporating post-translational modifications and unnatural amino acids into high-throughput modeling of protein structures. PMID:24574112
A "SYDE" effect of hierarchical phosphorylation: possible relevance to the cystic fibrosis basic defect. PMID:24566881
Incorporating substrate sequence motifs and spatial amino acid composition to identify kinase-specific phosphorylation sites on protein three-dimensional structures. PMID:24564522
TPX2: of spindle assembly, DNA damage response, and cancer. PMID:24556998
Kdm3a lysine demethylase is an Hsp90 client required for cytoskeletal rearrangements during spermatogenesis. PMID:24554764
Navigating the multilayered organization of eukaryotic signaling: a new trend in data integration. PMID:24550716
Proteomics of a fuzzy organelle: interphase chromatin. PMID:24534090
Phosphoproteomic analysis reveals regulatory mechanisms at the kidney filtration barrier. PMID:24511133
ANIA: ANnotation and Integrated Analysis of the 14-3-3 interactome. PMID:24501395
JMJD6 regulates ERα methylation on arginine. PMID:24498420
Unique functional properties of conserved arginine residues in the lentivirus lytic peptide domains of the C-terminal tail of HIV-1 gp41. PMID:24497632
AMASS: a database for investigating protein structures. PMID:24497503
Functional divergence and evolutionary turnover in mammalian phosphoproteomes. PMID:24465218
Deriving a mutation index of carcinogenicity using protein structure and protein interfaces. PMID:24454733
Lysine deacetylase (KDAC) regulatory pathways: an alternative approach to selective modulation. PMID:24449617
Epigenetic marking of sperm by post-translational modification of histones and protamines. PMID:24443974
A systems toxicology approach identifies Lyn as a key signaling phosphoprotein modulated by mercury in a B lymphocyte cell model. PMID:24440445
The WAVE regulatory complex links diverse receptors to the actin cytoskeleton. PMID:24439376
STAT2 phosphorylation and signaling. PMID:24416652
Polo-like kinase-1 triggers histone phosphorylation by Haspin in mitosis. PMID:24413556
Turning off AKT: PHLPP as a drug target. PMID:24392697
Celiac anti-type 2 transglutaminase antibodies induce phosphoproteome modification in intestinal epithelial Caco-2 cells. PMID:24391952
Regulation of transcription factor activity by interconnected post-translational modifications. PMID:24388790
Identification of a major determinant for serine-threonine kinase phosphoacceptor specificity. PMID:24374310
Signaling regulates activity of DHCR24, the final enzyme in cholesterol synthesis. PMID:24363437
The sirtuins promote Dishevelled-1 scaffolding of TIAM1, Rac activation and cell migration. PMID:24362520
Diverse levels of sequence selectivity and catalytic efficiency of protein-tyrosine phosphatases. PMID:24359314
Using unnatural amino acid mutagenesis to probe the regulation of PRMT1. PMID:24358983
Rapamycin-insensitive mTORC1 activity controls eIF4E:4E-BP1 binding. PMID:24358826
Plakins, a versatile family of cytolinkers: roles in skin integrity and in human diseases. PMID:24352042
Structural propensities of human ubiquitination sites: accessibility, centrality and local conformation. PMID:24349449
Encephalomyocarditis virus leader is phosphorylated by CK2 and syk as a requirement for subsequent phosphorylation of cellular nucleoporins. PMID:24335301
Global screening of CK2 kinase substrates by an integrated phosphoproteomics workflow. PMID:24322422
Dynamic changes in ribosome-associated proteome and phosphoproteome during deoxynivalenol-induced translation inhibition and ribotoxic stress. PMID:24284785
Role of protein tyrosine phosphatases in the modulation of insulin signaling and their implication in the pathogenesis of obesity-linked insulin resistance. PMID:24264858
Mitotic phosphorylation of eukaryotic initiation factor 4G1 (eIF4G1) at Ser1232 by Cdk1:cyclin B inhibits eIF4A helicase complex binding with RNA. PMID:24248602
P³DB 3.0: From plant phosphorylation sites to protein networks. PMID:24243849
Highly homologous eEF1A1 and eEF1A2 exhibit differential post-translational modification with significant enrichment around localised sites of sequence variation. PMID:24220286
BAP1 is phosphorylated at serine 592 in S-phase following DNA damage. PMID:24211834
Endothelin-1 stimulates catalase activity through the PKCδ-mediated phosphorylation of serine 167. PMID:24211614
Regulation of OSR1 and the sodium, potassium, two chloride cotransporter by convergent signals. PMID:24191005
CDK1 stabilizes HIF-1α via direct phosphorylation of Ser668 to promote tumor growth. PMID:24189531
Aggregate-prone R120GCRYAB triggers multifaceted modifications of the thioredoxin system. PMID:24180415
Mechanism and regulation of kinesin-5, an essential motor for the mitotic spindle. PMID:24125467
Phospho-specific antibodies by design. PMID:24104753
Cold shock Y-box protein-1 proteolysis autoregulates its transcriptional activities. PMID:24103640
pLogo: a probabilistic approach to visualizing sequence motifs. PMID:24097270
NDE1 and NDEL1: twin neurodevelopmental proteins with similar 'nature' but different 'nurture'. PMID:24093049
The mutational landscape of phosphorylation signaling in cancer. PMID:24089029
Using biological pathway data with paxtools. PMID:24068901
A C-terminal acidic domain regulates degradation of the transcriptional coactivator Bob1. PMID:24061476
Alternative ways of modulating JAK-STAT pathway: Looking beyond phosphorylation. PMID:24058784
Mutually exclusive acetylation and ubiquitylation among enzymes involved in glucose metabolism. PMID:24052902
RNA polymerase II C-terminal domain: Tethering transcription to transcript and template. PMID:24040939
Ubiquitination site preferences in anaphase promoting complex/cyclosome (APC/C) substrates. PMID:24004664
Combining docking site and phosphosite predictions to find new substrates: identification of smoothelin-like-2 (SMTNL2) as a c-Jun N-terminal kinase (JNK) substrate. PMID:23981301
Proteomics strategies to identify SUMO targets and acceptor sites: a survey of RNA-binding proteins SUMOylation. PMID:23979992
Deacetylase Rpd3 facilitates checkpoint adaptation by preventing Rad53 overactivation. PMID:23979600
Adaptor proteins intersectin 1 and 2 bind similar proline-rich ligands but are differentially recognized by SH2 domain-containing proteins. PMID:23936226
Identification and characterization of a novel human methyltransferase modulating Hsp70 protein function through lysine methylation. PMID:23921388
Coordinate phosphorylation of multiple residues on single AKT1 and AKT2 molecules. PMID:23912456
Kinannote, a computer program to identify and classify members of the eukaryotic protein kinase superfamily. PMID:23904509
Sumoylation at chromatin governs coordinated repression of a transcriptional program essential for cell growth and proliferation. PMID:23893515
AEG-1/MTDH/LYRIC, the beginning: initial cloning, structure, expression profile, and regulation of expression. PMID:23889986
Phosphoproteomic analysis of anaplastic lymphoma kinase (ALK) downstream signaling pathways identifies signal transducer and activator of transcription 3 as a functional target of activated ALK in neuroblastoma cells. PMID:23889739
Pin1 promotes GR transactivation by enhancing recruitment to target genes. PMID:23887939
Interrogating cAMP-dependent kinase signaling in Jurkat T cells via a protein kinase A targeted immune-precipitation phosphoproteomics approach. PMID:23882029
Profiling the substrate specificity of protein kinases by on-bead screening of peptide libraries. PMID:23848432
Phosphorylation of serine 4,642 in the C-terminus of plectin by MNK2 and PKA modulates its interaction with intermediate filaments. PMID:23843618
A genome-wide RNAi screen reveals that mRNA decapping restricts bunyaviral replication by limiting the pools of Dcp2-accessible targets for cap-snatching. PMID:23824541
Early phosphoproteomic changes in the mouse spleen during deoxynivalenol-induced ribotoxic stress. PMID:23811945
ATM and GLUT1-S490 phosphorylation regulate GLUT1 mediated transport in skeletal muscle. PMID:23776597
Tyrosine phosphorylation of the orphan receptor ESDN/DCBLD2 serves as a scaffold for the signaling adaptor CrkL. PMID:23770091
AKT facilitates EGFR trafficking and degradation by phosphorylating and activating PIKfyve. PMID:23757022
Construction of protein phosphorylation networks by data mining, text mining and ontology integration: analysis of the spindle checkpoint. PMID:23749465
Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation. PMID:23749301
A method for systematic mapping of protein lysine methylation identifies functions for HP1β in DNA damage response. PMID:23707759
Controlling cholesterol synthesis beyond 3-hydroxy-3-methylglutaryl-CoA reductase (HMGCR). PMID:23696639
Semi-supervised prediction of SH2-peptide interactions from imbalanced high-throughput data. PMID:23690949
Manipulation of PBF/PTTG1IP phosphorylation status; a potential new therapeutic strategy for improving radioiodine uptake in thyroid and other tumors. PMID:23678037
Phosphoinositide-specific phospholipase C β 1b (PI-PLCβ1b) interactome: affinity purification-mass spectrometry analysis of PI-PLCβ1b with nuclear protein. PMID:23665500
Concise review: pursuing self-renewal and pluripotency with the stem cell factor Nanog. PMID:23653415
Posttranslational modifications of the retinoblastoma tumor suppressor protein as determinants of function. PMID:23634251
Testing for associations between loci and environmental gradients using latent factor mixed models. PMID:23543094
Protein phosphorylation profiling using an in situ proximity ligation assay: phosphorylation of AURKA-elicited EGFR-Thr654 and EGFR-Ser1046 in lung cancer cells. PMID:23520446
Aurora at the pole and equator: overlapping functions of Aurora kinases in the mitotic spindle. PMID:23516109
Mammalian target of rapamycin complex 1 (mTORC1)-mediated phosphorylation stabilizes ISCU protein: implications for iron metabolism. PMID:23508953
The Lipid Transfer Protein StarD7: Structure, Function, and Regulation. PMID:23507753
Dual coordination of post translational modifications in human protein networks. PMID:23505349
The human leukocyte antigen-presented ligandome of B lymphocytes. PMID:23481700
Isobar(PTM): a software tool for the quantitative analysis of post-translationally modified proteins. PMID:23470796
The Thoc1 encoded ribonucleoprotein is a substrate for the NEDD4-1 E3 ubiquitin protein ligase. PMID:23460917
A kinome-wide RNAi screen in Drosophila Glia reveals that the RIO kinases mediate cell proliferation and survival through TORC2-Akt signaling in glioblastoma. PMID:23459592
Regulation of molecular chaperones through post-translational modifications: decrypting the chaperone code. PMID:23459247
Identification of O-linked N-acetylglucosamine (O-GlcNAc)-modified osteoblast proteins by electron transfer dissociation tandem mass spectrometry reveals proteins critical for bone formation. PMID:23443134
Gads (Grb2-related adaptor downstream of Shc) is required for BCR-ABL-mediated lymphoid leukemia. PMID:23399893
Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review. PMID:23384594
Deep proteome profiling of Trichoplax adhaerens reveals remarkable features at the origin of metazoan multicellularity. PMID:23360999
Phosphotyrosine signaling proteins that drive oncogenesis tend to be highly interconnected. PMID:23358503
Goliath family E3 ligases regulate the recycling endosome pathway via VAMP3 ubiquitylation. PMID:23353890
Global protein phosphorylation dynamics during deoxynivalenol-induced ribotoxic stress response in the macrophage. PMID:23352502
Systematic analysis of somatic mutations in phosphorylation signaling predicts novel cancer drivers. PMID:23340843
STOP gene Phactr4 is a tumor suppressor. PMID:23319639
Proteome wide purification and identification of O-GlcNAc-modified proteins using click chemistry and mass spectrometry. PMID:23301498
Using bacteria to determine protein kinase specificity and predict target substrates. PMID:23300758
Regulation of the tumor suppressor PML by sequential post-translational modifications. PMID:23293771
Mammalian α arrestins link activated seven transmembrane receptors to Nedd4 family e3 ubiquitin ligases and interact with β arrestins. PMID:23236378
Transphosphorylation of E. coli Proteins during Production of Recombinant Protein Kinases Provides a Robust System to Characterize Kinase Specificity. PMID:23226150
Fat chance! Getting a grip on a slippery modification. PMID:23215442
D²P²: database of disordered protein predictions. PMID:23203878
DbPTM 3.0: an informative resource for investigating substrate site specificity and functional association of protein post-translational modifications. PMID:23193290
PTMcode: a database of known and predicted functional associations between post-translational modifications in proteins. PMID:23193284
Dab1 stabilizes its interaction with Cin85 by suppressing Cin85 phosphorylation at serine 587. PMID:23178720
Position-specific analysis and prediction for protein lysine acetylation based on multiple features. PMID:23173045
Gains of ubiquitylation sites in highly conserved proteins in the human lineage. PMID:23157318
The high mobility group box: the ultimate utility player of a cell. PMID:23153957
The ConsensusPathDB interaction database: 2013 update. PMID:23143270
An assignment of intrinsically disordered regions of proteins based on NMR structures. PMID:23142703
Mitochondrial phosphorylation in apoptosis: flipping the death switch. PMID:23088365
An N-terminal, 830 residues intrinsically disordered region of the cytoskeleton-regulatory protein supervillin contains Myosin II- and F-actin-binding sites. PMID:23075227
Site-specific quantitative analysis of cardiac mitochondrial protein phosphorylation. PMID:23022582
Multiscale models of breast cancer progression. PMID:23008097
Charting the landscape of tandem BRCT domain-mediated protein interactions. PMID:22990118
P(3)DB: An Integrated Database for Plant Protein Phosphorylation. PMID:22973285
Investigation of receptor interacting protein (RIP3)-dependent protein phosphorylation by quantitative phosphoproteomics. PMID:22942356
Mutational properties of amino acid residues: implications for evolvability of phosphorylatable residues. PMID:22889909
Discovery of O-GlcNAc-6-phosphate modified proteins in large-scale phosphoproteomics data. PMID:22826440
Phosphorylation of claudin-2 on serine 208 promotes membrane retention and reduces trafficking to lysosomes. PMID:22825868
Functional interplay between caspase cleavage and phosphorylation sculpts the apoptotic proteome. PMID:22817901
Strategies to Identify Recognition Signals and Targets of SUMOylation. PMID:22811915
Prediction of functional phosphorylation sites by incorporating evolutionary information. PMID:22802047
The application of modular protein domains in proteomics. PMID:22710164
Discovery of O-GlcNAc-modified proteins in published large-scale proteome data. PMID:22661428
Linear motifs confer functional diversity onto splice variants. PMID:22638587
The human phosphatase interactome: An intricate family portrait. PMID:22626554
Molecular mechanisms of prolactin and its receptor. PMID:22577091
Modification site localization scoring: strategies and performance. PMID:22328712
PhosphoSite: A bioinformatics resource dedicated to physiological protein phosphorylation PubMed citations: 278.

278 articles citing: PhosphoSite: A bioinformatics resource dedicated to physiological protein phosphorylation

STIM and Orai Mediated Regulation of Calcium Signaling in Age-Related Diseases. PMID:35821821
RCAN1-mediated calcineurin inhibition as a target for cancer therapy. PMID:35717152
Cancer-cell-secreted miR-122 suppresses O-GlcNAcylation to promote skeletal muscle proteolysis. PMID:35469018
TransPhos: A Deep-Learning Model for General Phosphorylation Site Prediction Based on Transformer-Encoder Architecture. PMID:35457080
Integrative proteomic characterization of trace FFPE samples in early-stage gastrointestinal cancer. PMID:35397555
Clonally expanded B cells in multiple sclerosis bind EBV EBNA1 and GlialCAM. PMID:35073561
Current status of PTMs structural databases: applications, limitations and prospects. PMID:35020020
Calcineurin in the heart: New horizons for an old friend. PMID:34454008
CCD2: design constructs for protein expression, the easy way. PMID:34342272
Pathogenic missense protein variants affect different functional pathways and proteomic features than healthy population variants. PMID:33909605
Upregulated Tripartite Motif 47 Could Facilitate Glioma Cell Proliferation and Metastasis as a Tumorigenesis Promoter. PMID:33833824
Histamine, Metabolic Remodelling and Angiogenesis: A Systems Level Approach. PMID:33799732
Posttranslational Modifications of Smurfs: Emerging Regulation in Cancer. PMID:33718111
leapR: An R Package for Multiomic Pathway Analysis. PMID:33703901
Phospho-Form Specific Substrates of Protein Kinase B (AKT1). PMID:33614606
14-3-3 Proteins: Novel Pharmacological Targets in Neurodegenerative Diseases. PMID:33518287
FLEXIQuant-LF to quantify protein modification extent in label-free proteomics data. PMID:33284109
Pharmacological and phosphoproteomic approaches to roles of protein kinase C in kappa opioid receptor-mediated effects in mice. PMID:32976891
The structure of the RCAN1:CN complex explains the inhibition of and substrate recruitment by calcineurin. PMID:32936779
Adenosine-Induced NLRP11 in B Lymphoblasts Suppresses Human CD4+ T Helper Cell Responses. PMID:32832566
Exploring protein phosphorylation by combining computational approaches and biochemical methods. PMID:32728408
Structural biology of DNA abasic site protection by SRAP proteins. PMID:32663791
Targeting ERK-Hippo Interplay in Cancer Therapy. PMID:32375238
Structure of the ALS Mutation Target Annexin A11 Reveals a Stabilising N-Terminal Segment. PMID:32344647
Molecular Basis of the Mechanisms Controlling MASTL. PMID:31852836
TBKBP1 and TBK1 form a growth factor signalling axis mediating immunosuppression and tumourigenesis. PMID:31792381
Insights into evolutionary interaction patterns of the 'Phosphorylation Activation Segment' in kinase. PMID:31787816
Inorganic Polyphosphates As Storage for and Generator of Metabolic Energy in the Extracellular Matrix. PMID:31738523
Broad Substrate-Specific Phosphorylation Events Are Associated With the Initial Stage of Plant Cell Wall Recognition in Neurospora crassa. PMID:31736884
Mutation of the PTCH1 gene predicts recurrence of breast cancer. PMID:31704974
TBK1 Limits mTORC1 by Promoting Phosphorylation of Raptor Ser877. PMID:31530866
A systematic approach to orient the human protein-protein interaction network. PMID:31289271
Structural determinants and genetic modifications enhance BMP2 stability and extracellular secretion. PMID:31225515
Phosphorylation-mediated interactions with TOPBP1 couple 53BP1 and 9-1-1 to control the G1 DNA damage checkpoint. PMID:31135337
Regulation of Microtubule Nucleation in Mouse Bone Marrow-Derived Mast Cells by Protein Tyrosine Phosphatase SHP-1. PMID:30979083
iDEP: an integrated web application for differential expression and pathway analysis of RNA-Seq data. PMID:30567491
Single-Cell Imaging of Metastatic Potential of Cancer Cells. PMID:30500482
15 years of PhosphoSitePlus®: integrating post-translationally modified sites, disease variants and isoforms. PMID:30445427
Proteome-wide analysis of phospho-regulated PDZ domain interactions. PMID:30126976
BioMuta and BioXpress: mutation and expression knowledgebases for cancer biomarker discovery. PMID:30053270
Genetically Encoded Protein Phosphorylation in Mammalian Cells. PMID:29937407
Post-translational modifications in DNA topoisomerase 2α highlight the role of a eukaryote-specific residue in the ATPase domain. PMID:29915179
Novel hyperoxidation resistance motifs in 2-Cys peroxiredoxins. PMID:29884768
Structural basis of O-GlcNAc recognition by mammalian 14-3-3 proteins. PMID:29784830
Endoplasmic reticulum stress activates SRC, relocating chaperones to the cell surface where GRP78/CD109 blocks TGF-β signaling. PMID:29654145
Phosphorylation of conserved phosphoinositide binding pocket regulates sorting nexin membrane targeting. PMID:29520003
Comparative phosphoproteomic analysis reveals signaling networks regulating monopolar and bipolar cytokinesis. PMID:29396449
The prolyl isomerase FKBP25 regulates microtubule polymerization impacting cell cycle progression and genomic stability. PMID:29361176
Investigation and identification of functional post-translational modification sites associated with drug binding and protein-protein interactions. PMID:29322920
A 1-phytase type III effector interferes with plant hormone signaling. PMID:29255246
Cryptogenic cholestasis in young and adults: ATP8B1, ABCB11, ABCB4, and TJP2 gene variants analysis by high-throughput sequencing. PMID:29238877
Phosphorylation of the Unique C-Terminal Tail of the Alpha Isoform of the Scaffold Protein SH2B1 Controls the Ability of SH2B1α To Enhance Nerve Growth Factor Function. PMID:29229648
Minimotif Miner 4: a million peptide minimotifs and counting. PMID:29140456
Progesterone receptor membrane component 1 is phosphorylated upon progestin treatment in breast cancer cells. PMID:29069804
Functional Genomics Approach Identifies Novel Signaling Regulators of TGFα Ectodomain Shedding. PMID:29018056
RNA guanine-7 methyltransferase catalyzes the methylation of cytoplasmically recapped RNAs. PMID:28981715
Systems-level identification of PKA-dependent signaling in epithelial cells. PMID:28973931
Investigation of N-Terminal Phospho-Regulation of Uracil DNA Glycosylase Using Protein Semisynthesis. PMID:28746850
An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes. PMID:28601559
Regulation of Ste20-like kinase, SLK, activity: Dimerization and activation segment phosphorylation. PMID:28475647
Protein post-translational modifications: In silico prediction tools and molecular modeling. PMID:28458782
Mcm10: A Dynamic Scaffold at Eukaryotic Replication Forks. PMID:28218679
Multiplexed Phosphoproteomic Profiling Using Titanium Dioxide and Immunoaffinity Enrichments Reveals Complementary Phosphorylation Events. PMID:28171727
Cardiovascular proteomics in the era of big data: experimental and computational advances. PMID:27980500
Cell Entry of C3 Exoenzyme from Clostridium botulinum. PMID:27832378
Discovery of new substrates of the elongation factor-2 kinase suggests a broader role in the cellular nutrient response. PMID:27760376
Integrative proteomic analysis reveals reprograming tumor necrosis factor signaling in epithelial mesenchymal transition. PMID:27461979
Modelling with ANIMO: between fuzzy logic and differential equations. PMID:27460034
PGRMC1 regulation by phosphorylation: potential new insights in controlling biological activity. PMID:27448967
Intrinsic Disorder in Transmembrane Proteins: Roles in Signaling and Topology Prediction. PMID:27391701
Identification of Phosphorylated Cyclin-Dependent Kinase 1 Associated with Colorectal Cancer Survival Using Label-Free Quantitative Analyses. PMID:27383761
The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins. PMID:27374120
Cacidases: caspases can cleave after aspartate, glutamate and phosphoserine residues. PMID:27367566
TNF-insulin crosstalk at the transcription factor GATA6 is revealed by a model that links signaling and transcriptomic data tensors. PMID:27273097
The mitochondrial Ca2+ uniporter: regulation by auxiliary subunits and signal transduction pathways. PMID:27122161
Computational Analysis of the Predicted Evolutionary Conservation of Human Phosphorylation Sites. PMID:27046079
Prediction and verification of novel peptide targets of protein tyrosine phosphatase 1B. PMID:27025565
dbPAF: an integrative database of protein phosphorylation in animals and fungi. PMID:27010073
An extended set of yeast-based functional assays accurately identifies human disease mutations. PMID:26975778
Insulin receptor substrate 1 is a substrate of the Pim protein kinases. PMID:26956053
Structure-Based Identification of HDAC8 Non-histone Substrates. PMID:26933971
Reduced-representation Phosphosignatures Measured by Quantitative Targeted MS Capture Cellular States and Enable Large-scale Comparison of Drug-induced Phenotypes. PMID:26912667
A truncated phosphorylated p130Cas substrate domain is sufficient to drive breast cancer growth and metastasis formation in vivo. PMID:26867768
Simvastatin Sodium Salt and Fluvastatin Interact with Human Gap Junction Gamma-3 Protein. PMID:26863535
Comparative Phosphoproteomics Analysis of VEGF and Angiopoietin-1 Signaling Reveals ZO-1 as a Critical Regulator of Endothelial Cell Proliferation. PMID:26846344
Cloning of two LIMCH1 isoforms: characterization of their distribution in rat brain and their agmatinase activity. PMID:26678503
Genome-wide identification of Wig-1 mRNA targets by RIP-Seq analysis. PMID:26672765
Reproducible Analysis of Post-Translational Modifications in Proteomes--Application to Human Mutations. PMID:26659599
Quantitative Profiling of Post-translational Modifications by Immunoaffinity Enrichment and LC-MS/MS in Cancer Serum without Immunodepletion. PMID:26635363
Lysine-acetylation as a fundamental regulator of Ran function: Implications for signaling of proteins of the Ras-superfamily. PMID:26507377
Kinome-wide decoding of network-attacking mutations rewiring cancer signaling. PMID:26388441
Class III PI3K regulates organismal glucose homeostasis by providing negative feedback on hepatic insulin signalling. PMID:26387534
PhosphOrtholog: a web-based tool for cross-species mapping of orthologous protein post-translational modifications. PMID:26283093
Conserved Functional Motifs and Homology Modeling to Predict Hidden Moonlighting Functional Sites. PMID:26106597
Visualisation of BioPAX Networks using BioLayout Express (3D). PMID:25949802
PEIMAN 1.0: Post-translational modification Enrichment, Integration and Matching ANalysis. PMID:25911152
A mass spectrometric-derived cell surface protein atlas. PMID:25894527
Comprehensive data resources and analytical tools for pathological association of aminoacyl tRNA synthetases with cancer. PMID:25824651
Protein domain-level landscape of cancer-type-specific somatic mutations. PMID:25794154
Proteome-wide lysine acetylation in cortical astrocytes and alterations that occur during infection with brain parasite Toxoplasma gondii. PMID:25786129
14-3-3-Pred: improved methods to predict 14-3-3-binding phosphopeptides. PMID:25735772
Crosstalk between Edc4 and mammalian target of rapamycin complex 1 (mTORC1) signaling in mRNA decapping. PMID:25514416
Specificity analysis of protein lysine methyltransferases using SPOT peptide arrays. PMID:25489813
An improved single-chain Fab platform for efficient display and recombinant expression. PMID:25481745
Systematic analysis of the in situ crosstalk of tyrosine modifications reveals no additional natural selection on multiply modified residues. PMID:25476580
Abundance-based classifier for the prediction of mass spectrometric peptide detectability upon enrichment (PPA). PMID:25473088
Proteomics for systems toxicology. PMID:25379146
Sequential enrichment with titania-coated magnetic mesoporous hollow silica microspheres and zirconium arsenate-modified magnetic nanoparticles for the study of phosphoproteome of HL60 cells. PMID:25262027
A quantitative 14-3-3 interaction screen connects the nuclear exosome targeting complex to the DNA damage response. PMID:25189701
A secreted tyrosine kinase acts in the extracellular environment. PMID:25171405
The reduced kinome of Ostreococcus tauri: core eukaryotic signalling components in a tractable model species. PMID:25085202
Fin whale MDH-1 and MPI allozyme variation is not reflected in the corresponding DNA sequences. PMID:24963377
Identification of developmentally-specific kinotypes and mechanisms of Varroa mite resistance through whole-organism, kinome analysis of honeybee. PMID:24904639
Survey of phosphorylation near drug binding sites in the Protein Data Bank (PDB) and their effects. PMID:24833420
Structurally distinct Ca(2+) signaling domains of sperm flagella orchestrate tyrosine phosphorylation and motility. PMID:24813608
Functional module search in protein networks based on semantic similarity improves the analysis of proteomics data. PMID:24807868
Adrenergic signaling regulates mitochondrial Ca2+ uptake through Pyk2-dependent tyrosine phosphorylation of the mitochondrial Ca2+ uniporter. PMID:24800979
Human UTY(KDM6C) is a male-specific Nϵ-methyl lysyl demethylase. PMID:24798337
A phosphotyrosine switch for cargo sequestration at clathrin-coated buds. PMID:24798335
Structural basis for phosphorylation-dependent recruitment of Tel2 to Hsp90 by Pih1. PMID:24794838
Classification of intrinsically disordered regions and proteins. PMID:24773235
A mitochondrial RNAi screen defines cellular bioenergetic determinants and identifies an adenylate kinase as a key regulator of ATP levels. PMID:24767988
Characterization of LGALS3 (galectin-3) as a player in DNA damage response. PMID:24755837
OCT1 is a determinant of synbindin-related ERK signalling with independent prognostic significance in gastric cancer. PMID:24717932
Kinase-independent mechanisms of resistance of leukemia stem cells to tyrosine kinase inhibitors. PMID:24598782
Post-translational modifications of intermediate filament proteins: mechanisms and functions. PMID:24556839
Kinome and mRNA expression profiling of high-grade osteosarcoma cell lines implies Akt signaling as possible target for therapy. PMID:24447333
The N terminus of SKAP55 enables T cell adhesion to TCR and integrin ligands via distinct mechanisms. PMID:24368808
Analysis of Cdk5-related phosphoproteomics in growth cones. PMID:24234032
Status of large-scale analysis of post-translational modifications by mass spectrometry. PMID:24187339
Cargo recognition in clathrin-mediated endocytosis. PMID:24186068
Probabilistic Prediction of Protein Phosphorylation Sites Using Classification Relevance Units Machines. PMID:24163645
Quantifying protein interaction dynamics by SWATH mass spectrometry: application to the 14-3-3 system. PMID:24162925
Discovery and confirmation of O-GlcNAcylated proteins in rat liver mitochondria by combination of mass spectrometry and immunological methods. PMID:24098488
MHC class I-associated phosphopeptides are the targets of memory-like immunity in leukemia. PMID:24048523
Characterization of native protein complexes and protein isoform variation using size-fractionation-based quantitative proteomics. PMID:24043423
Systematic analysis and prediction of pupylation sites in prokaryotic proteins. PMID:24019945
Nature-inspired design of motif-specific antibody scaffolds. PMID:23955275
Quantitative phosphoproteomic profiling of human non-small cell lung cancer tumors. PMID:23911959
Tyrosine Y189 in the substrate domain of the adhesion docking protein NEDD9 is conserved with p130Cas Y253 and regulates NEDD9-mediated migration and focal adhesion dynamics. PMID:23874939
Cancer missense mutations alter binding properties of proteins and their interaction networks. PMID:23799087
The Escherichia coli phosphotyrosine proteome relates to core pathways and virulence. PMID:23785281
Hypoxamirs in Pulmonary Hypertension: Breathing New Life into Pulmonary Vascular Research. PMID:23745175
Phosphoproteome dynamics reveal novel ERK1/2 MAP kinase substrates with broad spectrum of functions. PMID:23712012
Missense variants of uncertain significance (VUS) altering the phosphorylation patterns of BRCA1 and BRCA2. PMID:23704879
Temporal analysis of protein lysine acetylation during adipocyte differentiation. PMID:23700550
Distinct types of disorder in the human proteome: functional implications for alternative splicing. PMID:23633940
Novel binding partners and differentially regulated phosphorylation sites clarify Eps8 as a multi-functional adaptor. PMID:23626693
Protein complex interactor analysis and differential activity of KDM3 subfamily members towards H3K9 methylation. PMID:23593242
Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool. PMID:23586463
The SH2 domain interaction landscape. PMID:23545499
Genealogy of an ancient protein family: the Sirtuins, a family of disordered members. PMID:23497088
Regulation of SIRT1 by oxidative stress-responsive miRNAs and a systematic approach to identify its role in the endothelium. PMID:23477488
Bioinformatics analysis reveals biophysical and evolutionary insights into the 3-nitrotyrosine post-translational modification in the human proteome. PMID:23389939
Regulation of protein-protein binding by coupling between phosphorylation and intrinsic disorder: analysis of human protein complexes. PMID:23364837
Wrangling phosphoproteomic data to elucidate cancer signaling pathways. PMID:23300999
Evolutionary dynamics of gene and isoform regulation in Mammalian tissues. PMID:23258891
Intermolecular recognition revealed by the complex structure of human CLOCK-BMAL1 basic helix-loop-helix domains with E-box DNA. PMID:23229515
Reverse engineering a mouse embryonic stem cell-specific transcriptional network reveals a new modulator of neuronal differentiation. PMID:23180766
A rapid screening assay to search for phosphorylated proteins in tissue extracts. PMID:23166814
Holding our breath: The emerging and anticipated roles of microRNA in pulmonary hypertension. PMID:23130098
Prediction of protein phosphorylation sites by using the composition of k-spaced amino acid pairs. PMID:23110047
Mass spectrometry-based identification of native cardiac Nav1.5 channel α subunit phosphorylation sites. PMID:23092124
Multi-edge gene set networks reveal novel insights into global relationships between biological themes. PMID:23028852
Amplification of JNK signaling is necessary to complete the murine gammaherpesvirus 68 lytic replication cycle. PMID:23015701
CPhos: a program to calculate and visualize evolutionarily conserved functional phosphorylation sites. PMID:23001821
SRC Homology 2 Domain Binding Sites in Insulin, IGF-1 and FGF receptor mediated signaling networks reveal an extensive potential interactome. PMID:22974441
Comprehensive binary interaction mapping of SH2 domains via fluorescence polarization reveals novel functional diversification of ErbB receptors. PMID:22973453
Cyclic GMP-dependent stimulation of serotonin transport does not involve direct transporter phosphorylation by cGMP-dependent protein kinase. PMID:22942288
Dissecting the gene network of dietary restriction to identify evolutionarily conserved pathways and new functional genes. PMID:22912585
Post-translational modification: nature's escape from genetic imprisonment and the basis for dynamic information encoding. PMID:22899623
Protein kinases display minimal interpositional dependence on substrate sequence: potential implications for the evolution of signalling networks. PMID:22889908
Regulation of adherens junction dynamics by phosphorylation switches. PMID:22848810
Deciphering a global network of functionally associated post-translational modifications. PMID:22806145
Systematic analysis of protein phosphorylation networks from phosphoproteomic data. PMID:22798277
Combinatorial drug therapy for cancer in the post-genomic era. PMID:22781697
A highly scalable peptide-based assay system for proteomics. PMID:22701568
Phosphosignature predicts dasatinib response in non-small cell lung cancer. PMID:22617229
SH3 domain tyrosine phosphorylation--sites, role and evolution. PMID:22615764
Selenocysteine insertion sequence binding protein 2L is implicated as a novel post-transcriptional regulator of selenoprotein expression. PMID:22530054
Tandem mass spectrometry identifies many mouse brain O-GlcNAcylated proteins including EGF domain-specific O-GlcNAc transferase targets. PMID:22517741
IQGAP Family Members in Yeast, Dictyostelium, and Mammalian Cells. PMID:22505937
Identification of targets of c-Src tyrosine kinase by chemical complementation and phosphoproteomics. PMID:22499769
Incorporation of noncanonical amino acids into Rosetta and use in computational protein-peptide interface design. PMID:22431978
Reactive oxygen species and epidermal growth factor are antagonistic cues controlling SHP-2 dimerization. PMID:22411627
Cross-talk between phosphorylation and lysine acetylation in a genome-reduced bacterium. PMID:22373819
Covalent tagging of phosphorylated peptides by phosphate-specific deoxyribozymes. PMID:22315198
Oncogene-specific activation of tyrosine kinase networks during prostate cancer progression. PMID:22307624
PhosphoRice: a meta-predictor of rice-specific phosphorylation sites. PMID:22305189
Development of a chemical genetic approach for human aurora B kinase identifies novel substrates of the chromosomal passenger complex. PMID:22267324
A dynamic view of domain-motif interactions. PMID:22253583
The human phosphotyrosine signaling network: evolution and hotspots of hijacking in cancer. PMID:22194470
PhosTryp: a phosphorylation site predictor specific for parasitic protozoa of the family trypanosomatidae. PMID:22182631
Bioinformatic analysis and post-translational modification crosstalk prediction of lysine acetylation. PMID:22164248
Phosphorylation in protein-protein binding: effect on stability and function. PMID:22153503
Minimotif Miner 3.0: database expansion and significantly improved reduction of false-positive predictions from consensus sequences. PMID:22146221
PhosphoSitePlus: a comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse. PMID:22135298
Phosphoproteomic studies of receptor tyrosine kinases: future perspectives. PMID:22134727
Activity regulation of adenosine deaminases acting on RNA (ADARs). PMID:22113393
Insights into phosphorylation-dependent mechanisms regulating USP1 protein stability during the cell cycle. PMID:22101265
p21-Activated kinase 1 (Pak1) phosphorylates BAD directly at serine 111 in vitro and indirectly through Raf-1 at serine 112. PMID:22096607
High throughput profiling of serum phosphoproteins/peptides using the SELDI-TOF-MS platform. PMID:22083825
Expression2Kinases: mRNA profiling linked to multiple upstream regulatory layers. PMID:22080467
Polarity-regulating kinase partitioning-defective 1b (PAR1b) phosphorylates guanine nucleotide exchange factor H1 (GEF-H1) to regulate RhoA-dependent actin cytoskeletal reorganization. PMID:22072711
Systematic phosphorylation analysis of human mitotic protein complexes. PMID:22067460
Phosphoproteomic analysis: an emerging role in deciphering cellular signaling in human embryonic stem cells and their differentiated derivatives. PMID:22009073
Increasing phosphoproteomic coverage through sequential digestion by complementary proteases. PMID:22002561
Protein phosphatase 2a (PP2A) binds within the oligomerization domain of striatin and regulates the phosphorylation and activation of the mammalian Ste20-Like kinase Mst3. PMID:21985334
Aminoacyl-tRNA synthetases and tumorigenesis: more than housekeeping. PMID:21941282
Large-scale phosphotyrosine proteomic profiling of rat renal collecting duct epithelium reveals predominance of proteins involved in cell polarity determination. PMID:21940666
Protein O-linked β-N-acetylglucosamine: a novel effector of cardiomyocyte metabolism and function. PMID:21878340
Quantitative phospho-proteomics to investigate the polo-like kinase 1-dependent phospho-proteome. PMID:21857030
Phosphorylation of human eukaryotic initiation factor 2γ: novel site identification and targeted PKC involvement. PMID:21854064
A phospho-proteomic screen identifies substrates of the checkpoint kinase Chk1. PMID:21851590
Regulation of glycine receptor diffusion properties and gephyrin interactions by protein kinase C. PMID:21829170
PlantPhos: using maximal dependence decomposition to identify plant phosphorylation sites with substrate site specificity. PMID:21703007
Integrative computational biology for cancer research. PMID:21691773
The structural impact of cancer-associated missense mutations in oncogenes and tumor suppressors. PMID:21575214
Automatic annotation of experimentally derived, evolutionarily conserved post-translational modifications onto multiple genomes. PMID:21571812
Inferring the Sign of Kinase-Substrate Interactions by Combining Quantitative Phosphoproteomics with a Literature-Based Mammalian Kinome Network. PMID:21552464
Analysis of Jak2 catalytic function by peptide microarrays: the role of the JH2 domain and V617F mutation. PMID:21533163
A quantitative literature-curated gold standard for kinase-substrate pairs. PMID:21492431
dbOGAP - an integrated bioinformatics resource for protein O-GlcNAcylation. PMID:21466708
A solid phase extraction-based platform for rapid phosphoproteomic analysis. PMID:21440633
Large-scale phosphoproteomics analysis of whole saliva reveals a distinct phosphorylation pattern. PMID:21299198
O-GlcNAc modification: why so intimately associated with phosphorylation? PMID:21223562
The Musite open-source framework for phosphorylation-site prediction. PMID:21210988
A tissue-specific atlas of mouse protein phosphorylation and expression. PMID:21183079
Nuclear receptor coactivators: structural and functional biochemistry. PMID:21141906
Regulation of ABC transporter function via phosphorylation by protein kinases. PMID:21118091
PHOSIDA 2011: the posttranslational modification database. PMID:21081558
Mass spectrometry mapping of epidermal growth factor receptor phosphorylation related to oncogenic mutations and tyrosine kinase inhibitor sensitivity. PMID:21080693
Phospho.ELM: a database of phosphorylation sites--update 2011. PMID:21062810
CPLA 1.0: an integrated database of protein lysine acetylation. PMID:21059677
Profiling Y561-dependent and -independent substrates of CSF-1R in epithelial cells. PMID:21049007
Integrated quantitative analysis of the phosphoproteome and transcriptome in tamoxifen-resistant breast cancer. PMID:21044952
RegPhos: a system to explore the protein kinase-substrate phosphorylation network in humans. PMID:21037261
Toward a complete in silico, multi-layered embryonic stem cell regulatory network. PMID:20890967
Akt-RSK-S6 kinase signaling networks activated by oncogenic receptor tyrosine kinases. PMID:20736484
A strategy for interaction site prediction between phospho-binding modules and their partners identified from proteomic data. PMID:20733106
Musite, a tool for global prediction of general and kinase-specific phosphorylation sites. PMID:20702892
The proximal signaling network of the BCR-ABL1 oncogene shows a modular organization. PMID:20697350
Evolutionary constraints of phosphorylation in eukaryotes, prokaryotes, and mitochondria. PMID:20688971
PTMScout, a Web resource for analysis of high throughput post-translational proteomics studies. PMID:20631208
SH2 domains recognize contextual peptide sequence information to determine selectivity. PMID:20627867
PhosphoGRID: a database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae. PMID:20428315
Protein Bioinformatics Infrastructure for the Integration and Analysis of Multiple High-Throughput "omics" Data. PMID:20369061
HTAPP: high-throughput autonomous proteomic pipeline. PMID:20336676
Requirement of the mTOR kinase for the regulation of Maf1 phosphorylation and control of RNA polymerase III-dependent transcription in cancer cells. PMID:20233713
Differential phosphoproteomics of fibroblast growth factor signaling: identification of Src family kinase-mediated phosphorylation events. PMID:20225815
Raptor is phosphorylated by cdc2 during mitosis. PMID:20169205
A mitotic phosphorylation feedback network connects Cdk1, Plk1, 53BP1, and Chk2 to inactivate the G(2)/M DNA damage checkpoint. PMID:20126263
PostMod: sequence based prediction of kinase-specific phosphorylation sites with indirect relationship. PMID:20122181
Understanding protein phosphorylation on a systems level. PMID:20056723
ELM: the status of the 2010 eukaryotic linear motif resource. PMID:19920119
PeptideDepot: flexible relational database for visual analysis of quantitative proteomic data and integration of existing protein information. PMID:19834895
In-depth qualitative and quantitative profiling of tyrosine phosphorylation using a combination of phosphopeptide immunoaffinity purification and stable isotope dimethyl labeling. PMID:19770167
A comprehensive resource for integrating and displaying protein post-translational modifications. PMID:19549291
An extensive survey of tyrosine phosphorylation revealing new sites in human mammary epithelial cells. PMID:19534553
Tumor suppressor density-enhanced phosphatase-1 (DEP-1) inhibits the RAS pathway by direct dephosphorylation of ERK1/2 kinases. PMID:19494114
SysPTM: a systematic resource for proteomic research on post-translational modifications. PMID:19366988
Functional proteomics identifies targets of phosphorylation by B-Raf signaling in melanoma. PMID:19362540
Early cellular signaling responses to axonal injury. PMID:19284657
KEA: kinase enrichment analysis. PMID:19176546
Predicting protein post-translational modifications using meta-analysis of proteome scale data sets. PMID:18974045
Prediction of kinase-specific phosphorylation sites using conditional random fields. PMID:18940828
Phosphorylation-dependent interaction between antigenic peptides and MHC class I: a molecular basis for the presentation of transformed self. PMID:18836451
A quantitative atlas of mitotic phosphorylation. PMID:18669648
PhosphoScan: a probability-based method for phosphorylation site prediction using MS2/MS3 pair information. PMID:18549264
Prediction of phosphotyrosine signaling networks using a scoring matrix-assisted ligand identification approach. PMID:18424801
Charge environments around phosphorylation sites in proteins. PMID:18366741
Meta-prediction of phosphorylation sites with weighted voting and restricted grid search parameter selection. PMID:18234718
Signaling networks assembled by oncogenic EGFR and c-Met. PMID:18180459
PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites. PMID:18039369
NetworKIN: a resource for exploring cellular phosphorylation networks. PMID:17981841
A systematic comparative and structural analysis of protein phosphorylation sites based on the mtcPTM database. PMID:17521420
Curation of complex, context-dependent immunological data. PMID:16836764
A common phosphotyrosine signature for the Bcr-Abl kinase. PMID:16497976
The Molecule Pages database PubMed citations: 28.

28 articles citing: The Molecule Pages database

G-Protein Coupled Receptor Signaling and Mammalian Target of Rapamycin Complex 1 Regulation. PMID:34965982
Role of Receptors in Relation to Plaques and Tangles in Alzheimer's Disease Pathology. PMID:34884789
Targeted Activation of G-Protein Coupled Receptor-Mediated Ca2+ Signaling Drives Enhanced Cartilage-Like Matrix Formation. PMID:34693731
Correlation between in vitro binding activity of sweeteners to cloned human sweet taste receptor and sensory evaluation. PMID:34123464
Arene Substitution Design for Controlled Conformational Changes of Dibenzocycloocta-1,5-dienes. PMID:32881488
A simple open source bioinformatic methodology for initial exploration of GPCR ligands' agonistic/antagonistic properties. PMID:32662237
Anti-inflammatory effects of α-MSH through p-CREB expression in sarcoidosis like granuloma model. PMID:32350353
Whole-exome sequencing uncovers oxidoreductases DHTKD1 and OGDHL as linkers between mitochondrial dysfunction and eosinophilic esophagitis. PMID:29669943
Cyclic Nucleotide-Directed Protein Kinases in Cardiovascular Inflammation and Growth. PMID:29367584
Biased signaling by thyroid-stimulating hormone receptor-specific antibodies determines thyrocyte survival in autoimmunity. PMID:29363585
Biallelic mutations in the ferredoxin reductase gene cause novel mitochondriopathy with optic atrophy. PMID:29040572
pVHL suppresses kinase activity of Akt in a proline-hydroxylation-dependent manner. PMID:27563096
GEMC1 is a critical regulator of multiciliated cell differentiation. PMID:26933123
G-protein Coupled Receptor Signaling in Pluripotent Stem Cell-derived Cardiovascular Cells: Implications for Disease Modeling. PMID:26697426
Cloning of two LIMCH1 isoforms: characterization of their distribution in rat brain and their agmatinase activity. PMID:26678503
Systematic discovery of linear binding motifs targeting an ancient protein interaction surface on MAP kinases. PMID:26538579
Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems. PMID:25887162
Bioinformatics and systems biology of the lipidome. PMID:21939287
Signaling gateway molecule pages--a data model perspective. PMID:21505029
Vimentin organization modulates the formation of lamellipodia. PMID:21346197
SynapticDB, effective web-based management and sharing of data from serial section electron microscopy. PMID:21181305
The Molecule Pages database. PMID:17965093
AVIS: AJAX viewer of interactive signaling networks. PMID:17855420
Toward a workbench for rodent brain image data: systems architecture and design. PMID:17426352
A computational framework for the topological analysis and targeted disruption of signal transduction networks. PMID:16617070
Toward predictive models of mammalian cells. PMID:15869393
MitoProteome: mitochondrial protein sequence database and annotation system. PMID:14681458
PROTEOME-3D: an interactive bioinformatics tool for large-scale data exploration and knowledge discovery. PMID:12960178
http://dx.doi.org/10.1093/nar/

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More detailed information about this field from each metasource.

molecular structure
metasource: Fairsharing.org
version: FAIRsharing.org: PSP; PhosphoSite Plus; DOI: https://doi.org/10.25504/FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

phosphorylation
metasource: Fairsharing.org
version: FAIRsharing.org: PSP; PhosphoSite Plus; DOI: https://doi.org/10.25504/FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

protein
metasource: Fairsharing.org
version: FAIRsharing.org: PSP; PhosphoSite Plus; DOI: https://doi.org/10.25504/FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

signaling
metasource: Fairsharing.org
version: FAIRsharing.org: PSP; PhosphoSite Plus; DOI: https://doi.org/10.25504/FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

small molecule
metasource: Fairsharing.org
version: FAIRsharing.org: PSP; PhosphoSite Plus; DOI: https://doi.org/10.25504/FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

structure
metasource: Fairsharing.org
version: FAIRsharing.org: PSP; PhosphoSite Plus; DOI: https://doi.org/10.25504/FAIRsharing.x8xt3k; Last edited: May 20, 2021, 1:41 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

protein sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

protein sequence motifs and active sites
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

protein modifications
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:47.412261

experimental design and studies
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:47.412261

systems biology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:47.412261

biology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:47.412261

proteins
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:47.412261

molecular structure phosphorylation protein signaling small molecule structure protein sequence protein sequence motifs and active sites protein modifications experimental design and studies systems biology proteins

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dbPTM

Human Histone Database

SuperSite

PHOSIDA

PTMcode

ProTeus

CoPS

PDBSite

Minimotif Miner

RESID Database of Protein Modifications

mutLBSgeneDB

Colorectal Cancer Atlas

SitEx

The Signaling Gateway

Phospho3D

ProteomeScout

OmniPath

dbPSP

PRIDB

qPTMplants