mz Markup Language
Names
More detailed information about this field from each metasource.
mz Markup Language
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mzML
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
Names
More detailed information about this field from each metasource.
mz Markup Language
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mzML
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
Names
More detailed information about this field from each metasource.
mz Markup Language
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mzML
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mzML was formed to amalgamate two formats for encoding raw spectrometer data; mzData developed by the PSI, and, mzXML developed at the Seattle Proteome Center at the Institute for Systems Biology. The PSI, with full participation by the ISB, developed the new format by taking the best aspects of each of the precursors to form a single, less confusing, format.
Description
More detailed information about this field from each metasource.
mzML was formed to amalgamate two formats for encoding raw spectrometer data; mzData developed by the PSI, and, mzXML developed at the Seattle Proteome Center at the Institute for Systems Biology. The PSI, with full participation by the ISB, developed the new format by taking the best aspects of each of the precursors to form a single, less confusing, format.
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
Webpage:
http://www.psidev.info/mzmlWebpage
More detailed information about this field from each metasource.
http://www.psidev.info/mzml
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
ProteomeXchange provides globally coordinated proteomics data submission and dissemination
PMID: 24727771
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mzML--a community standard for mass spectrometry data
PMID: 20716697
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
Publications
More detailed information about this field from each metasource.
ProteomeXchange provides globally coordinated proteomics data submission and dissemination
PMID: 24727771
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mzML--a community standard for mass spectrometry data
PMID: 20716697
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
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ProteomeXchange provides globally coordinated proteomics data submission and dissemination
PubMed citations: 1280.
1280 articles citing: ProteomeXchange provides globally coordinated proteomics data submission and dissemination
Metabolomic and proteomic profiling in bipolar disorder patients revealed potential molecular signatures related to hemostasis. PMID:35922643
Activity-based protein profiling identifies alternating activation of enzymes involved in the bifidobacterium shunt pathway or mucin degradation in the gut microbiome response to soluble dietary fiber. PMID:35858888
Accelerated lysine metabolism conveys kidney protection in salt-sensitive hypertension. PMID:35835746
Cryo-EM structures of prion protein filaments from Gerstmann-Sträussler-Scheinker disease. PMID:35819518
α-Synuclein molecular behavior and nigral proteomic profiling distinguish subtypes of Lewy body disorders. PMID:35748929
The Combined Partial Knockdown of CBS and MPST Genes Induces Inflammation, Impairs Adipocyte Function-Related Gene Expression and Disrupts Protein Persulfidation in Human Adipocytes. PMID:35739994
HSP90 and Aha1 modulate microRNA maturation through promoting the folding of Dicer1. PMID:35736213
Integrated Multilayer Omics Reveals the Genomic, Proteomic, and Metabolic Influences of Histidyl Dipeptides on the Heart. PMID:35730646
Integrated view and comparative analysis of baseline protein expression in mouse and rat tissues. PMID:35714157
ANGT_HUMAN[448-462], an Anorexigenic Peptide Identified Using Plasma Peptidomics. PMID:35702602
Method for Independent Estimation of the False Localization Rate for Phosphoproteomics. PMID:35640880
Redox regulation of PTPN22 affects the severity of T-cell-dependent autoimmune inflammation. PMID:35587260
Accurate Proteomewide Measurement of Methionine Oxidation in Aging Mouse Brains. PMID:35584362
A Middle Pleistocene Denisovan molar from the Annamite Chain of northern Laos. PMID:35581187
Dynamic human liver proteome atlas reveals functional insights into disease pathways. PMID:35579278
Skin Cancer-Associated S. aureus Strains Can Induce DNA Damage in Human Keratinocytes by Downregulating DNA Repair and Promoting Oxidative Stress. PMID:35565272
Repeated Exposure of Macrophages to Synthetic Amorphous Silica Induces Adaptive Proteome Changes and a Moderate Cell Activation. PMID:35564134
Multiomic Profiling Identified EGF Receptor Signaling as a Potential Inhibitor of Type I Interferon Response in Models of Oncolytic Therapy by Vesicular Stomatitis Virus. PMID:35563635
Building Spectral Libraries from Narrow-Window Data-Independent Acquisition Mass Spectrometry Data. PMID:35549345
Identification of Antibiotic Resistance Proteins via MiCId's Augmented Workflow. A Mass Spectrometry-Based Proteomics Approach. PMID:35500907
A Non-Hazardous Deparaffinization Protocol Enables Quantitative Proteomics of Core Needle Biopsy-Sized Formalin-Fixed and Paraffin-Embedded (FFPE) Tissue Specimens. PMID:35457260
Simulation Testbed for Evaluating Distributed Querying and Searching of Mass Spectrometry Big Data in a Network-based Infrastructure. PMID:35425943
A Single Bout of Ultra-Endurance Exercise Reveals Early Signs of Muscle Aging in Master Athletes. PMID:35409073
Comparative Proteomic Profiling of Ectosomes Derived from Thyroid Carcinoma and Normal Thyroid Cells Uncovers Multiple Proteins with Functional Implications in Cancer. PMID:35406748
In Vitro Erythropoiesis at Different pO2 Induces Adaptations That Are Independent of Prior Systemic Exposure to Hypoxia. PMID:35406648
The role of albumin and the extracellular matrix on the pathophysiology of oedema formation in severe malnutrition. PMID:35398787
Proteomic profiling of postmortem prefrontal cortex tissue of suicide completers. PMID:35383147
Auxiliary ATP binding sites support DNA unwinding by RecBCD. PMID:35379800
SEED LIPID DROPLET PROTEIN1, SEED LIPID DROPLET PROTEIN2, and LIPID DROPLET PLASMA MEMBRANE ADAPTOR mediate lipid droplet-plasma membrane tethering. PMID:35348751
The pattern of apolipoprotein A-I lysine carbamylation reflects its lipidation state and the chemical environment within human atherosclerotic aorta. PMID:35304099
Metaproteomics as a tool for studying the protein landscape of human-gut bacterial species. PMID:35302987
N-terminome analyses underscore the prevalence of SPPL3-mediated intramembrane proteolysis among Golgi-resident enzymes and its role in Golgi enzyme secretion. PMID:35279766
OpenCell: Endogenous tagging for the cartography of human cellular organization. PMID:35271311
The schizophrenia-associated variant in SLC39A8 alters protein glycosylation in the mouse brain. PMID:35260802
AP-4-mediated axonal transport controls endocannabinoid production in neurons. PMID:35217685
Review of Liquid Chromatography-Mass Spectrometry-Based Proteomic Analyses of Body Fluids to Diagnose Infectious Diseases. PMID:35216306
Host Defense Peptides LL-37 and Lactoferrin Trigger ET Release from Blood-Derived Circulating Monocytes. PMID:35203676
Calibr improves spectral library search for spectrum-centric analysis of data independent acquisition proteomics. PMID:35132134
Interpretation of the DOME Recommendations for Machine Learning in Proteomics and Metabolomics. PMID:35119864
Path to Clonal Theranostics in Luminal Breast Cancers. PMID:35096604
Viral immune evasins impact antigen presentation by allele-specific trapping of MHC I at the peptide-loading complex. PMID:35087068
Comparison of Different Label-Free Techniques for the Semi-Absolute Quantification of Protein Abundance. PMID:35076627
Standard Flow Multiplexed Proteomics (SFloMPro)-An Accessible Alternative to NanoFlow Based Shotgun Proteomics. PMID:35076613
Novel γ-sarcoglycan interactors in murine muscle membranes. PMID:35065666
Circulating ACE2-expressing extracellular vesicles block broad strains of SARS-CoV-2. PMID:35058437
Deciphering Biomarkers for Leptomeningeal Metastasis in Malignant Hemopathies (Lymphoma/Leukemia) Patients by Comprehensive Multipronged Proteomics Characterization of Cerebrospinal Fluid. PMID:35053611
Comparative Proteomics of Coxiella like Endosymbionts (CLEs) in the Symbiotic Organs of Rhipicephalus sanguineus Ticks. PMID:35019702
Temporal Quantitative Phosphoproteomics Profiling of Interleukin-33 Signaling Network Reveals Unique Modulators of Monocyte Activation. PMID:35011700
Dichotomous Responses to Chronic Fetal Hypoxia Lead to a Predetermined Aging Phenotype. PMID:34958949
Sequestosome 1 Is Part of the Interaction Network of VAPB. PMID:34948065
Deepening into Intracellular Signaling Landscape through Integrative Spatial Proteomics and Transcriptomics in a Lymphoma Model. PMID:34944421
Perspective of the GEMSTONE Consortium on Current and Future Approaches to Functional Validation for Skeletal Genetic Disease Using Cellular, Molecular and Animal-Modeling Techniques. PMID:34938269
Proteomic mapping of atrial and ventricular heart tissue in patients with aortic valve stenosis. PMID:34937869
4-Deoxy-4-fluoro-GalNAz (4FGalNAz) Is a Metabolic Chemical Reporter of O-GlcNAc Modifications, Highlighting the Notable Substrate Flexibility of O-GlcNAc Transferase. PMID:34931806
Hyperosmolarity adversely impacts recombinant protein synthesis by Yarrowia lipolytica-molecular background revealed by quantitative proteomics. PMID:34913994
Salivary Proteome Profile of Women during Fertile Phase of Menstrual Cycle as Characterized by Mass Spectrometry. PMID:34909380
iProX in 2021: connecting proteomics data sharing with big data. PMID:34871441
GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser. PMID:34862502
ProMetIS, deep phenotyping of mouse models by combined proteomics and metabolomics analysis. PMID:34862403
BtuB-Dependent Infection of the T5-like Yersinia Phage ϕR2-01. PMID:34834977
Biomimetic Nanoparticles Coated with Bacterial Outer Membrane Vesicles as a New-Generation Platform for Biomedical Applications. PMID:34834302
Fox Serum Proteomics Analysis Suggests Host-Specific Responses to Angiostrongylus vasorum Infection in Canids. PMID:34832667
Systemic Effects of Hemorrhagic Snake Venom Metalloproteinases: Untargeted Peptidomics to Explore the Pathodegradome of Plasma Proteins. PMID:34822548
The Angiostrongylus vasorum Excretory/Secretory and Surface Proteome Contains Putative Modulators of the Host Coagulation. PMID:34796127
The Circadian Clock Gene Circuit Controls Protein and Phosphoprotein Rhythms in Arabidopsis thaliana. PMID:34740825
Truncation of the TPR domain of OGT alters substrate and glycosite selection. PMID:34725712
The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences. PMID:34723319
DeepLC can predict retention times for peptides that carry as-yet unseen modifications. PMID:34711972
Bioinformatics in Immunoglobulin Glycosylation Analysis. PMID:34687011
Proteomic analysis of the host-pathogen interface in experimental cholera. PMID:34675415
PGRMC1 acts as a size-selective cargo receptor to drive ER-phagic clearance of mutant prohormones. PMID:34645803
Single-cell RNA-seq unravels alterations of the human spermatogonial stem cell compartment in patients with impaired spermatogenesis. PMID:34622232
A dual-function RNA balances carbon uptake and central metabolism in Vibrio cholerae. PMID:34612526
The growing need for controlled data access models in clinical proteomics and metabolomics. PMID:34599180
A protein network map of head and neck cancer reveals PIK3CA mutant drug sensitivity. PMID:34591642
A protein interaction landscape of breast cancer. PMID:34591612
Proteomics-Based Retinal Target Engagement Analysis and Retina-Targeted Delivery of 17β-Estradiol by the DHED Prodrug for Ocular Neurotherapy in Males. PMID:34575465
Subcellular proteomics. PMID:34549195
Data Management and Modeling in Plant Biology. PMID:34539712
Discovery of a small protein-encoding cis-regulatory overlapping gene of the tumor suppressor gene Scribble in humans. PMID:34535749
Utilizing thermal proteome profiling to identify the molecular targets of anti-leishmanial compounds. PMID:34467225
Global Lysine Acetylome Analysis of LPS-Stimulated HepG2 Cells Identified Hyperacetylation of PKM2 as a Metabolic Regulator in Sepsis. PMID:34445236
Proteomic-Based Analysis of Hypoxia- and Physioxia-Responsive Proteins and Pathways in Diffuse Large B-Cell Lymphoma. PMID:34440794
Quantitative Proteomics Reveals Significant Differences between Mouse Brain Formations in Expression of Proteins Involved in Neuronal Plasticity during Aging. PMID:34440790
The Integrity of the HMR complex is necessary for centromeric binding and reproductive isolation in Drosophila. PMID:34424906
The Arabidopsis PeptideAtlas: Harnessing worldwide proteomics data to create a comprehensive community proteomics resource. PMID:34411258
Survival analysis in breast cancer using proteomic data from four independent datasets. PMID:34408238
Bacteriophages fEV-1 and fD1 Infect Yersinia pestis. PMID:34372590
ppx: Programmatic Access to Proteomics Data Repositories. PMID:34342226
GHB analogs confer neuroprotection through specific interaction with the CaMKIIα hub domain. PMID:34330837
Spatial epi-proteomics enabled by histone post-translational modification analysis from low-abundance clinical samples. PMID:34315505
Immunopeptidomics-Guided Warehouse Design for Peptide-Based Immunotherapy in Chronic Lymphocytic Leukemia. PMID:34305947
Evaluation of the Sensitivity of Proteomics Methods Using the Absolute Copy Number of Proteins in a Single Cell as a Metric. PMID:34287363
Automatization and self-maintenance of the O-GlcNAcome catalog: a smart scientific database. PMID:34279596
GIP_HUMAN[22-51] is a new proatherogenic peptide identified by native plasma peptidomics. PMID:34262109
Chronic binge alcohol and ovariectomy dysregulate omental adipose tissue metaboproteome in simian immunodeficiency virus-infected female macaques. PMID:34252326
Glycan Compositions with GlyConnect Compozitor to Enhance Glycopeptide Identification. PMID:34236658
Site-Specific N- and O-Glycosylation Analysis of Human Plasma Fibronectin. PMID:34211961
ATR regulates neuronal activity by modulating presynaptic firing. PMID:34210973
Old World Vipers-A Review about Snake Venom Proteomics of Viperinae and Their Variations. PMID:34204565
Proteomic Profiling of Ectosomes Derived from Paired Urothelial Bladder Cancer and Normal Cells Reveals the Presence of Biologically-Relevant Molecules. PMID:34202855
Changes in the Cell Wall Proteome of Leaves in Response to High Temperature Stress in Brachypodium distachyon. PMID:34201710
Absolute Proteome Analysis of Hippocampus, Cortex and Cerebellum in Aged and Young Mice Reveals Changes in Energy Metabolism. PMID:34201282
In-depth proteomics analysis of sentinel lymph nodes from individuals with endometrial cancer. PMID:34195683
Proteomic Portraits Reveal Evolutionarily Conserved and Divergent Responses to Spinal Cord Injury. PMID:34129941
Structure of Tau filaments in Prion protein amyloidoses. PMID:34128081
Time-Dependent Analysis of Paenarthrobacter nicotinovorans pAO1 Nicotine-Related Proteome. PMID:34124447
Extracellular Vesicle Proteome of Breast Cancer Patients with and Without Cognitive Impairment Following Anthracycline-based Chemotherapy: An Exploratory Study. PMID:34103887
Identification of an RNA sponge that controls the RoxS riboregulator of central metabolism in Bacillus subtilis. PMID:34096591
Proteomic Analyses of Vitreous in Proliferative Diabetic Retinopathy: Prior Studies and Future Outlook. PMID:34070658
Long-Term Exposure to Nanosized TiO2 Triggers Stress Responses and Cell Death Pathways in Pulmonary Epithelial Cells. PMID:34069552
Characterization of Extracellular Vesicle Cargo in Sjögren's Syndrome through a SWATH-MS Proteomics Approach. PMID:34064456
Cryo-EM structure of the mature and infective Mayaro virus at 4.4 Å resolution reveals features of arthritogenic alphaviruses. PMID:34031424
Quality standards in proteomics research facilities: Common standards and quality procedures are essential for proteomics facilities and their users. PMID:34009726
Ser/Thr Kinase-Dependent Phosphorylation of the Peptidoglycan Hydrolase CwlA Controls Its Export and Modulates Cell Division in Clostridioides difficile. PMID:34006648
PERCEPTRON: an open-source GPU-accelerated proteoform identification pipeline for top-down proteomics. PMID:33999207
Construction of Unified Human Antimicrobial and Immunomodulatory Peptide Database and Examination of Antimicrobial and Immunomodulatory Peptides in Alzheimer's Disease Using Network Analysis of Proteomics Datasets. PMID:33995478
A data-independent acquisition-based global phosphoproteomics system enables deep profiling. PMID:33953186
ST6Gal1 targets the ectodomain of ErbB2 in a site-specific manner and regulates gastric cancer cell sensitivity to trastuzumab. PMID:33947960
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
Arabidopsis thaliana EARLY RESPONSIVE TO DEHYDRATION 7 Localizes to Lipid Droplets via Its Senescence Domain. PMID:33936146
Formation of polarized contractile interfaces by self-organized Toll-8/Cirl GPCR asymmetry. PMID:33932333
Biochemical and Proteomic Changes in the Roots of M4 Grapevine Rootstock in Response to Nitrate Availability. PMID:33920578
Analysis of Astroglial Secretomic Profile in the Mecp2-Deficient Male Mouse Model of Rett Syndrome. PMID:33919253
Understanding the Molecular Mechanism of miR-877-3p Could Provide Potential Biomarkers and Therapeutic Targets in Squamous Cell Carcinoma of the Cervix. PMID:33917510
Purification and quantitative proteomic analysis of cell bodies and protrusions. PMID:33912849
Knock out of specific maternal vitellogenins in zebrafish (Danio rerio) evokes vital changes in egg proteomic profiles that resemble the phenotype of poor quality eggs. PMID:33910518
Proteomic Profiling of the Substantia Nigra to Identify Determinants of Lewy Body Pathology and Dopaminergic Neuronal Loss. PMID:33900085
Proteomic Changes Associated With Sperm Fertilizing Ability in Meat-Type Roosters. PMID:33898456
Urinary Metabolomic and Proteomic Analyses in a Mouse Model of Prostatic Inflammation. PMID:33870183
GeenaR: A Web Tool for Reproducible MALDI-TOF Analysis. PMID:33854526
Metformin impairs cisplatin resistance effects in A549 lung cancer cells through mTOR signaling and other metabolic pathways. PMID:33846781
Impact of whole-body versus nose-only inhalation exposure systems on systemic, respiratory, and cardiovascular endpoints in a 2-month cigarette smoke exposure study in the ApoE-/- mouse model. PMID:33825214
IonQuant Enables Accurate and Sensitive Label-Free Quantification With FDR-Controlled Match-Between-Runs. PMID:33813065
Label-Free Quantitative Proteomic Analysis of Nitrogen Starvation in Arabidopsis Root Reveals New Aspects of H2S Signaling by Protein Persulfidation. PMID:33805243
Human OMICs and Computational Biology Research in Africa: Current Challenges and Prospects. PMID:33794662
Cuprizone and EAE mouse frontal cortex proteomics revealed proteins altered in multiple sclerosis. PMID:33785790
Improved SILAC Quantification with Data-Independent Acquisition to Investigate Bortezomib-Induced Protein Degradation. PMID:33764077
Cooperative treatment effectiveness of ATR and HSP90 inhibition in Ewing's sarcoma cells. PMID:33743824
Species-Specific Immunological Reactivities Depend on the Cell-Wall Organization of the Two Aspergillus, Aspergillus fumigatus and A. flavus. PMID:33718288
Schwann cell plasticity regulates neuroblastic tumor cell differentiation via epidermal growth factor-like protein 8. PMID:33712610
Data Management of Sensitive Human Proteomics Data: Current Practices, Recommendations, and Perspectives for the Future. PMID:33711481
PhyloQuant approach provides insights into Trypanosoma cruzi evolution using a systems-wide mass spectrometry-based quantitative protein profile. PMID:33707618
Molecular alterations in oral cancer using high-throughput proteomic analysis of formalin-fixed paraffin-embedded tissue. PMID:33683571
Packed red blood cells inhibit T-cell activation via ROS-dependent signaling pathways. PMID:33676898
OmicLoupe: facilitating biological discovery by interactive exploration of multiple omic datasets and statistical comparisons. PMID:33663372
System-wide identification and prioritization of enzyme substrates by thermal analysis. PMID:33637753
Type I and type V procollagen triple helix uses different subsets of the molecular ensemble for lysine posttranslational modifications in the rER. PMID:33631195
Investigating an increase in Florida manatee mortalities using a proteomic approach. PMID:33608577
Biogeographical venom variation in the Indian spectacled cobra (Naja naja) underscores the pressing need for pan-India efficacious snakebite therapy. PMID:33600405
Determinants of genome-wide distribution and evolution of uORFs in eukaryotes. PMID:33597535
mokapot: Fast and Flexible Semisupervised Learning for Peptide Detection. PMID:33596079
Centrosome amplification mediates small extracellular vesicle secretion via lysosome disruption. PMID:33592190
Proteomics Complementation of the Rat Uterotrophic Assay for Estrogenic Endocrine Disruptors: A Roadmap of Advancing High Resolution Mass Spectrometry-Based Shotgun Survey to Targeted Biomarker Quantifications. PMID:33567512
Large-Scale Proteomic Analysis of Follicular Lymphoma Reveals Extensive Remodeling of Cell Adhesion Pathway and Identifies Hub Proteins Related to the Lymphomagenesis. PMID:33562532
Proteomic Profiling and Artificial Intelligence for Hepatocellular Carcinoma Translational Medicine. PMID:33562077
Simplified and Unified Access to Cancer Proteogenomic Data. PMID:33560848
Human DDK rescues stalled forks and counteracts checkpoint inhibition at unfired origins to complete DNA replication. PMID:33545059
Rab7-harboring vesicles are carriers of the transferrin receptor through the biosynthetic secretory pathway. PMID:33523982
Parthenolide Destabilizes Microtubules by Covalently Modifying Tubulin. PMID:33482110
Eicosanoid Content in Fetal Calf Serum Accounts for Reproducibility Challenges in Cell Culture. PMID:33467719
Ethical Principles, Constraints and Opportunities in Clinical Proteomics. PMID:33453411
Suprabasin-derived bioactive peptides identified by plasma peptidomics. PMID:33441610
Quantitative proteomics analysis of Angiostrongylus vasorum-induced alterations in dog serum sheds light on the pathogenesis of canine angiostrongylosis. PMID:33431914
CYP450 core involvement in multiple resistance strains of Aedes aegypti from French Guiana highlighted by proteomics, molecular and biochemical studies. PMID:33428654
Intestinal differentiation involves cleavage of histone H3 N-terminal tails by multiple proteases. PMID:33398338
The Impact of Biomaterial Cell Contact on the Immunopeptidome. PMID:33392160
Improving the Identification and Coverage of Plant Transmembrane Proteins in Medicago Using Bottom-Up Proteomics. PMID:33391307
The Proteomic Landscape of Resting and Activated CD4+ T Cells Reveal Insights into Cell Differentiation and Function. PMID:33383959
Comparative Proteomics Analysis Reveals Unique Early Signaling Response of Saccharomyces cerevisiae to Oxidants with Different Mechanism of Action. PMID:33375274
State of the Field in Multi-Omics Research: From Computational Needs to Data Mining and Sharing. PMID:33362867
Protein Synthesis in the Developing Neocortex at Near-Atomic Resolution Reveals Ebp1-Mediated Neuronal Proteostasis at the 60S Tunnel Exit. PMID:33357414
Biological characteristics of aging in human acute myeloid leukemia cells: the possible importance of aldehyde dehydrogenase, the cytoskeleton and altered transcriptional regulation. PMID:33349623
Multi-omics data integration considerations and study design for biological systems and disease. PMID:33347526
Preparing for Life: Plasma Proteome Changes and Immune System Development During the First Week of Human Life. PMID:33329546
Registered report protocol: Quantitative analysis of septin Cdc10-associated proteome in Cryptococcus neoformans. PMID:33315917
Secretome Analysis of Inductive Signals for BM-MSC Transdifferentiation into Salivary Gland Progenitors. PMID:33260559
Aberrant (pro)renin receptor expression induces genomic instability in pancreatic ductal adenocarcinoma through upregulation of SMARCA5/SNF2H. PMID:33247206
The Human Adenovirus Type 2 Transcriptome: An Amazing Complexity of Alternatively Spliced mRNAs. PMID:33239457
Combined the SMAC mimetic and BCL2 inhibitor sensitizes neoadjuvant chemotherapy by targeting necrosome complexes in tyrosine aminoacyl-tRNA synthase-positive breast cancer. PMID:33239070
Efficient Confirmation of Plant Viral Proteins and Identification of Specific Viral Strains by nanoLC-ESI-Q-TOF Using Single-Leaf-Tissue Samples. PMID:33228257
GlycoPOST realizes FAIR principles for glycomics mass spectrometry data. PMID:33174597
Subcellular mRNA Localization Regulates Ribosome Biogenesis in Migrating Cells. PMID:33171110
Amyotrophic Lateral Sclerosis Is Accompanied by Protein Derangements in the Olfactory Bulb-Tract Axis. PMID:33167591
Argonaut: A Web Platform for Collaborative Multi-omic Data Visualization and Exploration. PMID:33154995
Preparation of Multi-omics Grade Extracellular Vesicles by Density-Based Fractionation of Urine. PMID:33111109
Identification, Characterization and Synthesis of Walterospermin, a Sperm Motility Activator from the Egyptian Black Snake Walterinnesia aegyptia Venom. PMID:33096770
A high-stringency blueprint of the human proteome. PMID:33067450
The tissue proteome in the multi-omic landscape of kidney disease. PMID:33028957
Label-Free Mass Spectrometry-Based Quantification of Linker Histone H1 Variants in Clinical Samples. PMID:33020374
Investigating Patterns of Immune Interaction in Ovarian Cancer: Probing the O-glycoproteome by the Macrophage Galactose-Like C-type Lectin (MGL). PMID:33019700
ADAM17 cytoplasmic domain modulates Thioredoxin-1 conformation and activity. PMID:33011677
The STRIPAK signaling complex regulates dephosphorylation of GUL1, an RNA-binding protein that shuttles on endosomes. PMID:32997654
Clearance of senescent cells during cardiac ischemia-reperfusion injury improves recovery. PMID:32996233
Extracellular vesicles in patients in the acute phase of psychosis and after clinical improvement: an explorative study. PMID:32995075
Proteomic Mapping of Multifunctional Complexes Within Triatomine Saliva. PMID:32984079
Dissecting the antibacterial activity of oxadiazolone-core derivatives against Mycobacterium abscessus. PMID:32946441
MassIVE.quant: a community resource of quantitative mass spectrometry-based proteomics datasets. PMID:32929271
Progressive Proteome Changes in the Myocardium of a Pig Model for Duchenne Muscular Dystrophy. PMID:32927262
Insights into glucocorticoid responses derived from omics studies. PMID:32910934
Extrinsic immune cell-derived, but not intrinsic oligodendroglial factors contribute to oligodendroglial differentiation block in multiple sclerosis. PMID:32894330
Proteomic Characterization of the Olfactory Molecular Imbalance in Dementia with Lewy Bodies. PMID:32887355
The Capture of a Disabled Proteasome Identifies Erg25 as a Substrate for Endoplasmic Reticulum Associated Degradation. PMID:32868373
Co-expression analysis of pancreatic cancer proteome reveals biology and prognostic biomarkers. PMID:32860207
Marker Identification of the Grade of Dysplasia of Intraductal Papillary Mucinous Neoplasm in Pancreatic Cyst Fluid by Quantitative Proteomic Profiling. PMID:32842508
Analytical Guidelines for co-fractionation Mass Spectrometry Obtained through Global Profiling of Gold Standard Saccharomyces cerevisiae Protein Complexes. PMID:32817346
Identification of modified peptides using localization-aware open search. PMID:32792501
Proteomic analysis of synovial fluid from rheumatic arthritis and spondyloarthritis patients. PMID:32782445
Sirt2 Inhibition Enhances Metabolic Fitness and Effector Functions of Tumor-Reactive T Cells. PMID:32768387
Cellular response of Brevibacterium casei #NIOSBA88 to arsenic and chromium-a proteomic approach. PMID:32729030
Papain-like protease regulates SARS-CoV-2 viral spread and innate immunity. PMID:32726803
Discovery of treatment for nerve agents targeting a new metabolic pathway. PMID:32720192
Deep Proteomic Deconvolution of Interferons and HBV Transfection Effects on a Hepatoblastoma Cell Line. PMID:32685848
Proteomics Using Protease Alternatives to Trypsin Benefits from Sequential Digestion with Trypsin. PMID:32628831
Fast Quantitative Analysis of timsTOF PASEF Data with MSFragger and IonQuant. PMID:32616513
The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE). PMID:32598315
Photosynthetic Metabolism and Nitrogen Reshuffling Are Regulated by Reversible Cysteine Thiol Oxidation Following Nitrogen Deprivation in Chlamydomonas. PMID:32585825
Proteomics of Galápagos Marine Iguanas Links Function of Femoral Gland Proteins to the Immune System. PMID:32581039
Time-series proteomic study of the response of HK-2 cells to hyperglycemic, hypoxic diabetic-like milieu. PMID:32579601
Discovery of a Potent and Selective Covalent Inhibitor and Activity-Based Probe for the Deubiquitylating Enzyme UCHL1, with Antifibrotic Activity. PMID:32579346
System-wide analyses of the fission yeast poly(A)+ RNA interactome reveal insights into organization and function of RNA-protein complexes. PMID:32554781
Gain-of-function genetic screen of the kinome reveals BRSK2 as an inhibitor of the NRF2 transcription factor. PMID:32546533
Atomic-resolution mapping of transcription factor-DNA interactions by femtosecond laser crosslinking and mass spectrometry. PMID:32541649
Dynamic rewiring of the human interactome by interferon signaling. PMID:32539747
Extracellular Vesicle-Contained microRNA of C. elegans as a Tool to Decipher the Molecular Basis of Nematode Parasitism. PMID:32523895
Dynamic proteomic analysis of Aedes aegypti Aag-2 cells infected with Mayaro virus. PMID:32522239
Tandem Mass Tag (TMT)-based quantitative proteomics reveals potential targets associated with onset of Sub-clinical Mastitis in cows. PMID:32518370
A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing. PMID:32511329
Automation and low-cost proteomics for characterization of the protein corona: experimental methods for big data. PMID:32500258
A mouse SWATH-mass spectrometry reference spectral library enables deconvolution of species-specific proteomic alterations in human tumour xenografts. PMID:32493768
Quantitative proteomic analysis of trypsin-treated extracellular vesicles to identify the real-vesicular proteins. PMID:32489530
Identification of TUBB2A by quantitative proteomic analysis as a novel biomarker for the prediction of distant metastatic breast cancer. PMID:32489334
Pan-Proteomic Analysis and Elucidation of Protein Abundance among the Closely Related Brucella Species, Brucella abortus and Brucella melitensis. PMID:32486122
Determination of a Tumor-Promoting Microenvironment in Recurrent Medulloblastoma: A Multi-Omics Study of Cerebrospinal Fluid. PMID:32466393
Urinary proteomics links keratan sulfate degradation and lysosomal enzymes to early type 1 diabetes. PMID:32453760
Cdh1-APC Regulates Protein Synthesis and Stress Granules in Neurons through an FMRP-Dependent Mechanism. PMID:32434143
A Fast and Memory-Efficient Spectral Library Search Algorithm Using Locality-Sensitive Hashing. PMID:32415809
TGFam-Finder: a novel solution for target-gene family annotation in plants. PMID:32392385
The Hippo Pathway Transducers YAP1/TEAD Induce Acquired Resistance to Trastuzumab in HER2-Positive Breast Cancer. PMID:32365528
A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. PMID:32353859
Actinobacterial Degradation of 2-Hydroxyisobutyric Acid Proceeds via Acetone and Formyl-CoA by Employing a Thiamine-Dependent Lyase Reaction. PMID:32351493
Inhibition of the autophagic protein ULK1 attenuates axonal degeneration in vitro and in vivo, enhances translation, and modulates splicing. PMID:32341448
Longitudinal Transcriptomic, Proteomic, and Metabolomic Analysis of Citrus limon Response to Graft Inoculation by Candidatus Liberibacter asiaticus. PMID:32338516
Trichoplein binds PCM1 and controls endothelial cell function by regulating autophagy. PMID:32337819
Moesin (MSN) as a Novel Proteome-Based Diagnostic Marker for Early Detection of Invasive Bladder Urothelial Carcinoma in Liquid-Based Cytology. PMID:32326232
A proximity-labeling proteomic approach to investigate invadopodia molecular landscape in breast cancer cells. PMID:32321993
BioHackathon 2015: Semantics of data for life sciences and reproducible research. PMID:32308977
Quantitative Proteomics Reveals Docosahexaenoic Acid-Mediated Neuroprotective Effects in Lipopolysaccharide-Stimulated Microglial Cells. PMID:32302149
Unravelling the proteomic landscape of extracellular vesicles in prostate cancer by density-based fractionation of urine. PMID:32284825
Identifying Sialylation Linkages at the Glycopeptide Level by Glycosyltransferase Labeling Assisted Mass Spectrometry (GLAMS). PMID:32271005
HDACi mediate UNG2 depletion, dysregulated genomic uracil and altered expression of oncoproteins and tumor suppressors in B- and T-cell lines. PMID:32264925
SUMOylation Protects FASN Against Proteasomal Degradation in Breast Cancer Cells Treated with Grape Leaf Extract. PMID:32244364
Temporal Dynamics of High-Density Lipoprotein Proteome in Diet-Controlled Subjects with Type 2 Diabetes. PMID:32235466
Comprehensive chemical proteomics for target deconvolution of the redox active drug auranofin. PMID:32199331
A dynamic charge-charge interaction modulates PP2A:B56 substrate recruitment. PMID:32195664
Proteome and Phosphoproteome Changes Associated with Prognosis in Acute Myeloid Leukemia. PMID:32192169
A multi-layered structure of the interphase chromocenter revealed by proximity-based biotinylation. PMID:32182352
Standardizing Proteomics Workflow for Liquid Chromatography-Mass Spectrometry: Technical and Statistical Considerations. PMID:32148359
In silico Prediction of Protein-Protein Interaction Network Induced by Manganese II in Meyerozyma guilliermondii. PMID:32140149
Probing the Environment of Emerin by Enhanced Ascorbate Peroxidase 2 (APEX2)-Mediated Proximity Labeling. PMID:32138363
Quantitative Profiling of the Human Substantia Nigra Proteome from Laser-capture Microdissected FFPE Tissue. PMID:32132230
A Small Effort for Researchers, a Big Gain for Soil Metaproteomics. PMID:32117118
Tetraspanin-6 negatively regulates exosome production. PMID:32108028
Site-specific 5-hydroxytryptophan incorporation into apolipoprotein A-I impairs cholesterol efflux activity and high-density lipoprotein biogenesis. PMID:32098873
Proline: an efficient and user-friendly software suite for large-scale proteomics. PMID:32096818
Immunoproteasome expression is associated with better prognosis and response to checkpoint therapies in melanoma. PMID:32060274
3D mapping of native extracellular matrix reveals cellular responses to the microenvironment. PMID:32055794
Maternal Larp6 controls oocyte development, chorion formation and elevation. PMID:32054660
Full-Spectrum Prediction of Peptides Tandem Mass Spectra using Deep Neural Network. PMID:32053352
Time-resolved proteomic profile of Amblyomma americanum tick saliva during feeding. PMID:32049966
Matrix-Matched Calibration Curves for Assessing Analytical Figures of Merit in Quantitative Proteomics. PMID:32037841
Exposure to the Florida red tide dinoflagellate, Karenia brevis, and its associated brevetoxins induces ecophysiological and proteomic alterations in Porites astreoides. PMID:32032360
Phenotypic Adaption of Pseudomonas aeruginosa by Hacking Siderophores Produced by Other Microorganisms. PMID:32024770
Kinase Inhibitor Treatment of Patients with Advanced Cancer Results in High Tumor Drug Concentrations and in Specific Alterations of the Tumor Phosphoproteome. PMID:32024067
The molecular aetiology of tRNA synthetase depletion: induction of a GCN4 amino acid starvation response despite homeostatic maintenance of charged tRNA levels. PMID:32016368
17β-Estradiol Delivered in Eye Drops: Evidence of Impact on Protein Networks and Associated Biological Processes in the Rat Retina through Quantitative Proteomics. PMID:32012756
Machine Learning Strategy That Leverages Large Data sets to Boost Statistical Power in Small-Scale Experiments. PMID:32009418
Proteomic Studies for the Investigation of γ-Globin Induction by Decitabine in Human Primary Erythroid Progenitor Cultures. PMID:31947809
Proteomics profiling and pathway analysis of hippocampal aging in rhesus monkeys. PMID:31941443
The Arabidopsis Protein CGL20 Is Required for Plastid 50S Ribosome Biogenesis. PMID:31937683
Guidance Document: Validation of a High-Performance Liquid Chromatography-Tandem Mass Spectrometry Immunopeptidomics Assay for the Identification of HLA Class I Ligands Suitable for Pharmaceutical Therapies. PMID:31937595
Large-scale and significant expression from pseudogenes in Sodalis glossinidius - a facultative bacterial endosymbiont. PMID:31922467
Development of a Retinal-Based Probe for the Profiling of Retinaldehyde Dehydrogenases in Cancer Cells. PMID:31893226
Sweet google O' mine-The importance of online search engines for MS-facilitated, database-independent identification of peptide-encoded book prefaces: A EUPA YPIC challenge entry. PMID:31890548
Peptidomic Analysis of Urine from Youths with Early Type 1 Diabetes Reveals Novel Bioactivity of Uromodulin Peptides In Vitro. PMID:31879271
Characterization of a human liver reference material fit for proteomics applications. PMID:31852895
The Proteomic Landscape of Pancreatic Ductal Adenocarcinoma Liver Metastases Identifies Molecular Subtypes and Associations with Clinical Response. PMID:31848187
ProTargetMiner as a proteome signature library of anticancer molecules for functional discovery. PMID:31844049
Dynamic proteome profiling of human pluripotent stem cell-derived pancreatic progenitors. PMID:31828876
Constrained De Novo Sequencing of neo-Epitope Peptides using Tandem Mass Spectrometry. PMID:31819927
Proteogenomics of Colorectal Cancer Liver Metastases: Complementing Precision Oncology with Phenotypic Data. PMID:31805664
Cardioinformatics: the nexus of bioinformatics and precision cardiology. PMID:31802103
Endothelial EphB4 maintains vascular integrity and transport function in adult heart. PMID:31782728
The Human Immunopeptidome Project: A Roadmap to Predict and Treat Immune Diseases. PMID:31744855
ProtRank: bypassing the imputation of missing values in differential expression analysis of proteomic data. PMID:31706265
The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics. PMID:31686107
Multifunctional temozolomide-loaded lipid superparamagnetic nanovectors: dual targeting and disintegration of glioblastoma spheroids by synergic chemotherapy and hyperthermia treatment. PMID:31663592
Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0. PMID:31599596
Structure of the inner kinetochore CCAN complex assembled onto a centromeric nucleosome. PMID:31578520
Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data. PMID:31573204
Quantitative Proteomics of Uukuniemi Virus-host Cell Interactions Reveals GBF1 as Proviral Host Factor for Phleboviruses. PMID:31570497
Inhibition of TOR in Chlamydomonas reinhardtii Leads to Rapid Cysteine Oxidation Reflecting Sustained Physiological Changes. PMID:31569396
Overexpression of HMG-CoA synthase promotes Arabidopsis root growth and adversely affects glucosinolate biosynthesis. PMID:31557302
Vegetative Cell and Spore Proteomes of Clostridioides difficile Show Finite Differences and Reveal Potential Protein Markers. PMID:31557040
An integrated workflow for crosslinking mass spectrometry. PMID:31556486
Mice depleted for Exchange Proteins Directly Activated by cAMP (Epac) exhibit irregular liver regeneration in response to partial hepatectomy. PMID:31551444
Liver proteome dataset of Sparus aurata exposed to low temperatures. PMID:31528672
Phosphorylation of the multifunctional signal transducer B-cell adaptor protein (BCAP) promotes recruitment of multiple SH2/SH3 proteins including GRB2. PMID:31527084
Tandem RNA isolation reveals functional rearrangement of RNA-binding proteins on CDKN1B/p27Kip1 3'UTRs in cisplatin treated cells. PMID:31522610
Proteomic mapping by rapamycin-dependent targeting of APEX2 identifies binding partners of VAPB at the inner nuclear membrane. PMID:31519755
HDL flux is higher in patients with nonalcoholic fatty liver disease. PMID:31503515
High-throughput proteomic analysis of FFPE tissue samples facilitates tumor stratification. PMID:31495056
Interrogation of a live-attenuated enterotoxigenic Escherichia coli vaccine highlights features unique to wild-type infection. PMID:31482013
A dataset describing a suite of novel antibody reagents for the RAS signaling network. PMID:31467290
Delineating the role of FANCA in glucose-stimulated insulin secretion in β cells through its protein interactome. PMID:31461451
Hepatic proteome network data in zebrafish (Danio rerio) liver following dieldrin exposure. PMID:31453304
Form III RubisCO-mediated transaldolase variant of the Calvin cycle in a chemolithoautotrophic bacterium. PMID:31451656
Proteomics Links Ubiquitin Chain Topology Change to Transcription Factor Activation. PMID:31444107
Strong anion exchange-mediated phosphoproteomics reveals extensive human non-canonical phosphorylation. PMID:31433507
Progress on Identifying and Characterizing the Human Proteome: 2019 Metrics from the HUPO Human Proteome Project. PMID:31430157
Vascular Endothelial Receptor Tyrosine Phosphatase: Identification of Novel Substrates Related to Junctions and a Ternary Complex with EPHB4 and TIE2. PMID:31427368
Matrisome Properties of Scaffolds Direct Fibroblasts in Idiopathic Pulmonary Fibrosis. PMID:31426504
Type II Epithelial-Mesenchymal Transition Upregulates Protein N-Glycosylation To Maintain Proteostasis and Extracellular Matrix Production. PMID:31424945
Bortezomib administered prior to temozolomide depletes MGMT, chemosensitizes glioblastoma with unmethylated MGMT promoter and prolongs animal survival. PMID:31413318
Differential Protein Expression Profiles of Bronchoalveolar Lavage Fluid Following Lipopolysaccharide-Induced Direct and Indirect Lung Injury in Mice. PMID:31373289
Data on the expression of SRPK1a in mammals. PMID:31334320
Towards a standardized bioinformatics infrastructure for N- and O-glycomics. PMID:31332201
Multibatch TMT Reveals False Positives, Batch Effects and Missing Values. PMID:31332098
Analysis of networks of host proteins in the early time points following HIV transduction. PMID:31315557
PTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline. PMID:31290668
A Targeted Mass Spectrometry Strategy for Developing Proteomic Biomarkers: A Case Study of Epithelial Ovarian Cancer. PMID:31289117
Proteomic study of the membrane components of signalling cascades of Botrytis cinerea controlled by phosphorylation. PMID:31285484
Quantitative Photo-crosslinking Mass Spectrometry Revealing Protein Structure Response to Environmental Changes. PMID:31274288
VE-PTP inhibition stabilizes endothelial junctions by activating FGD5. PMID:31267715
A molecular switch from STAT2-IRF9 to ISGF3 underlies interferon-induced gene transcription. PMID:31266943
Proteomics INTegrator (PINT): An Online Tool To Store, Query, and Visualize Large Proteomics Experiment Results. PMID:31260318
ARIH2 Is a Vif-Dependent Regulator of CUL5-Mediated APOBEC3G Degradation in HIV Infection. PMID:31253590
Cross-species complementation reveals conserved functions for EARLY FLOWERING 3 between monocots and dicots. PMID:31245666
Early-Onset Molecular Derangements in the Olfactory Bulb of Tg2576 Mice: Novel Insights Into the Stress-Responsive Olfactory Kinase Dynamics in Alzheimer's Disease. PMID:31244650
CTDP1 regulates breast cancer survival and DNA repair through BRCT-specific interactions with FANCI. PMID:31240132
Catabolism of Nucleic Acids by a Cystic Fibrosis Pseudomonas aeruginosa Isolate: An Adaptive Pathway to Cystic Fibrosis Sputum Environment. PMID:31214142
The heparin-binding proteome in normal pancreas and murine experimental acute pancreatitis. PMID:31211768
Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages. PMID:31208443
Combined transcriptomic and proteomic analysis reveals a diversity of venom-related and toxin-like peptides expressed in the mat anemone Zoanthus natalensis (Cnidaria, Hexacorallia). PMID:31203412
Quantitative Proteome Analysis Reveals Changes in the Protein Landscape During Grape Berry Development With a Focus on Vacuolar Transport Proteins. PMID:31156689
A Combined N-terminomics and Shotgun Proteomics Approach to Investigate the Responses of Human Cells to Rapamycin and Zinc at the Mitochondrial Level. PMID:31154437
Identification of new transmembrane proteins concentrated at the nuclear envelope using organellar proteomics of mesenchymal cells. PMID:31142202
The human brain somatostatin interactome: SST binds selectively to P-type family ATPases. PMID:31136617
MiR-135a-5p Is Critical for Exercise-Induced Adult Neurogenesis. PMID:31130358
Cadmium tolerance pathway in Anopheles gambiae senso stricto. PMID:31121147
Airway response to respiratory syncytial virus has incidental antibacterial effects. PMID:31101811
MARMoSET - Extracting Publication-ready Mass Spectrometry Metadata from RAW Files. PMID:31097673
The most abundant cyst wall proteins of Acanthamoeba castellanii are lectins that bind cellulose and localize to distinct structures in developing and mature cyst walls. PMID:31095564
Junctional tumor suppressors interact with 14-3-3 proteins to control planar spindle alignment. PMID:31088859
Proteomics Standards Initiative Extended FASTA Format. PMID:31081335
R-DeeP: Proteome-wide and Quantitative Identification of RNA-Dependent Proteins by Density Gradient Ultracentrifugation. PMID:31076284
Protein expression profiling of plasma and lungs at different stages of metastatic development in a human triple negative breast cancer xenograft model. PMID:31042781
Exploring Regulation of Protein O-Glycosylation in Isogenic Human HEK293 Cells by Differential O-Glycoproteomics. PMID:31040225
Molecular insights into an ancient form of Paget's disease of bone. PMID:31036632
The Plethora of Angiotensin-Converting Enzyme-Processed Peptides in Mouse Plasma. PMID:31021607
MetaMSD: meta analysis for mass spectrometry data. PMID:30993040
Plasma protein adsorption on Fe3O4-PEG nanoparticles activates the complement system and induces an inflammatory response. PMID:30988608
Biomarkers of post-discharge mortality among children with complicated severe acute malnutrition. PMID:30979939
Sensitive Quantitative Proteomics of Human Hematopoietic Stem and Progenitor Cells by Data-independent Acquisition Mass Spectrometry. PMID:30975897
ECT2 associated to PRICKLE1 are poor-prognosis markers in triple-negative breast cancer. PMID:30971775
A complex containing lysine-acetylated actin inhibits the formin INF2. PMID:30962575
A fungal substrate mimicking molecule suppresses plant immunity via an inter-kingdom conserved motif. PMID:30952847
WNT5A is transported via lipoprotein particles in the cerebrospinal fluid to regulate hindbrain morphogenesis. PMID:30940800
Sweet and Sour Ehrlichia: Glycoproteomics and Phosphoproteomics Reveal New Players in Ehrlichia ruminantium Physiology and Pathogenesis. PMID:30930869
SUMOylation promotes protective responses to DNA-protein crosslinks. PMID:30914427
A conserved major facilitator superfamily member orchestrates a subset of O-glycosylation to aid macrophage tissue invasion. PMID:30910009
Evaluating Chromatographic Approaches for the Quantitative Analysis of a Human Proteome on Orbitrap-Based Mass Spectrometry Systems. PMID:30884231
Assembly of a heptameric STRIPAK complex is required for coordination of light-dependent multicellular fungal development with secondary metabolism in Aspergillus nidulans. PMID:30883543
Evaluation of linear models and missing value imputation for the analysis of peptide-centric proteomics. PMID:30871482
Consequences of impaired 1-MDa TIC complex assembly for the abundance and composition of chloroplast high-molecular mass protein complexes. PMID:30865669
Water stress combined with sulfur deficiency in pea affects yield components but mitigates the effect of deficiency on seed globulin composition. PMID:30855667
Boosting to Amplify Signal with Isobaric Labeling (BASIL) Strategy for Comprehensive Quantitative Phosphoproteomic Characterization of Small Populations of Cells. PMID:30843680
The impact of the glucagon-like peptide 1 receptor agonist liraglutide on the streptozotocin-induced diabetic mouse kidney proteome. PMID:30806030
Proteome profiling of triple negative breast cancer cells overexpressing NOD1 and NOD2 receptors unveils molecular signatures of malignant cell proliferation. PMID:30791886
Both cold and sub-zero acclimation induce cell wall modification and changes in the extracellular proteome in Arabidopsis thaliana. PMID:30783145
Engineered transfer RNAs for suppression of premature termination codons. PMID:30778053
A deep proteome and transcriptome abundance atlas of 29 healthy human tissues. PMID:30777892
Intact protein mass spectrometry reveals intraspecies variations in venom composition of a local population of Vipera kaznakovi in Northeastern Turkey. PMID:30763806
Chaperone activation and client binding of a 2-cysteine peroxiredoxin. PMID:30737390
Integration of Two In-depth Quantitative Proteomics Approaches Determines the Kallikrein-related Peptidase 7 (KLK7) Degradome in Ovarian Cancer Cell Secretome. PMID:30705123
Quantitative profiling brain proteomes revealed mitochondrial dysfunction in Alzheimer's disease. PMID:30691479
Human Testis Phosphoproteome Reveals Kinases as Potential Targets in Spermatogenesis and Testicular Cancer. PMID:30683686
Podocyte GSK3 is an evolutionarily conserved critical regulator of kidney function. PMID:30679422
Proteo-Transcriptomic Dynamics of Cellular Response to HIV-1 Infection. PMID:30659199
Sucrose Metabolism in Haloarchaea: Reassessment Using Genomics, Proteomics, and Metagenomics. PMID:30658981
Naja annulifera Snake: New insights into the venom components and pathogenesis of envenomation. PMID:30657756
Molecular mechanisms of bleeding disorderassociated GFI1BQ287* mutation and its affected pathways in megakaryocytes and platelets. PMID:30655368
Data-independent Acquisition Improves Quantitative Cross-linking Mass Spectrometry. PMID:30651306
Clustering of Tau fibrils impairs the synaptic composition of α3-Na+/K+-ATPase and AMPA receptors. PMID:30630857
A Mass Spectrometry-Based Profiling of Interactomes of Viral DDB1- and Cullin Ubiquitin Ligase-Binding Proteins Reveals NF-κB Inhibitory Activity of the HIV-2-Encoded Vpx. PMID:30619335
Decreased Antibiotic Susceptibility Driven by Global Remodeling of the Klebsiella pneumoniae Proteome. PMID:30617156
Predicting peptide presentation by major histocompatibility complex class I: an improved machine learning approach to the immunopeptidome. PMID:30611210
Membrane Proteomes and Ion Transporters in Bacillus anthracis and Bacillus subtilis Dormant and Germinating Spores. PMID:30602489
Human Platelet Protein Ubiquitylation and Changes following GPVI Activation. PMID:30597505
Cross-ID: Analysis and Visualization of Complex XL-MS-Driven Protein Interaction Networks. PMID:30575379
Combined Targeted Analysis of Metabolites and Proteins in Tear Fluid With Regard to Clinical Applications. PMID:30564511
Shotgun proteomics data on the impact of hyperglycaemia on platelet protein acetylation by aspirin. PMID:30560156
Laboratory strains of Bacillus anthracis exhibit pervasive alteration in expression of proteins related to sporulation under laboratory conditions relative to genetically related wild strains. PMID:30557394
Intelligence Algorithms for Protein Classification by Mass Spectrometry. PMID:30534555
Glucose intake hampers PKA-regulated HSP90 chaperone activity. PMID:30516470
Proteome-Wide Analysis of Cysteine Reactivity during Effector-Triggered Immunity. PMID:30510037
Profiling the proteomic inflammatory state of human astrocytes using DIA mass spectrometry. PMID:30501627
Metabolic adaptation of wheat grain contributes to a stable filling rate under heat stress. PMID:30476278
Deep proteome of human nNOS/NOS1-positive versus MOCK SH-SY5Y neuroblastoma cells under full nutrition, serum free starvation and rapamycin treatment. PMID:30456249
PPARγ maintains the metabolic heterogeneity and homeostasis of renal tubules. PMID:30420298
Novel protein signatures suggest progression to muscular invasiveness in bladder cancer. PMID:30419021
Proteome evolution under non-substitutable resource limitation. PMID:30405128
Predicting bacterial growth conditions from mRNA and protein abundances. PMID:30388153
Soluble Siglec-14 glycan-recognition protein is generated by alternative splicing and suppresses myeloid inflammatory responses. PMID:30377253
Organisms with alternative genetic codes resolve unassigned codons via mistranslation and ribosomal rescue. PMID:30375330
Nitric oxide contributes to protein homeostasis by S-nitrosylations of the chaperone HSPA8 and the ubiquitin ligase UBE2D. PMID:30368041
SNAREs SYP121 and SYP122 Mediate the Secretion of Distinct Cargo Subsets. PMID:30348815
Peanut Stunt Virus and Its Satellite RNA Trigger Changes in Phosphorylation in N. benthamiana Infected Plants at the Early Stage of the Infection. PMID:30340407
PWWP2A binds distinct chromatin moieties and interacts with an MTA1-specific core NuRD complex. PMID:30327463
Probing the contribution of individual polypeptide GalNAc-transferase isoforms to the O-glycoproteome by inducible expression in isogenic cell lines. PMID:30327431
Mining the cellular inventory of pyridoxal phosphate-dependent enzymes with functionalized cofactor mimics. PMID:30297752
Changes in mRNA abundance drive shuttling of RNA binding proteins, linking cytoplasmic RNA degradation to transcription. PMID:30281021
Chromosome 17 Missing Proteins: Recent Progress and Future Directions as Part of the neXt-MP50 Challenge. PMID:30280577
Quantitative Proteomics of the Mitotic Chromosome Scaffold Reveals the Association of BAZ1B with Chromosomal Axes. PMID:30266865
AP-4 vesicles contribute to spatial control of autophagy via RUSC-dependent peripheral delivery of ATG9A. PMID:30262884
Updates of the In-Gel Digestion Method for Protein Analysis by Mass Spectrometry. PMID:30259661
Identification of Novel Natural Substrates of Fibroblast Activation Protein-alpha by Differential Degradomics and Proteomics. PMID:30257879
Time-resolved proteomics of adenovirus infected cells. PMID:30252905
iProX: an integrated proteome resource. PMID:30252093
Proteome Profiling by Label-Free Mass Spectrometry Reveals Differentiated Response of Campylobacter jejuni 81-176 to Sublethal Concentrations of Bile Acids. PMID:30246935
IgG-Independent Co-aggregation of FcεRI and FcγRIIB Results in LYN- and SHIP1-Dependent Tyrosine Phosphorylation of FcγRIIB in Murine Bone Marrow-Derived Mast Cells. PMID:30210494
Evaluation of Unconventional Protein Secretion by Saccharomyces cerevisiae and other Fungi. PMID:30200367
High-throughput and high-sensitivity phosphoproteomics with the EasyPhos platform. PMID:30190555
Combining discovery and targeted proteomics reveals a prognostic signature in oral cancer. PMID:30185791
A Bordetella pertussis MgtC homolog plays a role in the intracellular survival. PMID:30161230
Dissecting the subcellular membrane proteome reveals enrichment of H+ (co-)transporters and vesicle trafficking proteins in acidic zones of Chara internodal cells. PMID:30157181
Arabidopsis RNA processing factor SERRATE regulates the transcription of intronless genes. PMID:30152752
Plasmodium Parasites Viewed through Proteomics. PMID:30146456
Deciphering the oviductal extracellular vesicles content across the estrous cycle: implications for the gametes-oviduct interactions and the environment of the potential embryo. PMID:30134841
Balancing sufficiency and impact in reporting standards for mass spectrometry imaging experiments. PMID:30124809
Spatial and temporal proteome dynamics of glioma cells during oncolytic adenovirus Delta-24-RGD infection. PMID:30123426
Gingival Exudatome Dynamics Implicate Inhibition of the Alternative Complement Pathway in the Protective Action of the C3 Inhibitor Cp40 in Nonhuman Primate Periodontitis. PMID:30111112
Evaluation of Serum Glycoprotein Biomarker Candidates for Detection of Esophageal Adenocarcinoma and Surveillance of Barrett's Esophagus. PMID:30097534
Comparative proteomics reveals a diagnostic signature for pulmonary head-and-neck cancer metastasis. PMID:30097507
Multi-region proteome analysis quantifies spatial heterogeneity of prostate tissue biomarkers. PMID:30090875
PUX10 Is a Lipid Droplet-Localized Scaffold Protein That Interacts with CELL DIVISION CYCLE48 and Is Involved in the Degradation of Lipid Droplet Proteins. PMID:30087207
Comprehensive Snake Venomics of the Okinawa Habu Pit Viper, Protobothrops flavoviridis, by Complementary Mass Spectrometry-Guided Approaches. PMID:30060607
Global quantitative TPA-based proteomics of mouse brain structures reveals significant alterations in expression of proteins involved in neuronal plasticity during aging. PMID:30026405
Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei. PMID:30021884
Universal Plant Phosphoproteomics Workflow and Its Application to Tomato Signaling in Response to Cold Stress. PMID:30006488
The value of universally available raw NMR data for transparency, reproducibility, and integrity in natural product research. PMID:30003207
Proteomics and Phosphoproteomics of Heat Stress-Responsive Mechanisms in Spinach. PMID:29997633
Screening for biomarkers reflecting the progression of Babesia microti infection. PMID:29970143
Quantitative Proteomic Analysis Identifies AHNAK (Neuroblast Differentiation-associated Protein AHNAK) as a Novel Candidate Biomarker for Bladder Urothelial Carcinoma Diagnosis by Liquid-based Cytology. PMID:29950347
Site-specific characterization of endogenous SUMOylation across species and organs. PMID:29942033
Temperature-induced changes in the wheat phosphoproteome reveal temperature-regulated interconversion of phosphoforms. PMID:29939309
Proteomics Reveals Scope of Mycolactone-mediated Sec61 Blockade and Distinctive Stress Signature. PMID:29915147
Public proteomics data: How the field has evolved from sceptical inquiry to the promise of in silico proteomics. PMID:29900110
⿿Comparing the proteome of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human tissue samples. PMID:29900094
Quantitative phosphoproteomic analysis of the molecular substrates of sleep need. PMID:29899451
Negative feedback via RSK modulates Erk-dependent progression from naïve pluripotency. PMID:29895711
Encoding human serine phosphopeptides in bacteria for proteome-wide identification of phosphorylation-dependent interactions. PMID:29889213
Calcium-activated Chloride Channel Regulator 1 (CLCA1) Controls Mucus Expansion in Colon by Proteolytic Activity. PMID:29885864
The coupling of transcriptome and proteome adaptation during development and heat stress response of tomato pollen. PMID:29884134
Weibel-Palade Body Localized Syntaxin-3 Modulates Von Willebrand Factor Secretion From Endothelial Cells. PMID:29880488
Synergy of Sodium Nitroprusside and Nitrate in Inhibiting the Activity of Sulfate Reducing Bacteria in Oil-Containing Bioreactors. PMID:29867883
Unraveling Gardnerella vaginalis Surface Proteins Using Cell Shaving Proteomics. PMID:29867878
ProteomeTools: Systematic Characterization of 21 Post-translational Protein Modifications by Liquid Chromatography Tandem Mass Spectrometry (LC-MS/MS) Using Synthetic Peptides. PMID:29848782
Aggregatibacter actinomycetemcomitans H-NS promotes biofilm formation and alters protein dynamics of other species within a polymicrobial oral biofilm. PMID:29844920
Biochemical Characterization of Isoniazid-resistant Mycobacterium tuberculosis: Can the Analysis of Clonal Strains Reveal Novel Targetable Pathways? PMID:29844232
Metaproteomics method to determine carbon sources and assimilation pathways of species in microbial communities. PMID:29844191
Dual phosphorylation of Ric-8A enhances its ability to mediate G protein α subunit folding and to stimulate guanine nucleotide exchange. PMID:29844055
Minimal Information About an Immuno-Peptidomics Experiment (MIAIPE). PMID:29791771
Loss of TIGAR Induces Oxidative Stress and Meiotic Defects in Oocytes from Obese Mice. PMID:29776966
Aurora B opposes PP1 function in mitosis by phosphorylating the conserved PP1-binding RVxF motif in PP1 regulatory proteins. PMID:29764992
Fragment-derived inhibitors of human N-myristoyltransferase block capsid assembly and replication of the common cold virus. PMID:29760414
Differentially abundant proteins associated with heterosis in the primary roots of popcorn. PMID:29758068
Quantitative Proteomics Analysis of Sporadic Medullary Thyroid Cancer Reveals FN1 as a Potential Novel Candidate Prognostic Biomarker. PMID:29739896
Identification of brain antigens recognized by autoantibodies in experimental autoimmune encephalomyelitis-induced animals treated with etomoxir or interferon-β. PMID:29728570
Evaluation of NCI-7 Cell Line Panel as a Reference Material for Clinical Proteomics. PMID:29718670
Quantitative proteomic analysis of pancreatic cyst fluid proteins associated with malignancy in intraductal papillary mucinous neoplasms. PMID:29713252
NUFIP1 is a ribosome receptor for starvation-induced ribophagy. PMID:29700228
Expansion of DUB functionality generated by alternative isoforms - USP35, a case study. PMID:29685892
The phosphorylated redox proteome of Chlamydomonas reinhardtii: Revealing novel means for regulation of protein structure and function. PMID:29673699
Development of a Prototype System for Archiving Integrative/Hybrid Structure Models of Biological Macromolecules. PMID:29657133
Comparative qualitative phosphoproteomics analysis identifies shared phosphorylation motifs and associated biological processes in evolutionary divergent plants. PMID:29654922
Remote Atmospheric Pressure Infrared Matrix-Assisted Laser Desorption-Ionization Mass Spectrometry (Remote IR-MALDI MS) of Proteins. PMID:29653959
Polylysine is a Proteostasis Network-Engaging Structural Determinant. PMID:29634277
Extensive and systematic rewiring of histone post-translational modifications in cancer model systems. PMID:29618087
Quantifying extracellular matrix turnover in human lung scaffold cultures. PMID:29615673
Proteomic fingerprinting in HIV/HCV co-infection reveals serum biomarkers for the diagnosis of fibrosis staging. PMID:29608613
Interactome analysis of transforming growth factor-β-activated kinase 1 in Helicobacter pylori-infected cells revealed novel regulators tripartite motif 28 and CDC37. PMID:29581850
Comparative Proteomics of Dying and Surviving Cancer Cells Improves the Identification of Drug Targets and Sheds Light on Cell Life/Death Decisions. PMID:29572246
Benchmarking common quantification strategies for large-scale phosphoproteomics. PMID:29535314
Paclitaxel Treatment and Proprotein Convertase 1/3 (PC1/3) Knockdown in Macrophages is a Promising Antiglioma Strategy as Revealed by Proteomics and Cytotoxicity Studies. PMID:29531019
Murine Gbp1 and Gbp2 are ubiquitinated independent of Toxoplasma gondii infection. PMID:29510761
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
Mass spectrometric evidence for neuropeptide-amidating enzymes in Caenorhabditis elegans. PMID:29487130
"One-Pot" Sample Processing Method for Proteome-Wide Analysis of Microbial Cells and Spores. PMID:29484825
Comparative iTRAQ analysis of protein abundance in the human sinoatrial node and working cardiomyocytes. PMID:29484645
Comparative and network-based proteomic analysis of low dose ethanol- and lipopolysaccharide-induced macrophages. PMID:29481576
A lost opportunity for science: journals promote data sharing in metabolomics but do not enforce it. PMID:29479297
Quantitative Proteomics of Synaptosomal Fractions in a Rat Overexpressing Human DISC1 Gene Indicates Profound Synaptic Dysregulation in the Dorsal Striatum. PMID:29467617
Proteome analysis of Aspergillus flavus isolate-specific responses to oxidative stress in relationship to aflatoxin production capability. PMID:29467403
Angiogenic patterning by STEEL, an endothelial-enriched long noncoding RNA. PMID:29467285
Proteomic profiling of VCP substrates links VCP to K6-linked ubiquitylation and c-Myc function. PMID:29467282
Proteomic analysis of the human retina reveals region-specific susceptibilities to metabolic- and oxidative stress-related diseases. PMID:29466423
BAG3 Overexpression and Cytoprotective Autophagy Mediate Apoptosis Resistance in Chemoresistant Breast Cancer Cells. PMID:29462756
Novel proteins from proteomic analysis of the trunk disease fungus Lasiodiplodia theobromae (Botryosphaeriaceae). PMID:29450146
Shotgun proteomics deciphered age/division of labor-related functional specification of three honeybee (Apis mellifera L.) exocrine glands. PMID:29447197
Quantitative proteome profile of water deficit stress responses in eastern cottonwood (Populus deltoides) leaves. PMID:29447168
The Unique Features of Proteins Depicting the Chicken Amniotic Fluid. PMID:29444982
Initiating Events in Direct Cardiomyocyte Reprogramming. PMID:29444441
Phosphoproteomic analysis of the antitumor effects of ginsenoside Rg3 in human breast cancer cells. PMID:29435015
Mass Spectrometry-Based Proteomic Profiling of Thrombotic Material Obtained by Endovascular Thrombectomy in Patients with Ischemic Stroke. PMID:29414888
Analysis of essential gene dynamics under antibiotic stress in Streptococcus sanguinis. PMID:29393020
Large-scale intact glycopeptide identification by Mascot database search. PMID:29391424
The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data. PMID:29386051
Studies on the Proteome of Human Hair - Identification of Histones and Deamidated Keratins. PMID:29371649
Proteomics Profiling of CLL Versus Healthy B-cells Identifies Putative Therapeutic Targets and a Subtype-independent Signature of Spliceosome Dysregulation. PMID:29367434
Spatial Tissue Proteomics Quantifies Inter- and Intratumor Heterogeneity in Hepatocellular Carcinoma (HCC). PMID:29363612
Adrenergic receptor stimulation suppresses oxidative metabolism in isolated rat islets and Min6 cells. PMID:29360563
The histone methyltransferase DOT1L inhibits osteoclastogenesis and protects against osteoporosis. PMID:29348610
Flagellin Glycoproteomics of the Periodontitis Associated Pathogen Selenomonas sputigena Reveals Previously Not Described O-glycans and Rhamnose Fragment Rearrangement Occurring on the Glycopeptides. PMID:29339411
Molecular and functional signatures in a novel Alzheimer's disease mouse model assessed by quantitative proteomics. PMID:29338754
Donor age affects proteome composition of tenocyte-derived engineered tendon. PMID:29338716
The Plantain Proteome, a Focus on Allele Specific Proteins Obtained from Plantain Fruits. PMID:29333696
Comparative Venomics of the Vipera ammodytes transcaucasiana and Vipera ammodytes montandoni from Turkey Provides Insights into Kinship. PMID:29301241
Reciprocal Regulation of the TOR Kinase and ABA Receptor Balances Plant Growth and Stress Response. PMID:29290610
Exploring the molecular complexity of Triatoma dimidiata sialome. PMID:29288089
Combined 15N-Labeling and TandemMOAC Quantifies Phosphorylation of MAP Kinase Substrates Downstream of MKK7 in Arabidopsis. PMID:29276520
Hypoxic 3D in vitro culture models reveal distinct resistance processes to TKIs in renal cancer cells. PMID:29270287
Stoichiometry, Absolute Abundance, and Localization of Proteins in the Bacillus cereus Spore Coat Insoluble Fraction Determined Using a QconCAT Approach. PMID:29260567
On the Reproducibility of Label-Free Quantitative Cross-Linking/Mass Spectrometry. PMID:29256016
Specificity of Phosphorylation Responses to Mitogen Activated Protein (MAP) Kinase Pathway Inhibitors in Melanoma Cells. PMID:29255136
Mechanisms Connecting the Conserved Protein Kinases Ssp1, Kin1, and Pom1 in Fission Yeast Cell Polarity and Division. PMID:29249658
Proteomic Characterization of Prostate Cancer to Distinguish Nonmetastasizing and Metastasizing Primary Tumors and Lymph Node Metastases. PMID:29248718
High-throughput and Sensitive Immunopeptidomics Platform Reveals Profound Interferonγ-Mediated Remodeling of the Human Leukocyte Antigen (HLA) Ligandome. PMID:29242379
Relative Quantitative Proteomic Analysis of Brucella abortus Reveals Metabolic Adaptation to Multiple Environmental Stresses. PMID:29238329
N-linked Glycan Micro-heterogeneity in Glycoproteins of Arabidopsis. PMID:29237727
Proteome-wide Analysis of Lysine 2-hydroxyisobutyrylation in Developing Rice (Oryza sativa) Seeds. PMID:29235492
Eml1 loss impairs apical progenitor spindle length and soma shape in the developing cerebral cortex. PMID:29229923
Multi-field query expansion is effective for biomedical dataset retrieval. PMID:29220457
Tetraspanin CD63 Bridges Autophagic and Endosomal Processes To Regulate Exosomal Secretion and Intracellular Signaling of Epstein-Barr Virus LMP1. PMID:29212935
Optimization of quantitative proteomic analysis of clots generated from plasma of patients with venous thromboembolism. PMID:29209155
Proteomics and metabolomics identify molecular mechanisms of aging potentially predisposing for chronic lymphocytic leukemia. PMID:29196338
Spectral Library Based Analysis of Arginine Phosphorylations in Staphylococcus aureus. PMID:29183913
Cerebrospinal fluid markers to distinguish bacterial meningitis from cerebral malaria in children. PMID:29181450
Proteomic profiling identifies markers for inflammation-related tumor-fibroblast interaction. PMID:29176937
Comparison of Quantitative Mass Spectrometry Platforms for Monitoring Kinase ATP Probe Uptake in Lung Cancer. PMID:29164889
Quantitative Mass Spectrometry-Based Proteomic Profiling for Precision Medicine in Prostate Cancer. PMID:29164064
A Comparative Proteome Profile of Female Mouse Gonads Suggests a Tight Link between the Electron Transport Chain and Meiosis Initiation. PMID:29158290
Scrambled eggs: Proteomic portraits and novel biomarkers of egg quality in zebrafish (Danio rerio). PMID:29145436
The Ndc80 complex targets Bod1 to human mitotic kinetochores. PMID:29142109
Fast, axis-agnostic, dynamically summarized storage and retrieval for mass spectrometry data. PMID:29141005
Systematic proteomic analysis of LRRK2-mediated Rab GTPase phosphorylation establishes a connection to ciliogenesis. PMID:29125462
Cell-type-specific metabolic labeling of nascent proteomes in vivo. PMID:29106408
'Hotspots' of Antigen Presentation Revealed by Human Leukocyte Antigen Ligandomics for Neoantigen Prioritization. PMID:29104575
Preservation of the metaproteome: variability of protein preservation in ancient dental calculus. PMID:29098079
RNA sequencing and proteomics approaches reveal novel deficits in the cortex of Mecp2-deficient mice, a model for Rett syndrome. PMID:29090078
Quantitative proteomic Analysis Reveals up-regulation of caveolin-1 in FOXP3-overexpressed human gastric cancer cells. PMID:29089565
Proteomics dataset: The colon mucosa from inflammatory bowel disease patients, gastrointestinal asymptomic rheumatoid arthritis patients, and controls. PMID:29085871
Immune Repertoire after Immunization As Seen by Next-Generation Sequencing and Proteomics. PMID:29085363
Increased serotransferrin and ceruloplasmin turnover in diet-controlled patients with type 2 diabetes. PMID:29079528
Network-Driven Proteogenomics Unveils an Aging-Related Imbalance in the Olfactory IκBα-NFκB p65 Complex Functionality in Tg2576 Alzheimer's Disease Mouse Model. PMID:29077059
Identification of novel substrates of Shigella T3SA through analysis of its virulence plasmid-encoded secretome. PMID:29073283
Green-fruited Solanum habrochaites lacks fruit-specific carotenogenesis due to metabolic and structural blocks. PMID:29048567
Advances in the Chromosome-Centric Human Proteome Project: looking to the future. PMID:29039980
Quantitative proteomics of a B12 -dependent alga grown in coculture with bacteria reveals metabolic tradeoffs required for mutualism. PMID:29034959
Proteolytic signatures define unique thrombin-derived peptides present in human wound fluid in vivo. PMID:29030565
Native KCC2 interactome reveals PACSIN1 as a critical regulator of synaptic inhibition. PMID:29028184
MALDI Mass Spectrometry Imaging: A Novel Tool for the Identification and Classification of Amyloidosis. PMID:28994248
Chromatin proteomics reveals novel combinatorial histone modification signatures that mark distinct subpopulations of macrophage enhancers. PMID:28981749
The Encyclopedia of Proteome Dynamics: a big data ecosystem for (prote)omics. PMID:28981707
Selective aggregation of the splicing factor Hsh155 suppresses splicing upon genotoxic stress. PMID:28978642
In-depth phenotyping of lymphoblastoid cells suggests selective cellular vulnerability in Marinesco-Sjögren syndrome. PMID:28978133
Fast hyperbaric decompression after heliox saturation altered the brain proteome in rats. PMID:28977037
Crosstalk between glial and glioblastoma cells triggers the "go-or-grow" phenotype of tumor cells. PMID:28969644
Systematic Proteogenomic Approach To Exploring a Novel Function for NHERF1 in Human Reproductive Disorder: Lessons for Exploring Missing Proteins. PMID:28960081
Compliance with minimum information guidelines in public metabolomics repositories. PMID:28949328
TNFα affects CREB-mediated neuroprotective signaling pathways of synaptic plasticity in neurons as revealed by proteomics and phospho-proteomics. PMID:28947966
Quantitative multiplexed proteomics of Taenia solium cysts obtained from the skeletal muscle and central nervous system of pigs. PMID:28945737
Phosphoproteome-based kinase activity profiling reveals the critical role of MAP2K2 and PLK1 in neuronal autophagy. PMID:28933595
Discovery of Tamoxifen and N-Desmethyl Tamoxifen Protein Targets in MCF-7 Cells Using Large-Scale Protein Folding and Stability Measurements. PMID:28927269
Spectral Libraries for SWATH-MS Assays for Drosophila melanogaster and Solanum lycopersicum. PMID:28922568
A proteomic atlas of insulin signalling reveals tissue-specific mechanisms of longevity assurance. PMID:28916541
Perturbed cholesterol and vesicular trafficking associated with dengue blocking in Wolbachia-infected Aedes aegypti cells. PMID:28904344
Heterodimeric capping protein is required for stereocilia length and width regulation. PMID:28899994
Monitoring storage induced changes in the platelet proteome employing label free quantitative mass spectrometry. PMID:28887518
Proline-dependent and basophilic kinases phosphorylate human TRPC6 at serine 14 to control channel activity through increased membrane expression. PMID:28877958
A Stat6/Pten Axis Links Regulatory T Cells with Adipose Tissue Function. PMID:28877454
Interactome analysis of transcriptional coactivator multiprotein bridging factor 1 unveils a yeast AP-1-like transcription factor involved in oxidation tolerance of mycopathogen Beauveria bassiana. PMID:28871395
Proteomics Standards Initiative: Fifteen Years of Progress and Future Work. PMID:28849660
Pathogenic Leptospires Modulate Protein Expression and Post-translational Modifications in Response to Mammalian Host Signals. PMID:28848720
Updating In Vivo and In Vitro Phosphorylation and Methylation Sites of Voltage-Gated Kv7.2 Potassium Channels. PMID:28834300
Olfactory bulb neuroproteomics reveals a chronological perturbation of survival routes and a disruption of prohibitin complex during Alzheimer's disease progression. PMID:28831118
Automated assembly of species metabolomes through data submission into a public repository. PMID:28830114
Proteomic Response of Pseudomonas aeruginosa PAO1 Adhering to Solid Surfaces. PMID:28824592
Joint inflammation related citrullination of functional arginines in extracellular proteins. PMID:28811641
Identification and quantification of plasma free salusin-β, an endogenous parasympathomimetic peptide. PMID:28811505
Multiplexed Liquid Chromatography-Multiple Reaction Monitoring Mass Spectrometry Quantification of Cancer Signaling Proteins. PMID:28808993
Cryptosporidium parvum vaccine candidates are incompletely modified with O-linked-N-acetylgalactosamine or contain N-terminal N-myristate and S-palmitate. PMID:28792526
Bronchoalveolar Lavage Fluid Protein Expression in Acute Respiratory Distress Syndrome Provides Insights into Pathways Activated in Subjects with Different Outcomes. PMID:28785034
Multi-omics Analysis Sheds Light on the Evolution and the Intracellular Lifestyle Strategies of Spotted Fever Group Rickettsia spp. PMID:28775717
Quantitative Temporal in Vivo Proteomics Deciphers the Transition of Virus-Driven Myeloid Cells into M2 Macrophages. PMID:28768414
New criteria for the molecular identification of cereal grains associated with archaeological artefacts. PMID:28747692
Proteomic profiling of early degenerative retina of RCS rats. PMID:28730077
pyQms enables universal and accurate quantification of mass spectrometry data. PMID:28729385
Quantitative Assessment of the Effects of Trypsin Digestion Methods on Affinity Purification-Mass Spectrometry-based Protein-Protein Interaction Analysis. PMID:28726418
The influence of simulated microgravity on the proteome of Daphnia magna. PMID:28725717
Selective Affinity Enrichment of Nitrotyrosine-Containing Peptides for Quantitative Analysis in Complex Samples. PMID:28714690
System-Level and Granger Network Analysis of Integrated Proteomic and Metabolomic Dynamics Identifies Key Points of Grape Berry Development at the Interface of Primary and Secondary Metabolism. PMID:28713396
Respiratory Pathways Reconstructed by Multi-Omics Analysis in Melioribacter roseus, Residing in a Deep Thermal Aquifer of the West-Siberian Megabasin. PMID:28713355
PAT-H-MS coupled with laser microdissection to study histone post-translational modifications in selected cell populations from pathology samples. PMID:28702092
Long-Term Cigarette Smoke Exposure and Changes in MiRNA Expression and Proteome in Non-Small-Cell Lung Cancer. PMID:28692419
Changes of Protein Turnover in Aging Caenorhabditis elegans. PMID:28679685
Sec61 blockade by mycolactone inhibits antigen cross-presentation independently of endosome-to-cytosol export. PMID:28679634
Pseudomonas aeruginosa cells attached to a surface display a typical proteome early as 20 minutes of incubation. PMID:28678862
Comparative Proteomic Analysis of Flag Leaves Reveals New Insight into Wheat Heat Adaptation. PMID:28676819
HLA-E Presents Glycopeptides from the Mycobacterium tuberculosis Protein MPT32 to Human CD8+ T cells. PMID:28676677
Characterization of the Extracellular Matrix of Normal and Diseased Tissues Using Proteomics. PMID:28675934
Comparison of fractionation proteomics for local SWATH library building. PMID:28664598
RhoA Inhibitor Treatment At Acute Phase of Spinal Cord Injury May Induce Neurite Outgrowth and Synaptogenesis. PMID:28659490
Somatostatin binds to the human amyloid β peptide and favors the formation of distinct oligomers. PMID:28650319
The hepatocyte proteome in organotypic rat liver models and the influence of the local microenvironment. PMID:28649179
A PLC-γ1 Feedback Pathway Regulates Lck Substrate Phosphorylation at the T-Cell Receptor and SLP-76 Complex. PMID:28644030
Short-chain alkanes fuel mussel and sponge Cycloclasticus symbionts from deep-sea gas and oil seeps. PMID:28628098
Characterisation of the circulating acellular proteome of healthy sheep using LC-MS/MS-based proteomics analysis of serum. PMID:28615994
Reconstruction of pathway modification induced by nicotinamide using multi-omic network analyses in triple negative breast cancer. PMID:28615672
Time-Dependent, HIV-Tat-Induced Perturbation of Human Neurons In Vitro: Towards a Model for the Molecular Pathology of HIV-Associated Neurocognitive Disorders. PMID:28611588
An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes. PMID:28601559
Salinity-Induced Palmella Formation Mechanism in Halotolerant Algae Dunaliella salina Revealed by Quantitative Proteomics and Phosphoproteomics. PMID:28588593
Data from proteome analysis of Lasiodiplodia theobromae (Botryosphaeriaceae). PMID:28580409
Proteomic analysis of the phycobiliprotein antenna of the cryptophyte alga Guillardia theta cultured under different light intensities. PMID:28540588
A comprehensive proteogenomic study of the human Brucella vaccine strain 104 M. PMID:28535754
Differential Proteomic Analysis of Gender-dependent Hepatic Tumorigenesis in Hras12V Transgenic Mice. PMID:28512230
Large scale phosphoprotein profiling to explore Drosophila cold acclimation regulatory mechanisms. PMID:28490779
Firmiana: towards a one-stop proteomic cloud platform for data processing and analysis. PMID:28486446
Unbiased Protein Association Study on the Public Human Proteome Reveals Biological Connections between Co-Occurring Protein Pairs. PMID:28480704
Mass spectrometry data from label-free quantitative proteomic analysis of harmless and pathogenic strains of infectious microalgae, Prototheca spp. PMID:28480323
Complementary Benzophenone Cross-Linking/Mass Spectrometry Photochemistry. PMID:28430416
Reduced changes in protein compared to mRNA levels across non-proliferating tissues. PMID:28420336
Salt stress induces changes in the proteomic profile of micropropagated sugarcane shoots. PMID:28419154
The E. coli molecular phenotype under different growth conditions. PMID:28417974
Large-scale analysis of post-translational modifications in E. coli under glucose-limiting conditions. PMID:28412930
Fungal volatile compounds induce production of the secondary metabolite Sodorifen in Serratia plymuthica PRI-2C. PMID:28408760
Quantitative Proteomic Analysis of Mosquito C6/36 Cells Reveals Host Proteins Involved in Zika Virus Infection. PMID:28404849
Database-augmented Mass Spectrometry Analysis of Exosomes Identifies Claudin 3 as a Putative Prostate Cancer Biomarker. PMID:28396511
Quantitative analysis of the tomato nuclear proteome during Phytophthora capsici infection unveils regulators of immunity. PMID:28394025
Protein interaction networks at the host-microbe interface in Diaphorina citri, the insect vector of the citrus greening pathogen. PMID:28386418
Proteomic Analysis of Regulatory T Cells Reveals the Importance of Themis1 in the Control of Their Suppressive Function. PMID:28373295
Proteome Profiling of Wheat Shoots from Different Cultivars. PMID:28348574
The Wilms tumor protein Wt1 contributes to female fertility by regulating oviductal proteostasis. PMID:28334862
Effects of insulin and the glucagon-like peptide 1 receptor agonist liraglutide on the kidney proteome in db/db mice. PMID:28330952
Mapping the N-linked glycosites of rice (Oryza sativa L.) germinating embryos. PMID:28328971
Blind testing cross-linking/mass spectrometry under the auspices of the 11th critical assessment of methods of protein structure prediction (CASP11). PMID:28317030
Proteomic data on enzyme secretion and activity in the bacterium Chitinophaga pinensis. PMID:28317006
Deciphering the Acute Cellular Phosphoproteome Response to Irradiation with X-rays, Protons and Carbon Ions. PMID:28302921
Sex differences in the molecular signature of the developing mouse hippocampus. PMID:28302071
Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3. PMID:28270225
Quirks of Error Estimation in Cross-Linking/Mass Spectrometry. PMID:28267312
A temporal proteome dynamics study reveals the molecular basis of induced phenotypic resistance in Mycobacterium smegmatis at sub-lethal rifampicin concentrations. PMID:28262820
Proteomic Analysis of Post-synaptic Density Fractions from Shank3 Mutant Mice Reveals Brain Region Specific Changes Relevant to Autism Spectrum Disorder. PMID:28261056
Simple discovery of bacterial biocatalysts from environmental samples through functional metaproteomics. PMID:28253936
Phycobilisome truncation causes widespread proteome changes in Synechocystis sp. PCC 6803. PMID:28253354
Global Proteome Changes in Liver Tissue 6 Weeks after FOLFOX Treatment of Colorectal Cancer Liver Metastases. PMID:28248240
Label-free Proteomic Analysis of Exosomes Derived from Inducible Hepatitis B Virus-Replicating HepAD38 Cell Line. PMID:28242843
Semi-quantitative proteomics of mammalian cells upon short-term exposure to non-ionizing electromagnetic fields. PMID:28234898
Fatty acid synthase inhibits the O-GlcNAcase during oxidative stress. PMID:28232487
Label-Free Proteome Analysis of Plasma from Patients with Breast Cancer: Stage-Specific Protein Expression. PMID:28210565
Usp9x regulates Ets-1 ubiquitination and stability to control NRAS expression and tumorigenicity in melanoma. PMID:28198367
Global Characterization of Protein Secretion from Human Macrophages Following Non-canonical Caspase-4/5 Inflammasome Activation. PMID:28196878
Foxp3 drives oxidative phosphorylation and protection from lipotoxicity. PMID:28194435
Serine ADP-Ribosylation Depends on HPF1. PMID:28190768
Control of immune ligands by members of a cytomegalovirus gene expansion suppresses natural killer cell activation. PMID:28186488
Bicarbonate Induced Redox Proteome Changes in Arabidopsis Suspension Cells. PMID:28184230
Integrated analysis of proteome, phosphotyrosine-proteome, tyrosine-kinome, and tyrosine-phosphatome in acute myeloid leukemia. PMID:28176486
The PeptideAtlas of the Domestic Laying Hen. PMID:28166638
Uncovering stem cell differentiation factors for salivary gland regeneration by quantitative analysis of differential proteomes. PMID:28158262
Proteomic and transcriptomic study of brain microvessels in neonatal and adult mice. PMID:28141873
Building ProteomeTools based on a complete synthetic human proteome. PMID:28135259
A Novel Positron Emission Tomography (PET) Approach to Monitor Cardiac Metabolic Pathway Remodeling in Response to Sunitinib Malate. PMID:28129334
A Golden Age for Working with Public Proteomics Data. PMID:28118949
Identifying components required for OMP biogenesis as novel targets for antiinfective drugs. PMID:28118090
CD5 molecule-like and transthyretin as putative biomarkers of chronic myeloid leukemia - an insight from the proteomic analysis of human plasma. PMID:28117336
Fibronectin-guided migration of carcinoma collectives. PMID:28102238
Global open data management in metabolomics. PMID:28092796
Comprehensive proteome analysis of lysosomes reveals the diverse function of macrophages in immune responses. PMID:28088779
Interactome disassembly during apoptosis occurs independent of caspase cleavage. PMID:28082348
The Anti-Warburg Effect Elicited by the cAMP-PGC1α Pathway Drives Differentiation of Glioblastoma Cells into Astrocytes. PMID:28076790
Reduced Insulin/IGF-1 Signaling Restores the Dynamic Properties of Key Stress Granule Proteins during Aging. PMID:28076789
ATM induces MacroD2 nuclear export upon DNA damage. PMID:28069995
Integrated Cellular and Plasma Proteomics of Contrasting B-cell Cancers Reveals Common, Unique and Systemic Signatures. PMID:28062796
Proteomic characterization of microdissected breast tissue environment provides a protein-level overview of malignant transformation. PMID:28058811
A Comprehensive Proteomic Survey of ABA-Induced Protein Phosphorylation in Rice (Oryza sativa L.). PMID:28054942
Dataset of the proteome of purified outer membrane vesicles from the human pathogen Aggregatibacter actinomycetemcomintans. PMID:28050585
Integrated Metabolomics and Proteomics Highlight Altered Nicotinamide- and Polyamine Pathways in Lung Adenocarcinoma. PMID:28049629
Proteome alterations associated with transformation of multiple myeloma to secondary plasma cell leukemia. PMID:28038447
Proteome data on the microbial microbiome of grasshopper feces. PMID:27995170
Quantitative cross-linking/mass spectrometry reveals subtle protein conformational changes. PMID:27976756
Mass Spectrometry Analysis of Lysine Posttranslational Modifications of Tau Protein from Alzheimer's Disease Brain. PMID:27975250
Proteome-wide identification of lysine propionylation in thermophilic and mesophilic bacteria: Geobacillus kaustophilus, Thermus thermophilus, Escherichia coli, Bacillus subtilis, and Rhodothermus marinus. PMID:27928680
The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition. PMID:27924013
Data file of a deep proteome analysis of the prefrontal cortex in aged mice with progranulin deficiency or neuronal overexpression of progranulin. PMID:27921079
Exploring experimental cerebral malaria pathogenesis through the characterisation of host-derived plasma microparticle protein content. PMID:27917875
Targeted proteomics in urinary extracellular vesicles identifies biomarkers for diagnosis and prognosis of prostate cancer. PMID:27903962
SWATH-MS dataset of heat-shock treated Drosophila melanogaster embryos. PMID:27900350
jPOSTrepo: an international standard data repository for proteomes. PMID:27899654
moFF: a robust and automated approach to extract peptide ion intensities. PMID:27898063
Follicular fluid biomarkers for human in vitro fertilization outcome: Proof of principle. PMID:27895531
The Plastoglobule-Localized Metallopeptidase PGM48 Is a Positive Regulator of Senescence in Arabidopsis thaliana. PMID:27895226
Proteomic profiling of NCI-60 extracellular vesicles uncovers common protein cargo and cancer type-specific biomarkers. PMID:27894104
Genome, transcriptome and proteome: the rise of omics data and their integration in biomedical sciences. PMID:27881428
Multi-omics Analysis of Serum Samples Demonstrates Reprogramming of Organ Functions Via Systemic Calcium Mobilization and Platelet Activation in Metastatic Melanoma. PMID:27879288
Morphological and proteomic analysis of biofilms from the Antarctic archaeon, Halorubrum lacusprofundi. PMID:27874045
Data set of Aspergillus flavus induced alterations in tear proteome: Understanding the pathogen-induced host response to fungal infection. PMID:27872886
A systems study reveals concurrent activation of AMPK and mTOR by amino acids. PMID:27869123
Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry. PMID:27869121
The Physcomitrella patens Chloroplast Proteome Changes in Response to Protoplastation. PMID:27867392
Nicotine-induced protein expression profiling reveals mutually altered proteins across four human cell lines. PMID:27862958
SWATH-MS data of Drosophila melanogaster proteome dynamics during embryogenesis. PMID:27844044
Nano-liquid Chromatography-orbitrap MS-based Quantitative Proteomics Reveals Differences Between the Mechanisms of Action of Carnosic Acid and Carnosol in Colon Cancer Cells. PMID:27834734
A Role for Barley Calcium-Dependent Protein Kinase CPK2a in the Response to Drought. PMID:27826303
Asc1p/RACK1 Connects Ribosomes to Eukaryotic Phosphosignaling. PMID:27821475
RHO binding to FAM65A regulates Golgi reorientation during cell migration. PMID:27807006
Discovery of Age-Related Protein Folding Stability Differences in the Mouse Brain Proteome. PMID:27806573
Proteomic profiling of lung adenocarcinoma indicates heightened DNA repair, antioxidant mechanisms and identifies LASP1 as a potential negative predictor of survival. PMID:27799870
Mycosins Are Required for the Stabilization of the ESX-1 and ESX-5 Type VII Secretion Membrane Complexes. PMID:27795391
The Influence of Sporulation Conditions on the Spore Coat Protein Composition of Bacillus subtilis Spores. PMID:27790212
Serine/threonine phosphatases and aquaporin-2 regulation in renal collecting duct. PMID:27784696
Increased Abundance of Proteins Involved in Resistance to Oxidative and Nitrosative Stress at the Last Stages of Growth and Development of Leishmania amazonensis Promastigotes Revealed by Proteome Analysis. PMID:27776144
Chemosynthetic symbionts of marine invertebrate animals are capable of nitrogen fixation. PMID:27775707
Novel non-canonical role of STAT1 in Natural Killer cell cytotoxicity. PMID:27757297
N-glycosylation proteome enrichment analysis in kidney reveals differences between diabetic mouse models. PMID:27757071
Thermophilic archaea activate butane via alkyl-coenzyme M formation. PMID:27749816
A proteomic atlas of the legume Medicago truncatula and its nitrogen-fixing endosymbiont Sinorhizobium meliloti. PMID:27748755
The Brain Proteome of the Ubiquitin Ligase Peli1 Knock-Out Mouse during Experimental Autoimmune Encephalomyelitis. PMID:27746629
Dinitrogenase-Driven Photobiological Hydrogen Production Combats Oxidative Stress in Cyanothece sp. Strain ATCC 51142. PMID:27742679
Immunogenic HLA-DR-Presented Self-Peptides Identified Directly from Clinical Samples of Synovial Tissue, Synovial Fluid, or Peripheral Blood in Patients with Rheumatoid Arthritis or Lyme Arthritis. PMID:27726376
Activation of the ATR kinase by the RPA-binding protein ETAA1. PMID:27723717
Oak protein profile alterations upon root colonization by an ectomycorrhizal fungus. PMID:27714470
Quantitative Profiling of Single Formalin Fixed Tumour Sections: proteomics for translational research. PMID:27713570
Multi-omics integration accurately predicts cellular state in unexplored conditions for Escherichia coli. PMID:27713404
Chronic low-dose-rate ionising radiation affects the hippocampal phosphoproteome in the ApoE-/- Alzheimer's mouse model. PMID:27708245
The Salivary Protein Repertoire of the Polyphagous Spider Mite Tetranychus urticae: A Quest for Effectors. PMID:27703040
Isobaric Tags for Relative and Absolute Quantitation (iTRAQ)-Based Comparative Proteome Analysis of the Response of Ramie under Drought Stress. PMID:27689998
Analysis of the Yeast Peptidome and Comparison with the Human Peptidome. PMID:27685651
Detection of candidate biomarkers of prostate cancer progression in serum: a depletion-free 3D LC/MS quantitative proteomics pilot study. PMID:27685442
The lncRNA landscape of breast cancer reveals a role for DSCAM-AS1 in breast cancer progression. PMID:27666543
Progressive muscle proteome changes in a clinically relevant pig model of Duchenne muscular dystrophy. PMID:27634466
FOXO/DAF-16 Activation Slows Down Turnover of the Majority of Proteins in C. elegans. PMID:27626670
Molecular Profiling of Phagocytic Immune Cells in Anopheles gambiae Reveals Integral Roles for Hemocytes in Mosquito Innate Immunity. PMID:27624304
A proteomic analysis of chondrogenic, osteogenic and tenogenic constructs from ageing mesenchymal stem cells. PMID:27624072
Dataset of differentially regulated proteins in HUVECs challenged with wild type and UGM1 mutant Aspergillus fumigatus strains. PMID:27622208
Identification and Characterization of MCM3 as a Kelch-like ECH-associated Protein 1 (KEAP1) Substrate. PMID:27621311
Physiological Response of Escherichia coli O157:H7 Sakai to Dynamic Changes in Temperature and Water Activity as Experienced during Carcass Chilling. PMID:27615263
Fluoxetine Treatment Rescues Energy Metabolism Pathway Alterations in a Posttraumatic Stress Disorder Mouse Model. PMID:27606320
Towards a Proteomic Catalogue and Differential Annotation of Salivary Gland Proteins in Blood Fed Malaria Vector Anopheles culicifacies by Mass Spectrometry. PMID:27602567
Vegemite Beer: yeast extract spreads as nutrient supplements to promote fermentation. PMID:27602264
Data sources for in vivo molecular profiling of human phenotypes. PMID:27599755
On the privacy risks of sharing clinical proteomics data. PMID:27595046
Extensive dataset of boar seminal plasma proteome displaying putative reproductive functions of identified proteins. PMID:27583342
Tma108, a putative M1 aminopeptidase, is a specific nascent chain-associated protein in Saccharomyces cerevisiae. PMID:27580715
Combinatory annotation of cell membrane receptors and signalling pathways of Bombyx mori prothoracic glands. PMID:27576083
Systems-level effects of ectopic galectin-7 reconstitution in cervical cancer and its microenvironment. PMID:27558259
Comparative Community Proteomics Demonstrates the Unexpected Importance of Actinobacterial Glycoside Hydrolase Family 12 Protein for Crystalline Cellulose Hydrolysis. PMID:27555310
The endoplasmic reticulum and casein-containing vesicles contribute to milk fat globule membrane. PMID:27535430
Homo- and Heterotypic Association Regulates Signaling by the SgK269/PEAK1 and SgK223 Pseudokinases. PMID:27531744
A Skyline Plugin for Pathway-Centric Data Browsing. PMID:27530777
Multi-omics profile of the mouse dentate gyrus after kainic acid-induced status epilepticus. PMID:27529540
Quantitative Non-canonical Amino Acid Tagging (QuaNCAT) Proteomics Identifies Distinct Patterns of Protein Synthesis Rapidly Induced by Hypertrophic Agents in Cardiomyocytes, Revealing New Aspects of Metabolic Remodeling. PMID:27512079
Proteomic dataset of Paracentrotus lividus gonads of different sexes and at different maturation stages. PMID:27508229
A tissue-specific protein purification approach in Caenorhabditis elegans identifies novel interaction partners of DLG-1/Discs large. PMID:27506200
Is Transthyretin a Regulator of Ubc9 SUMOylation? PMID:27501389
Phosphoproteome Integration Reveals Patient-Specific Networks in Prostate Cancer. PMID:27499020
FYVE1/FREE1 Interacts with the PYL4 ABA Receptor and Mediates Its Delivery to the Vacuolar Degradation Pathway. PMID:27495812
The Exposed Proteomes of Brachyspira hyodysenteriae and B. pilosicoli. PMID:27493641
Recognizing millions of consistently unidentified spectra across hundreds of shotgun proteomics datasets. PMID:27493588
The N-myristoylome of Trypanosoma cruzi. PMID:27492267
Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 2.1. PMID:27490519
Metrics for the Human Proteome Project 2016: Progress on Identifying and Characterizing the Human Proteome, Including Post-Translational Modifications. PMID:27487407
Phosphoproteomics to Characterize Host Response During Influenza A Virus Infection of Human Macrophages. PMID:27486199
Comparative Proteome Analysis in Schizosaccharomyces pombe Identifies Metabolic Targets to Improve Protein Production and Secretion. PMID:27477394
Physiological and Proteomic Responses of Continuous Cultures of Microcystis aeruginosa PCC 7806 to Changes in Iron Bioavailability and Growth Rate. PMID:27474713
Cold acclimation is accompanied by complex responses of glycosylphosphatidylinositol (GPI)-anchored proteins in Arabidopsis. PMID:27471282
Integrative proteomic analysis reveals reprograming tumor necrosis factor signaling in epithelial mesenchymal transition. PMID:27461979
Determinants of Macromolecular Specificity from Proteomics-Derived Peptide Substrate Data. PMID:27455965
Tetramethylpyrazine Nitrone Improves Neurobehavioral Functions and Confers Neuroprotection on Rats with Traumatic Brain Injury. PMID:27452038
Structural elucidation of a novel mechanism for the bacteriophage-based inhibition of the RNA degradosome. PMID:27447594
Shotgun Proteomics of Tomato Fruits: Evaluation, Optimization and Validation of Sample Preparation Methods and Mass Spectrometric Parameters. PMID:27446192
Quantitative Proteomic and Transcriptomic Study on Autotetraploid Paulownia and Its Diploid Parent Reveal Key Metabolic Processes Associated with Paulownia Autotetraploidization. PMID:27446122
Proteomic data set of the organohalide-respiring Epsilonproteobacterium Sulfurospirillum multivorans adapted to tetrachloroethene and other energy substrates. PMID:27437436
Proteomic Analysis of Human Brown Adipose Tissue Reveals Utilization of Coupled and Uncoupled Energy Expenditure Pathways. PMID:27418403
Ten Simple Rules for Taking Advantage of Git and GitHub. PMID:27415786
Glyco-centric lectin magnetic bead array (LeMBA) - proteomics dataset of human serum samples from healthy, Barrett׳s esophagus and esophageal adenocarcinoma individuals. PMID:27408916
Assessing the impact of minimizing arginine conversion in fully defined SILAC culture medium in human embryonic stem cells. PMID:27392809
NEDDylation promotes stress granule assembly. PMID:27381497
Metabolomic and Proteomic Profiles Reveal the Dynamics of Primary Metabolism during Seed Development of Lotus (Nelumbo nucifera). PMID:27375629
Proteome data of whole saliva which are associated with development of oral mucositis in head and neck cancer patients undergoing radiotherapy. PMID:27358911
Phosphoproteomic analysis of Methanohalophilus portucalensis FDF1(T) identified the role of protein phosphorylation in methanogenesis and osmoregulation. PMID:27357474
Xanthine oxidoreductase mediates membrane docking of milk-fat droplets but is not essential for apocrine lipid secretion. PMID:27357166
Proteome analysis of the Mycobacterium tuberculosis Beijing B0/W148 cluster. PMID:27356881
Proteomic Analysis of the Rat Canalicular Membrane Reveals Expression of a Complex System of P4-ATPases in Liver. PMID:27347675
A reconstituted cell-free assay for the evaluation of the intrinsic activity of purified human ribosomes. PMID:27336708
Prion Protein Deficiency Causes Diverse Proteome Shifts in Cell Models That Escape Detection in Brain Tissue. PMID:27327609
Critical Role of COI1-Dependent Jasmonate Pathway in AAL toxin induced PCD in Tomato Revealed by Comparative Proteomics. PMID:27324416
Activation of an Endoribonuclease by Non-intein Protein Splicing. PMID:27311716
Quantitative Cross-linking/Mass Spectrometry Using Isotope-labeled Cross-linkers and MaxQuant. PMID:27302889
Identification of RNA-binding Proteins in Macrophages by Interactome Capture. PMID:27281784
Autoimmune Regulator (AIRE) Is Expressed in Spermatogenic Cells, and It Altered the Expression of Several Nucleic-Acid-Binding and Cytoskeletal Proteins in Germ Cell 1 Spermatogonial (GC1-spg) Cells. PMID:27281783
NrdR Transcription Regulation: Global Proteome Analysis and Its Role in Escherichia coli Viability and Virulence. PMID:27275780
Quantitative proteomics reveals that distant recurrence-associated protein R-Ras and Transgelin predict post-surgical survival in patients with Stage III colorectal cancer. PMID:27270312
N-Myristoyltransferase Inhibition Induces ER-Stress, Cell Cycle Arrest, and Apoptosis in Cancer Cells. PMID:27267252
Resolution of Novel Pancreatic Ductal Adenocarcinoma Subtypes by Global Phosphotyrosine Profiling. PMID:27259358
Characterization and use of HapT1-derived homologous tumors as a preclinical model to evaluate therapeutic efficacy of drugs against pancreatic tumor desmoplasia. PMID:27259232
The proteome of the infectious bronchitis virus Beau-R virion. PMID:27257648
Integrated omics approaches provide strategies for rapid erythromycin yield increase in Saccharopolyspora erythraea. PMID:27255285
Annexin A5 is the Most Abundant Membrane-Associated Protein in Stereocilia but is Dispensable for Hair-Bundle Development and Function. PMID:27251877
Structure of Complement C3(H2O) Revealed By Quantitative Cross-Linking/Mass Spectrometry And Modeling. PMID:27250206
Proteomic Analysis of the Spatio-temporal Based Molecular Kinetics of Acute Spinal Cord Injury Identifies a Time- and Segment-specific Window for Effective Tissue Repair. PMID:27250205
Proteomics Analysis with a Nano Random Forest Approach Reveals Novel Functional Interactions Regulated by SMC Complexes on Mitotic Chromosomes. PMID:27231315
Dinosaur: A Refined Open-Source Peptide MS Feature Detector. PMID:27224449
Interferon-driven alterations of the host's amino acid metabolism in the pathogenesis of typhoid fever. PMID:27217537
Enrichment of extracellular vesicles from tissues of the central nervous system by PROSPR. PMID:27216497
Commercial processed soy-based food product contains glycated and glycoxidated lunasin proteoforms. PMID:27189269
Decoding the complete arsenal for cellulose and hemicellulose deconstruction in the highly efficient cellulose decomposer Paenibacillus O199. PMID:27186238
Proteomic dataset of the sea urchin Paracentrotus lividus adhesive organs and secreted adhesive. PMID:27182547
The Clathrin-dependent Spindle Proteome. PMID:27174698
Interleukin-6 Induced "Acute" Phenotypic Microenvironment Promotes Th1 Anti-Tumor Immunity in Cryo-Thermal Therapy Revealed By Shotgun and Parallel Reaction Monitoring Proteomics. PMID:27162549
SWATH Mass Spectrometry Performance Using Extended Peptide MS/MS Assay Libraries. PMID:27161445
Interaction of tau with the RNA-Binding Protein TIA1 Regulates tau Pathophysiology and Toxicity. PMID:27160897
Proteome Profiling in Lung Injury after Hematopoietic Stem Cell Transplantation. PMID:27155584
Elucidation of tonic and activated B-cell receptor signaling in Burkitt's lymphoma provides insights into regulation of cell survival. PMID:27155012
Comparative Proteomic Analyses of Avirulent, Virulent, and Clinical Strains of Mycobacterium tuberculosis Identify Strain-specific Patterns. PMID:27151218
Differential Neuroproteomic and Systems Biology Analysis of Spinal Cord Injury. PMID:27150525
A Proteomics Approach to Identify New Putative Cardiac Intercalated Disk Proteins. PMID:27148881
Proteomic Analysis of a Poplar Cell Suspension Culture Suggests a Major Role of Protein S-Acylation in Diverse Cellular Processes. PMID:27148305
Feeding a Modified Fish Diet to Bottlenose Dolphins Leads to an Increase in Serum Adiponectin and Sphingolipids. PMID:27148164
An integrated proteomics approach shows synaptic plasticity changes in an APP/PS1 Alzheimer's mouse model. PMID:27144524
The Pathogenesis of the Demyelinating Form of Guillain-Barre Syndrome (GBS): Proteo-peptidomic and Immunological Profiling of Physiological Fluids. PMID:27143409
Analytic framework for peptidomics applied to large-scale neuropeptide identification. PMID:27142507
Integrated Transcriptome and Proteome Analyses Reveal Organ-Specific Proteome Deterioration in Old Rats. PMID:27135913
Identification of Candidate Cyclin-dependent kinase 1 (Cdk1) Substrates in Mitosis by Quantitative Phosphoproteomics. PMID:27134283
Slx5/Slx8 Promotes Replication Stress Tolerance by Facilitating Mitotic Progression. PMID:27134171
Data Independent Acquisition analysis in ProHits 4.0. PMID:27132685
Identification of syntrophic acetate-oxidizing bacteria in anaerobic digesters by combined protein-based stable isotope probing and metagenomics. PMID:27128991
Proteotranscriptomic Analysis Reveals Stage Specific Changes in the Molecular Landscape of Clear-Cell Renal Cell Carcinoma. PMID:27128972
Identification of Protease Specificity by Combining Proteome-Derived Peptide Libraries and Quantitative Proteomics. PMID:27122596
Comparative expression profiling reveals a role of the root apoplast in local phosphate response. PMID:27121119
Intestinal Microbiota and Microbial Metabolites Are Changed in a Pig Model Fed a High-Fat/Low-Fiber or a Low-Fat/High-Fiber Diet. PMID:27100182
Identification of Bovine Sperm Surface Proteins Involved in Carbohydrate-mediated Fertilization Interactions. PMID:27094474
Proteogenomic Analysis of Mycobacterium smegmatis Using High Resolution Mass Spectrometry. PMID:27092112
Formalin-Fixed, Paraffin-Embedded Tissues (FFPE) as a Robust Source for the Profiling of Native and Protease-Generated Protein Amino Termini. PMID:27087653
The Effect of Chronic Methamphetamine Exposure on the Hippocampal and Olfactory Bulb Neuroproteomes of Rats. PMID:27082425
Comprehensively Characterizing the Thioredoxin Interactome In Vivo Highlights the Central Role Played by This Ubiquitous Oxidoreductase in Redox Control. PMID:27081212
Mass spectrometry analysis of adipose-derived stem cells reveals a significant effect of hypoxia on pathways regulating extracellular matrix. PMID:27075204
ExtraPEG: A Polyethylene Glycol-Based Method for Enrichment of Extracellular Vesicles. PMID:27068479
Nuclear Phosphoproteomic Screen Uncovers ACLY as Mediator of IL-2-induced Proliferation of CD4+ T lymphocytes. PMID:27067055
N-Glycopeptide Profiling in Arabidopsis Inflorescence. PMID:27067053
Identification of Targets and Interaction Partners of Arginyl-tRNA Protein Transferase in the Moss Physcomitrella patens. PMID:27067052
Proteomic Identification of Putative MicroRNA394 Target Genes in Arabidopsis thaliana Identifies Major Latex Protein Family Members Critical for Normal Development. PMID:27067051
Comparative Proteomic Analysis Reveals Differential Root Proteins in Medicago sativa and Medicago truncatula in Response to Salt Stress. PMID:27066057
Unconventional endosome-like compartment and retromer complex in Toxoplasma gondii govern parasite integrity and host infection. PMID:27064065
Proteome rearrangements after auditory learning: high-resolution profiling of synapse-enriched protein fractions from mouse brain. PMID:27062398
Global Proteomic Analysis Reveals an Exclusive Role of Thylakoid Membranes in Bioenergetics of a Model Cyanobacterium. PMID:27056914
Proteome-wide dataset supporting functional study of tyrosine kinases in breast cancer. PMID:27054188
Intact Cell MALDI-TOF MS on Sperm: A Molecular Test For Male Fertility Diagnosis. PMID:27044871
An Arginine Deprivation Response Pathway Is Induced in Leishmania during Macrophage Invasion. PMID:27043018
Investigation of proteome changes in osteoclastogenesis in low serum culture system using quantitative proteomics. PMID:27034619
Phospho-proteomic analyses of B-Raf protein complexes reveal new regulatory principles. PMID:27034005
Quantitative phosphoproteomics of protein kinase SnRK1 regulated protein phosphorylation in Arabidopsis under submergence. PMID:27029354
Analysis of Drosophila melanogaster proteome dynamics during embryonic development by a combination of label-free proteomics approaches. PMID:27029218
Changes in Gab2 phosphorylation and interaction partners in response to interleukin (IL)-2 stimulation in T-lymphocytes. PMID:27025927
Contribution of Human Fibroblasts and Endothelial Cells to the Hallmarks of Inflammation as Determined by Proteome Profiling. PMID:27025457
Quantitative proteomics links metabolic pathways to specific developmental stages of the plant-pathogenic oomycete Phytophthora capsici. PMID:27019332
Comparison of proteomic datasets from hypertrophic chondrocytes in response to ER stress. PMID:27014728
Allicin Induces Thiol Stress in Bacteria through S-Allylmercapto Modification of Protein Cysteines. PMID:27008862
Comparison of the Proteome of Adult and Cord Erythroid Cells, and Changes in the Proteome Following Reticulocyte Maturation. PMID:27006477
MaxReport: An Enhanced Proteomic Result Reporting Tool for MaxQuant. PMID:27003708
Proteomic Profiling of Mouse Liver following Acute Toxoplasma gondii Infection. PMID:27003162
Urine Proteome Biomarkers in Kidney Diseases. I. Limits, Perspectives, and First Focus on Normal Urine. PMID:26997865
Longitudinal quantification of the gingival crevicular fluid proteome during progression from gingivitis to periodontitis in a canine model. PMID:26990150
Transcriptomic and Proteomic Analysis of Arion vulgaris--Proteins for Probably Successful Survival Strategies? PMID:26986963
Gender differences in white matter pathology and mitochondrial dysfunction in Alzheimer's disease with cerebrovascular disease. PMID:26983404
A large dataset of protein dynamics in the mammalian heart proteome. PMID:26977904
Validation, optimisation, and application data in support of the development of a targeted selected ion monitoring assay for degraded cardiac troponin T. PMID:26977445
Axin cancer mutants form nanoaggregates to rewire the Wnt signaling network. PMID:26974125
Unique Insights in the Cervicovaginal Lactobacillus iners and L. crispatus Proteomes and Their Associations with Microbiota Dysbiosis. PMID:26963809
Phosphorylation of plastoglobular proteins in Arabidopsis thaliana. PMID:26962209
Data in support of the identification of neuronal and astrocyte proteins interacting with extracellularly applied oligomeric and fibrillar α-synuclein assemblies by mass spectrometry. PMID:26958642
Two overlapping two-component systems in Xanthomonas oryzae pv. oryzae contribute to full fitness in rice by regulating virulence factors expression. PMID:26957113
Characterization of various cell lines from different ampullary cancer subtypes and cancer associated fibroblast-mediated responses. PMID:26951071
Data for the identification of proteins and post-translational modifications of proteins associated to histones H3 and H4 in S. cerevisiae, using tandem affinity purification coupled with mass spectrometry. PMID:26949727
Data in support of proteomic analysis of pneumococcal pediatric clinical isolates to construct a protein array. PMID:26949725
A single dose of the γ-secretase inhibitor semagacestat alters the cerebrospinal fluid peptidome in humans. PMID:26948580
Proteomics study reveals that the dysregulation of focal adhesion and ribosome contribute to early pregnancy loss. PMID:26947931
Natural Genetic Variation Differentially Affects the Proteome and Transcriptome in Caenorhabditis elegans. PMID:26944343
Proteomics of Urinary Vesicles Links Plakins and Complement to Polycystic Kidney Disease. PMID:26940098
Cleaning out the Litterbox of Proteomic Scientists' Favorite Pet: Optimized Data Analysis Avoiding Trypsin Artifacts. PMID:26938934
Proteome stability analysis of snap frozen, RNAlater preserved, and formalin-fixed paraffin-embedded human colon mucosal biopsies. PMID:26937473
Proteome identification of the silkworm middle silk gland. PMID:26937469
Characterization of a SILAC method for proteomic analysis of primary rat microglia. PMID:26936193
Macrophage activation and polarization modify P2X7 receptor secretome influencing the inflammatory process. PMID:26935289
Adjuvant-induced Human Monocyte Secretome Profiles Reveal Adjuvant- and Age-specific Protein Signatures. PMID:26933193
An Inducible Retroviral Expression System for Tandem Affinity Purification Mass-Spectrometry-Based Proteomics Identifies Mixed Lineage Kinase Domain-like Protein (MLKL) as an Heat Shock Protein 90 (HSP90) Client. PMID:26933192
Comparing isogenic strains of Beijing genotype Mycobacterium tuberculosis after acquisition of Isoniazid resistance: A proteomics approach. PMID:26929115
Integrative subcellular proteomic analysis allows accurate prediction of human disease-causing genes. PMID:26912414
Supporting data for the MS identification of distinct transferrin glycopeptide glycoforms and citrullinated peptides associated with inflammation or autoimmunity. PMID:26909372
Data detailing the platelet acetyl-lysine proteome. PMID:26904711
Tissue-specific Proteogenomic Analysis of Plutella xylostella Larval Midgut Using a Multialgorithm Pipeline. PMID:26902207
Chemoproteomic profiling of host and pathogen enzymes active in cholera. PMID:26900865
Sexual crossing of thermophilic fungus Myceliophthora heterothallica improved enzymatic degradation of sugar beet pulp. PMID:26900400
The UniProtKB guide to the human proteome. PMID:26896845
Dementia-linked amyloidosis is associated with brain protein deamidation as revealed by proteomic profiling of human brain tissues. PMID:26892330
Quantitative Proteomics Analysis Reveals the Min System of Escherichia coli Modulates Reversible Protein Association with the Inner Membrane. PMID:26889046
Global Protein Oxidation Profiling Suggests Efficient Mitochondrial Proteome Homeostasis During Aging. PMID:26884511
Illuminating structural proteins in viral "dark matter" with metaproteomics. PMID:26884177
Major remodeling of brain microvessels during neonatal period in the mouse: A proteomic and transcriptomic study. PMID:26873886
Quantitative Proteomics of the Infectious and Replicative Forms of Chlamydia trachomatis. PMID:26871455
Identification of Cell Cycle Dependent Interaction Partners of the Septins by Quantitative Mass Spectrometry. PMID:26871441
Integrated Translatomics with Proteomics to Identify Novel Iron-Transporting Proteins in Streptococcus pneumoniae. PMID:26870030
Leaf apoplastic proteome composition in UV-B treated Arabidopsis thaliana mutants impaired in extracellular glutathione degradation. PMID:26862584
Data set from a comprehensive phosphoproteomic analysis of rice variety IRBB5 in response to bacterial blight. PMID:26862573
Time-course investigation of Phytophthora infestans infection of potato leaf from three cultivars by quantitative proteomics. PMID:26862565
Understanding the Heat Shock Response in the Sea Cucumber Apostichopus japonicus, Using iTRAQ-Based Proteomics. PMID:26861288
Systematic Survey of Serine Hydrolase Activity in Mycobacterium tuberculosis Defines Changes Associated with Persistence. PMID:26853625
Reassessing ecdysteroidogenic cells from the cell membrane receptors' perspective. PMID:26847502
Comparative Phosphoproteomics Analysis of VEGF and Angiopoietin-1 Signaling Reveals ZO-1 as a Critical Regulator of Endothelial Cell Proliferation. PMID:26846344
PCH1 integrates circadian and light-signaling pathways to control photoperiod-responsive growth in Arabidopsis. PMID:26839287
Proteome Dynamics: Tissue Variation in the Kinetics of Proteostasis in Intact Animals. PMID:26839000
Phosphoproteomics reveals that Parkinson's disease kinase LRRK2 regulates a subset of Rab GTPases. PMID:26824392
Methylthioadenosine (MTA) Regulates Liver Cells Proteome and Methylproteome: Implications in Liver Biology and Disease. PMID:26819315
Simultaneous Metabolite, Protein, Lipid Extraction (SIMPLEX): A Combinatorial Multimolecular Omics Approach for Systems Biology. PMID:26814187
Proteomic Analysis of Rhizoctonia solani Identifies Infection-specific, Redox Associated Proteins and Insight into Adaptation to Different Plant Hosts. PMID:26811357
Mps1 Mediated Phosphorylation of Hsp90 Confers Renal Cell Carcinoma Sensitivity and Selectivity to Hsp90 Inhibitors. PMID:26804907
Exosomes Secreted by Apoptosis-Resistant Acute Myeloid Leukemia (AML) Blasts Harbor Regulatory Network Proteins Potentially Involved in Antagonism of Apoptosis. PMID:26801919
Developmental alcohol exposure leads to a persistent change on astrocyte secretome. PMID:26801685
The Pluripotency Factor NANOG Binds to GLI Proteins and Represses Hedgehog-mediated Transcription. PMID:26797124
Data in support of proteome analysis of gynophores and early swelling pods of peanut (Arachis hypogaea L.). PMID:26793750
Milk Bottom-Up Proteomics: Method Optimization. PMID:26793233
Phosphoproteomics Profiling of Tobacco Mature Pollen and Pollen Activated in vitro. PMID:26792808
Quantitative phosphoproteomics reveals genistein as a modulator of cell cycle and DNA damage response pathways in triple-negative breast cancer cells. PMID:26783066
Life span extension by targeting a link between metabolism and histone acetylation in Drosophila. PMID:26781291
Attenuation of pattern recognition receptor signaling is mediated by a MAP kinase kinase kinase. PMID:26769563
Proteomic Analysis of Epithelial to Mesenchymal Transition (EMT) Reveals Cross-talk between SNAIL and HDAC1 Proteins in Breast Cancer Cells. PMID:26764010
Analysis of the Protein Kinase A-Regulated Proteome of Cryptococcus neoformans Identifies a Role for the Ubiquitin-Proteasome Pathway in Capsule Formation. PMID:26758180
Systematic evaluation of data-independent acquisition for sensitive and reproducible proteomics-a prototype design for a single injection assay. PMID:26757066
A draft map of the mouse pluripotent stem cell spatial proteome. PMID:26754106
FIH Regulates Cellular Metabolism through Hydroxylation of the Deubiquitinase OTUB1. PMID:26752685
Ixodes scapularis Tick Saliva Proteins Sequentially Secreted Every 24 h during Blood Feeding. PMID:26751078
Quantitative Profiling of the Activity of Protein Lysine Methyltransferase SMYD2 Using SILAC-Based Proteomics. PMID:26750096
Quantitative proteomic analysis of Shigella flexneri and Shigella sonnei Generalized Modules for Membrane Antigens (GMMA) reveals highly pure preparations. PMID:26746581
Quantitative Phosphoproteomics Analysis of ERBB3/ERBB4 Signaling. PMID:26745281
Implementation of meiosis prophase I programme requires a conserved retinoid-independent stabilizer of meiotic transcripts. PMID:26742488
DCAF1 controls T-cell function via p53-dependent and -independent mechanisms. PMID:26728942
Protein turnover during in vitro tissue engineering. PMID:26724458
Glycoproteomic Approach Identifies KRAS as a Positive Regulator of CREG1 in Non-small Cell Lung Cancer Cells. PMID:26722374
Influenza Polymerase Can Adopt an Alternative Configuration Involving a Radical Repacking of PB2 Domains. PMID:26711008
Dog Tear Film Proteome In-Depth Analysis. PMID:26701646
Reactive Oxygen Species (ROS)-Activated ATM-Dependent Phosphorylation of Cytoplasmic Substrates Identified by Large-Scale Phosphoproteomics Screen. PMID:26699800
Large Scale Mass Spectrometry-based Identifications of Enzyme-mediated Protein Methylation Are Subject to High False Discovery Rates. PMID:26699799
The Pig PeptideAtlas: A resource for systems biology in animal production and biomedicine. PMID:26699206
Haem-activated promiscuous targeting of artemisinin in Plasmodium falciparum. PMID:26694030
Genomic and Proteomic Studies on the Mode of Action of Oxaboroles against the African Trypanosome. PMID:26684831
The spliceosome-associated protein Nrl1 suppresses homologous recombination-dependent R-loop formation in fission yeast. PMID:26682798
Germline variant FGFR4 p.G388R exposes a membrane-proximal STAT3 binding site. PMID:26675719
A deep proteomics perspective on CRM1-mediated nuclear export and nucleocytoplasmic partitioning. PMID:26673895
Integrative Network Analysis Combined with Quantitative Phosphoproteomics Reveals Transforming Growth Factor-beta Receptor type-2 (TGFBR2) as a Novel Regulator of Glioblastoma Stem Cell Properties. PMID:26670566
Common errors in mass spectrometry-based analysis of post-translational modifications. PMID:26667783
Improvement of genome assembly completeness and identification of novel full-length protein-coding genes by RNA-seq in the giant panda genome. PMID:26658305
Integrated analysis of global proteome, phosphoproteome, and glycoproteome enables complementary interpretation of disease-related protein networks. PMID:26657352
Lowering Endogenous Cathepsin D Abundance Results in Reactive Oxygen Species Accumulation and Cell Senescence. PMID:26657266
The Proteomic Profile of Deleted in Breast Cancer 1 (DBC1) Interactions Points to a Multifaceted Regulation of Gene Expression. PMID:26657080
Discovery of a nucleocytoplasmic O-mannose glycoproteome in yeast. PMID:26644575
Proteome Profiling of the Rhodobacter capsulatus Molybdenum Response Reveals a Role of IscN in Nitrogen Fixation by Fe-Nitrogenase. PMID:26644433
Repairing oxidized proteins in the bacterial envelope using respiratory chain electrons. PMID:26641313
The Activation-Induced Assembly of an RNA/Protein Interactome Centered on the Splicing Factor U2AF2 Regulates Gene Expression in Human CD4 T Cells. PMID:26641092
Proteomic Analysis Reveals Key Proteins and Phosphoproteins upon Seed Germination of Wheat (Triticum aestivum L.). PMID:26635843
Secretome identification of immune cell factors mediating metastatic cell homing. PMID:26634905
Isolation, N-glycosylations and Function of a Hyaluronidase-Like Enzyme from the Venom of the Spider Cupiennius salei. PMID:26630650
Data standards can boost metabolomics research, and if there is a will, there is a way. PMID:26612985
An 8-Month Systems Toxicology Inhalation/Cessation Study in Apoe-/- Mice to Investigate Cardiovascular and Respiratory Exposure Effects of a Candidate Modified Risk Tobacco Product, THS 2.2, Compared With Conventional Cigarettes. PMID:26609137
Global Profiling of Huntingtin-associated protein E (HYPE)-Mediated AMPylation through a Chemical Proteomic Approach. PMID:26604261
Investigation of Yersinia pestis Laboratory Adaptation through a Combined Genomics and Proteomics Approach. PMID:26599979
Osteoblast-released Matrix Vesicles, Regulation of Activity and Composition by Sulfated and Non-sulfated Glycosaminoglycans. PMID:26598647
Conserved mRNA-binding proteomes in eukaryotic organisms. PMID:26595419
Calsequestrins in skeletal and cardiac muscle from adult Danio rerio. PMID:26585961
Metabolic Interplay between the Asian Citrus Psyllid and Its Profftella Symbiont: An Achilles' Heel of the Citrus Greening Insect Vector. PMID:26580079
Changes in the nuclear proteome of developing wheat (Triticum aestivum L.) grain. PMID:26579155
CD36 Is a Matrix Metalloproteinase-9 Substrate That Stimulates Neutrophil Apoptosis and Removal During Cardiac Remodeling. PMID:26578544
Five omic technologies are concordant in differentiating the biochemical characteristics of the berries of five grapevine (Vitis vinifera L.) cultivars. PMID:26573226
Deconstruction of O-glycosylation--GalNAc-T isoforms direct distinct subsets of the O-glycoproteome. PMID:26566661
Cross-linking immunoprecipitation-MS (xIP-MS): Topological Analysis of Chromatin-associated Protein Complexes Using Single Affinity Purification. PMID:26560067
Yeast Interspecies Comparative Proteomics Reveals Divergence in Expression Profiles and Provides Insights into Proteome Resource Allocation and Evolutionary Roles of Gene Duplication. PMID:26560065
Immunocapture strategies in translational proteomics. PMID:26558424
miR-17-92 fine-tunes MYC expression and function to ensure optimal B cell lymphoma growth. PMID:26555894
On the Relationship of Protein and mRNA Dynamics in Vertebrate Embryonic Development. PMID:26555057
Global Analysis of mRNA, Translation, and Protein Localization: Local Translation Is a Key Regulator of Cell Protrusions. PMID:26555054
Cdc42-dependent actin dynamics controls maturation and secretory activity of dendritic cells. PMID:26553928
Micro-proteomics with iterative data analysis: Proteome analysis in C. elegans at the single worm level. PMID:26552604
Global Reprogramming of Host SUMOylation during Influenza Virus Infection. PMID:26549460
Testing and Validation of Computational Methods for Mass Spectrometry. PMID:26549429
Novel N-terminal and Lysine Methyltransferases That Target Translation Elongation Factor 1A in Yeast and Human. PMID:26545399
PRIDE Inspector Toolsuite: Moving Toward a Universal Visualization Tool for Proteomics Data Standard Formats and Quality Assessment of ProteomeXchange Datasets. PMID:26545397
Characterization of the porcine synovial fluid proteome and a comparison to the plasma proteome. PMID:26543887
A Pilot Proteogenomic Study with Data Integration Identifies MCT1 and GLUT1 as Prognostic Markers in Lung Adenocarcinoma. PMID:26539827
Myc coordinates transcription and translation to enhance transformation and suppress invasiveness. PMID:26538417
Comprehensive Cross-Linking Mass Spectrometry Reveals Parallel Orientation and Flexible Conformations of Plant HOP2-MND1. PMID:26535604
Identification of Epstein-Barr Virus Replication Proteins in Burkitt's Lymphoma Cells. PMID:26529022
Beyond plant defense: insights on the potential of salicylic and methylsalicylic acid to contain growth of the phytopathogen Botrytis cinerea. PMID:26528317
2016 update of the PRIDE database and its related tools. PMID:26527722
Integration of Ixodes ricinus genome sequencing with transcriptome and proteome annotation of the naïve midgut. PMID:26510422
Proteomic profiling of nuclear fractions from native renal inner medullary collecting duct cells. PMID:26508704
Sperm competition risk drives plasticity in seminal fluid composition. PMID:26507392
Multiplexed, Proteome-Wide Protein Expression Profiling: Yeast Deubiquitylating Enzyme Knockout Strains. PMID:26503604
Myeloma cells can corrupt senescent mesenchymal stromal cells and impair their anti-tumor activity. PMID:26498687
Effects of low temperature on tropical and temperate isolates of marine Synechococcus. PMID:26495993
Proteomics Analysis of Dorsal Striatum Reveals Changes in Synaptosomal Proteins following Methamphetamine Self-Administration in Rats. PMID:26484527
Rosuvastatin Alters the Proteome of High Density Lipoproteins: Generation of alpha-1-antitrypsin Enriched Particles with Anti-inflammatory Properties. PMID:26483418
Tissue matrix arrays for high-throughput screening and systems analysis of cell function. PMID:26480475
Matrix Metalloproteinase 10 Degradomics in Keratinocytes and Epidermal Tissue Identifies Bioactive Substrates With Pleiotropic Functions. PMID:26475864
In-Depth, Label-Free Analysis of the Erythrocyte Cytoplasmic Proteome in Diamond Blackfan Anemia Identifies a Unique Inflammatory Signature. PMID:26474164
Characterization and quantification of proteins secreted by single human embryos prior to implantation. PMID:26471863
Pathology Tissue-quantitative Mass Spectrometry Analysis to Profile Histone Post-translational Modification Patterns in Patient Samples. PMID:26463340
Quantitative phosphoproteomics reveals new roles for the protein phosphatase PP6 in mitotic cells. PMID:26462736
Evidence of Highly Conserved β-Crystallin Disulfidome that Can be Mimicked by In Vitro Oxidation in Age-related Human Cataract and Glutathione Depleted Mouse Lens. PMID:26453637
Secretome profiling of Cryptococcus neoformans reveals regulation of a subset of virulence-associated proteins and potential biomarkers by protein kinase A. PMID:26453029
Exploring the potential of public proteomics data. PMID:26449181
Tumor-selective proteotoxicity of verteporfin inhibits colon cancer progression independently of YAP1. PMID:26443705
Global analysis of lysine acetylation in strawberry leaves. PMID:26442052
Uncovering Hidden Layers of Cell Cycle Regulation through Integrative Multi-omic Analysis. PMID:26439921
A Survey of the Impact of Deyolking on Biological Processes Covered by Shotgun Proteomic Analyses of Zebrafish Embryos. PMID:26439676
Genetically and Phenotypically Distinct Pseudomonas aeruginosa Cystic Fibrosis Isolates Share a Core Proteomic Signature. PMID:26431321
Discovery and Validation of Predictive Biomarkers of Survival for Non-small Cell Lung Cancer Patients Undergoing Radical Radiotherapy: Two Proteins With Predictive Value. PMID:26425690
Hypoxia Strongly Affects Mitochondrial Ribosomal Proteins and Translocases, as Shown by Quantitative Proteomics of HeLa Cells. PMID:26421188
Discovery of a Unique Clp Component, ClpF, in Chloroplasts: A Proposed Binary ClpF-ClpS1 Adaptor Complex Functions in Substrate Recognition and Delivery. PMID:26419670
Extracellular vesicles are rapidly purified from human plasma by PRotein Organic Solvent PRecipitation (PROSPR). PMID:26419333
Matrix metalloproteinase-9-dependent mechanisms of reduced contractility and increased stiffness in the aging heart. PMID:26415707
Positive Mode LC-MS/MS Analysis of Chondroitin Sulfate Modified Glycopeptides Derived from Light and Heavy Chains of The Human Inter-α-Trypsin Inhibitor Complex. PMID:26407992
Serum Glycoprotein Biomarker Discovery and Qualification Pipeline Reveals Novel Diagnostic Biomarker Candidates for Esophageal Adenocarcinoma. PMID:26404905
Proteome-wide quantitative multiplexed profiling of protein expression: carbon-source dependency in Saccharomyces cerevisiae. PMID:26399295
A peptide identification-free, genome sequence-independent shotgun proteomics workflow for strain-level bacterial differentiation. PMID:26395646
Proteomic Analyses for the Global S-Nitrosylated Proteins in the Brain Tissues of Different Human Prion Diseases. PMID:26392294
Serum Albumin Domain Structures in Human Blood Serum by Mass Spectrometry and Computational Biology. PMID:26385339
Proteomics of Aggregatibacter actinomycetemcomitans Outer Membrane Vesicles. PMID:26381655
Identification of B6T173 (ZmPrx35) as the prevailing peroxidase in highly insect-resistant maize (Zea mays, p84C3) kernels by activity-directed purification. PMID:26379694
Redefining the Breast Cancer Exosome Proteome by Tandem Mass Tag Quantitative Proteomics and Multivariate Cluster Analysis. PMID:26378940
The Arabidopsis Chloroplast Stromal N-Terminome: Complexities of Amino-Terminal Protein Maturation and Stability. PMID:26371235
Post-transcriptional Mechanisms Contribute Little to Phenotypic Variation in Snake Venoms. PMID:26358130
Phosphorylation of the Scc2 cohesin deposition complex subunit regulates chromosome condensation through cohesin integrity. PMID:26354421
NADH-Cytochrome b5 Reductase 3 Promotes Colonization and Metastasis Formation and Is a Prognostic Marker of Disease-Free and Overall Survival in Estrogen Receptor-Negative Breast Cancer. PMID:26351264
Identification of potential drug targets for tuberous sclerosis complex by synthetic screens combining CRISPR-based knockouts with RNAi. PMID:26350902
Cervicovaginal microbiome dysbiosis is associated with proteome changes related to alterations of the cervicovaginal mucosal barrier. PMID:26349657
Delivery of Alginate Scaffold Releasing Two Trophic Factors for Spinal Cord Injury Repair. PMID:26348665
Mixed effects of suberoylanilide hydroxamic acid (SAHA) on the host transcriptome and proteome and their implications for HIV reactivation from latency. PMID:26343910
Proteomic Analysis of One-carbon Metabolism-related Marker in Liver of Rat Offspring. PMID:26342040
Comparative "-omics" in Mycoplasma pneumoniae Clinical Isolates Reveals Key Virulence Factors. PMID:26335586
Molecular Consequences of Proprotein Convertase 1/3 (PC1/3) Inhibition in Macrophages for Application to Cancer Immunotherapy: A Proteomic Study. PMID:26330543
Qualitative ubiquitome unveils the potential significances of protein lysine ubiquitination in hyphal growth of Aspergillus nidulans. PMID:26328806
The Proteome of Native Adult Müller Glial Cells From Murine Retina. PMID:26324419
α-synuclein assemblies sequester neuronal α3-Na+/K+-ATPase and impair Na+ gradient. PMID:26323479
Data from proteomic characterization of the role of Snail1 in murine mesenchymal stem cells and 3T3-L1 fibroblasts differentiation. PMID:26322327
2-DE proteomics analysis of drought treated seedlings of Quercus ilex supports a root active strategy for metabolic adaptation in response to water shortage. PMID:26322068
Interacting Network of the Gap Junction (GJ) Protein Connexin43 (Cx43) is Modulated by Ischemia and Reperfusion in the Heart. PMID:26316108
Spatial differentiation of gene expression in Aspergillus niger colony grown for sugar beet pulp utilization. PMID:26314379
Machine Learning-based Classification of Diffuse Large B-cell Lymphoma Patients by Their Protein Expression Profiles. PMID:26311899
Mass spectrometry identification of age-associated proteins from the malaria mosquitoes Anopheles gambiae s.s. and Anopheles stephensi. PMID:26306320
Data set for the proteomic inventory and quantitative analysis of chicken eggshell matrix proteins during the primary events of eggshell mineralization and the active growth phase of calcification. PMID:26306314
Comparative analysis of cerebrospinal fluid from the meningo-encephalitic stage of T. b. gambiense and rhodesiense sleeping sickness patients using TMT quantitative proteomics. PMID:26306311
Proteomic Evidence for Components of Spider Silk Synthesis from Black Widow Silk Glands and Fibers. PMID:26302244
Proteomic and metabolic traits of grape exocarp to explain different anthocyanin concentrations of the cultivars. PMID:26300900
The Prion Protein Controls Polysialylation of Neural Cell Adhesion Molecule 1 during Cellular Morphogenesis. PMID:26288071
Label-free quantitative phosphoproteomics with novel pairwise abundance normalization reveals synergistic RAS and CIP2A signaling. PMID:26278961
Controlled Measurement and Comparative Analysis of Cellular Components in E. coli Reveals Broad Regulatory Changes in Response to Glucose Starvation. PMID:26275208
Proteomic Profiling of Detergent Resistant Membranes (Lipid Rafts) of Prostasomes. PMID:26272980
The Human Tau Interactome: Binding to the Ribonucleoproteome, and Impaired Binding of the Proline-to-Leucine Mutant at Position 301 (P301L) to Chaperones and the Proteasome. PMID:26269332
ISG15 counteracts Listeria monocytogenes infection. PMID:26259872
Lysine acetyltransfer supports platelet function. PMID:26256950
Integrated Proteomic and Glycoproteomic Analyses of Prostate Cancer Cells Reveal Glycoprotein Alteration in Protein Abundance and Glycosylation. PMID:26256267
Post-Transcriptional Coordination of the Arabidopsis Iron Deficiency Response is Partially Dependent on the E3 Ligases RING DOMAIN LIGASE1 (RGLG1) and RING DOMAIN LIGASE2 (RGLG2). PMID:26253232
Environmental Interactions and Epistasis Are Revealed in the Proteomic Responses to Complex Stimuli. PMID:26247773
Separating myoblast differentiation from muscle cell fusion using IGF-I and the p38 MAP kinase inhibitor SB202190. PMID:26246429
Mistargeted mitochondrial proteins activate a proteostatic response in the cytosol. PMID:26245374
A Systems Level Analysis of Vasopressin-mediated Signaling Networks in Kidney Distal Convoluted Tubule Cells. PMID:26239621
Proteomics analysis reveals differentially activated pathways that operate in peanut gynophores at different developmental stages. PMID:26239120
Type 1 Diabetes Prone NOD Mice Have Diminished Cxcr1 mRNA Expression in Polymorphonuclear Neutrophils and CD4+ T Lymphocytes. PMID:26230114
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
A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies. PMID:26224020
MStern Blotting-High Throughput Polyvinylidene Fluoride (PVDF) Membrane-Based Proteomic Sample Preparation for 96-Well Plates. PMID:26223766
Myristoylation profiling in human cells and zebrafish. PMID:26217820
Redox proteomic analysis of the gastrocnemius muscle from adult and old mice. PMID:26217813
Quantitative proteome changes in Arabidopsis thaliana suspension-cultured cells in response to plant natriuretic peptides. PMID:26217812
Quantitative proteomics of rat and human pancreatic beta cells. PMID:26217750
Characterization of the gila monster (Heloderma suspectum suspectum) venom proteome. PMID:26217734
Data set for the mass spectrometry based exoproteome analysis of Aspergillus flavus isolates. PMID:26217704
Data set for the proteomic inventory and quantitative analysis of chicken uterine fluid during eggshell biomineralization. PMID:26217689
A biphasic epigenetic switch controls immunoevasion, virulence and niche adaptation in non-typeable Haemophilus influenzae. PMID:26215614
Mining Missing Membrane Proteins by High-pH Reverse-Phase StageTip Fractionation and Multiple Reaction Monitoring Mass Spectrometry. PMID:26202522
Characterization of Regenerative Phenotype of Unrestricted Somatic Stem Cells (USSC) from Human Umbilical Cord Blood (hUCB) by Functional Secretome Analysis. PMID:26183719
p53-Regulated Networks of Protein, mRNA, miRNA, and lncRNA Expression Revealed by Integrated Pulsed Stable Isotope Labeling With Amino Acids in Cell Culture (pSILAC) and Next Generation Sequencing (NGS) Analyses. PMID:26183718
A Pneumococcal Protein Array as a Platform to Discover Serodiagnostic Antigens Against Infection. PMID:26183717
Regulation of microtubule dynamics by DIAPH3 influences amoeboid tumor cell mechanics and sensitivity to taxanes. PMID:26179371
Time- and compartment-resolved proteome profiling of the extracellular niche in lung injury and repair. PMID:26174933
The Goblet Cell Protein Clca1 (Alias mClca3 or Gob-5) Is Not Required for Intestinal Mucus Synthesis, Structure and Barrier Function in Naive or DSS-Challenged Mice. PMID:26162072
Metrics for the Human Proteome Project 2015: Progress on the Human Proteome and Guidelines for High-Confidence Protein Identification. PMID:26155816
Proteomic profile response of Paracoccidioides lutzii to the antifungal argentilactone. PMID:26150808
Quantification of HER2 by Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded (FFPE) Breast Cancer Tissues. PMID:26149442
Proteomic analysis of integrin-associated complexes from mesenchymal stem cells. PMID:26147903
Label-free Quantitative Proteomics of Mouse Cerebrospinal Fluid Detects β-Site APP Cleaving Enzyme (BACE1) Protease Substrates In Vivo. PMID:26139848
State of the Human Proteome in 2014/2015 As Viewed through PeptideAtlas: Enhancing Accuracy and Coverage through the AtlasProphet. PMID:26139527
Cytological and proteomic analyses of horsetail (Equisetum arvense L.) spore germination. PMID:26136760
iTRAQ-Based Quantitative Proteomic Analysis of the Initiation of Head Regeneration in Planarians. PMID:26131905
Stone-dwelling actinobacteria Blastococcus saxobsidens, Modestobacter marinus and Geodermatophilus obscurus proteogenomes. PMID:26125681
Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation. PMID:26121405
Serum- and Glucocorticoid-Inducible Kinase-1 (SGK-1) Plays a Role in Membrane Trafficking in Caenorhabditis elegans. PMID:26115433
A comprehensive quantitative phosphoproteome analysis of rice in response to bacterial blight. PMID:26112675
Honey Bee Infecting Lake Sinai Viruses. PMID:26110586
Fasting, but Not Aging, Dramatically Alters the Redox Status of Cysteine Residues on Proteins in Drosophila melanogaster. PMID:26095360
New Insight into Microbial Iron Oxidation as Revealed by the Proteomic Profile of an Obligate Iron-Oxidizing Chemolithoautotroph. PMID:26092463
Characterization of the Tyrosine Kinase-Regulated Proteome in Breast Cancer by Combined use of RNA interference (RNAi) and Stable Isotope Labeling with Amino Acids in Cell Culture (SILAC) Quantitative Proteomics. PMID:26089344
Proteomic Identification of Cysteine Cathepsin Substrates Shed from the Surface of Cancer Cells. PMID:26081835
System-wide identification of wild-type SUMO-2 conjugation sites. PMID:26073453
Systems-wide analysis of BCR signalosomes and downstream phosphorylation and ubiquitylation. PMID:26038114
The mzqLibrary--An open source Java library supporting the HUPO-PSI quantitative proteomics standard. PMID:26037908
Proteomic analysis of cellular soluble proteins from human bronchial smooth muscle cells by combining nondenaturing micro 2DE and quantitative LC-MS/MS. 2. Similarity search between protein maps for the analysis of protein complexes. PMID:26031785
Phosphoproteomic Analysis of Cell-Based Resistance to BRAF Inhibitor Therapy in Melanoma. PMID:26029660
Identifying the ionically bound cell wall and intracellular glycoside hydrolases in late growth stage Arabidopsis stems: implications for the genetic engineering of bioenergy crops. PMID:26029221
From raw data to biological discoveries: a computational analysis pipeline for mass spectrometry-based proteomics. PMID:26002791
Neutrophil Extracellular Traps in Ulcerative Colitis: A Proteome Analysis of Intestinal Biopsies. PMID:25993694
A Combined Omics Approach to Generate the Surface Atlas of Human Naive CD4+ T Cells during Early T-Cell Receptor Activation. PMID:25991687
Differential protein expression profiles of cyst fluid from papillary thyroid carcinoma and benign thyroid lesions. PMID:25978681
A repository of assays to quantify 10,000 human proteins by SWATH-MS. PMID:25977788
The 4E-BP Caf20p Mediates Both eIF4E-Dependent and Independent Repression of Translation. PMID:25973932
Proteomic study of different culture medium serum volume fractions on RANKL-dependent RAW264.7 cells differentiating into osteoclasts. PMID:25969670
Cell Surface Proteomics Provides Insight into Stage-Specific Remodeling of the Host-Parasite Interface in Trypanosoma brucei. PMID:25963835
Protein and Peptide Composition of Male Accessory Glands of Apis mellifera Drones Investigated by Mass Spectrometry. PMID:25955586
Current strategies and findings in clinically relevant post-translational modification-specific proteomics. PMID:25955281
Proteomic analysis of cellular soluble proteins from human bronchial smooth muscle cells by combining nondenaturing micro 2DE and quantitative LC-MS/MS. 1. Preparation of more than 4000 native protein maps. PMID:25931155
Label-free quantitative analysis of the casein kinase 2-responsive phosphoproteome of the marine minimal model species Ostreococcus tauri. PMID:25930153
iTRAQ-based quantitative subcellular proteomic analysis of Avibirnavirus-infected cells. PMID:25929241
Effect of Embryo Vitrification on Rabbit Foetal Placenta Proteome during Pregnancy. PMID:25915775
An improved protocol to study the plant cell wall proteome. PMID:25914713
ms-data-core-api: an open-source, metadata-oriented library for computational proteomics. PMID:25910694
The genomes of two key bumblebee species with primitive eusocial organization. PMID:25908251
Introducing the PRIDE Archive RESTful web services. PMID:25904633
Combined Proteomics and Transcriptomics Identifies Carboxypeptidase B1 and Nuclear Factor κB (NF-κB) Associated Proteins as Putative Biomarkers of Metastasis in Low Grade Breast Cancer. PMID:25903579
A Double-Barrel Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) System to Quantify 96 Interactomes per Day. PMID:25887394
Proteomics of methyl jasmonate induced defense response in maize leaves against Asian corn borer. PMID:25885025
Improved protease digestion conditions for membrane protein detection. PMID:25884272
Representation of selected-reaction monitoring data in the mzQuantML data standard. PMID:25884107
The central nervous system transcriptome of the weakly electric brown ghost knifefish (Apteronotus leptorhynchus): de novo assembly, annotation, and proteomics validation. PMID:25879418
Faustovirus, an asfarvirus-related new lineage of giant viruses infecting amoebae. PMID:25878099
A protein deep sequencing evaluation of metastatic melanoma tissues. PMID:25874936
Quantitative Proteomics of Human Fibroblasts with I1061T Mutation in Niemann-Pick C1 (NPC1) Protein Provides Insights into the Disease Pathogenesis. PMID:25873482
A large-scale proteogenomics study of apicomplexan pathogens-Toxoplasma gondii and Neospora caninum. PMID:25867681
Comparative proteome analysis of multi-layer cocoon of the silkworm, Bombyx mori. PMID:25860555
Multidimensional proteomics for cell biology. PMID:25857810
A Phosphoproteomic Comparison of B-RAFV600E and MKK1/2 Inhibitors in Melanoma Cells. PMID:25850435
Online Peptide fractionation using a multiphasic microfluidic liquid chromatography chip improves reproducibility and detection limits for quantitation in discovery and targeted proteomics. PMID:25850434
Growth Cone Localization of the mRNA Encoding the Chromatin Regulator HMGN5 Modulates Neurite Outgrowth. PMID:25825524
Multifunctional reagents for quantitative proteome-wide analysis of protein modification in human cells and dynamic profiling of protein lipidation during vertebrate development. PMID:25807930
No evidence of enemy release in pathogen and microbial communities of common wasps (Vespula vulgaris) in their native and introduced range. PMID:25798856
Mo-CBP3, an antifungal chitin-binding protein from Moringa oleifera seeds, is a member of the 2S albumin family. PMID:25789746
Identification of a biomarker in cerebrospinal fluid for neuronopathic forms of Gaucher disease. PMID:25775479
Phosphate Limitation Induces Drastic Physiological Changes, Virulence-Related Gene Expression, and Secondary Metabolite Production in Pseudovibrio sp. Strain FO-BEG1. PMID:25769826
Modulation of cell metabolic pathways and oxidative stress signaling contribute to acquired melphalan resistance in multiple myeloma cells. PMID:25769101
Feasibility of protein turnover studies in prototroph Saccharomyces cerevisiae strains. PMID:25767917
A search for protein biomarkers links olfactory signal transduction to social immunity. PMID:25757461
Histone Deacetylase Inhibitors (HDACi) Cause the Selective Depletion of Bromodomain Containing Proteins (BCPs). PMID:25755299
Large-Scale Targeted Proteomics Using Internal Standard Triggered-Parallel Reaction Monitoring (IS-PRM). PMID:25755295
Acetylation site specificities of lysine deacetylase inhibitors in human cells. PMID:25751058
Analysis of the Candida albicans Phosphoproteome. PMID:25750214
Quantitative proteomics analysis of the Arg/N-end rule pathway of targeted degradation in Arabidopsis roots. PMID:25728785
Development of data representation standards by the human proteome organization proteomics standards initiative. PMID:25726569
Proteomic analysis of the soybean symbiosome identifies new symbiotic proteins. PMID:25724908
SUMOylation and PARylation cooperate to recruit and stabilize SLX4 at DNA damage sites. PMID:25722289
Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1. PMID:25720772
Proteomic identification of early salicylate- and flg22-responsive redox-sensitive proteins in Arabidopsis. PMID:25720653
DYn-2 Based Identification of Arabidopsis Sulfenomes. PMID:25693797
Visualization of proteomics data using R and bioconductor. PMID:25690415
Proteomic analyses uncover a new function and mode of action for mouse homolog of Diaphanous 2 (mDia2). PMID:25682332
Quantitative proteomic analysis reveals a simple strategy of global resource allocation in bacteria. PMID:25678603
Defining the phospho-adhesome through the phosphoproteomic analysis of integrin signalling. PMID:25677187
Building high-quality assay libraries for targeted analysis of SWATH MS data. PMID:25675208
A metaproteomics approach to elucidate host and pathogen protein expression during catheter-associated urinary tract infections (CAUTIs). PMID:25673765
The functional interactome of PYHIN immune regulators reveals IFIX is a sensor of viral DNA. PMID:25665578
Sample preparation for phosphoproteomic analysis of circadian time series in Arabidopsis thaliana. PMID:25662467
Quantification of extracellular matrix proteins from a rat lung scaffold to provide a molecular readout for tissue engineering. PMID:25660013
Identification of synaptosomal proteins binding to monomeric and oligomeric α-synuclein. PMID:25659148
Version 4.0 of PaxDb: Protein abundance data, integrated across model organisms, tissues, and cell-lines. PMID:25656970
Integrating transcriptomics and proteomics to show that tanshinone IIA suppresses cell growth by blocking glucose metabolism in gastric cancer cells. PMID:25652794
Quantitative variability of 342 plasma proteins in a human twin population. PMID:25652787
FOXP1 potentiates Wnt/β-catenin signaling in diffuse large B cell lymphoma. PMID:25650440
Total proteome analysis identifies migration defects as a major pathogenetic factor in immunoglobulin heavy chain variable region (IGHV)-unmutated chronic lymphocytic leukemia. PMID:25645933
Quantitative proteomic analysis of Burkholderia pseudomallei Bsa type III secretion system effectors using hypersecreting mutants. PMID:25635268
Trans-Proteomic Pipeline, a standardized data processing pipeline for large-scale reproducible proteomics informatics. PMID:25631240
BDNF stimulation of protein synthesis in cortical neurons requires the MAP kinase-interacting kinase MNK1. PMID:25609615
Identification of protein complexes that bind to histone H3 combinatorial modifications using super-SILAC and weighted correlation network analysis. PMID:25605797
DIA-Umpire: comprehensive computational framework for data-independent acquisition proteomics. PMID:25599550
Cytoplasmic TAF2-TAF8-TAF10 complex provides evidence for nuclear holo-TFIID assembly from preformed submodules. PMID:25586196
PeptideShaker enables reanalysis of MS-derived proteomics data sets. PMID:25574629
Rb and FZR1/Cdh1 determine CDK4/6-cyclin D requirement in C. elegans and human cancer cells. PMID:25562820
Deciphering preferential interactions within supramolecular protein complexes: the proteasome case. PMID:25561571
An enhanced in vivo stable isotope labeling by amino acids in cell culture (SILAC) model for quantification of drug metabolism enzymes. PMID:25561501
Proteomics analysis of rough endoplasmic reticulum in pancreatic beta cells. PMID:25546123
A public repository for mass spectrometry imaging data. PMID:25542566
A THEMIS:SHP1 complex promotes T-cell survival. PMID:25535246
Yeast PP4 interacts with ATR homolog Ddc2-Mec1 and regulates checkpoint signaling. PMID:25533186
Proteomics of muscle chronological ageing in post-menopausal women. PMID:25532418
Microtubule-dependent modulation of adhesion complex composition. PMID:25526367
Sirtuin 4 is a lipoamidase regulating pyruvate dehydrogenase complex activity. PMID:25525879
The composition of the gut microbiota shapes the colon mucus barrier. PMID:25525071
Spaceflight induces specific alterations in the proteomes of Arabidopsis. PMID:25517942
A comparative multidimensional LC-MS proteomic analysis reveals mechanisms for furan aldehyde detoxification in Thermoanaerobacter pseudethanolicus 39E. PMID:25506391
Plant natriuretic peptides induce proteins diagnostic for an adaptive response to stress. PMID:25505478
A proteomic analysis reveals that Snail regulates the expression of the nuclear orphan receptor Nuclear Receptor Subfamily 2 Group F Member 6 (Nr2f6) and interleukin 17 (IL-17) to inhibit adipocyte differentiation. PMID:25505127
An Insight into the proteome of Crithidia fasciculata choanomastigotes as a comparative approach to axenic growth, peanut lectin agglutination and differentiation of Leishmania spp. promastigotes. PMID:25503511
Phosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast. PMID:25492886
CRISPR-Cas9-based knockout of the prion protein and its effect on the proteome. PMID:25490046
Computational phosphoproteomics: from identification to localization. PMID:25475148
Tomato nuclear proteome reveals the involvement of specific E2 ubiquitin-conjugating enzymes in fruit ripening. PMID:25464976
Preprocessing significantly improves the peptide/protein identification sensitivity of high-resolution isobarically labeled tandem mass spectrometry data. PMID:25435543
The UCSC Genome Browser database: 2015 update. PMID:25428374
Comparative phosphoproteomic analysis of mammalian glomeruli reveals conserved podocin C-terminal phosphorylation as a determinant of slit diaphragm complex architecture. PMID:25420462
Identification of rare alternative splicing events in MS/MS data reveals a significant fraction of alternative translation initiation sites. PMID:25405079
A previously uncharacterized, nonphotosynthetic member of the Chromatiaceae is the primary CO2-fixing constituent in a self-regenerating biocathode. PMID:25398855
Hepatic proteome analysis of Atlantic salmon (Salmo salar) after exposure to environmental concentrations of human pharmaceuticals. PMID:25394398
PIP4kγ is a substrate for mTORC1 that maintains basal mTORC1 signaling during starvation. PMID:25372051
Sustained mitogen-activated protein kinase activation reprograms defense metabolism and phosphoprotein profile in Arabidopsis thaliana. PMID:25368622
Quantitative phosphoproteomic analysis of IL-33-mediated signaling. PMID:25367039
Accurate protein complex retrieval by affinity enrichment mass spectrometry (AE-MS) rather than affinity purification mass spectrometry (AP-MS). PMID:25363814
Proteogenomics: concepts, applications and computational strategies. PMID:25357241
Proteomics of skin proteins in psoriasis: from discovery and verification in a mouse model to confirmation in humans. PMID:25351201
Identifying novel biomarkers through data mining-a realistic scenario? PMID:25347964
Rsp5/Nedd4 is the main ubiquitin ligase that targets cytosolic misfolded proteins following heat stress. PMID:25344756
Exploring the human plasma proteome for humoral mediators of remote ischemic preconditioning--a word of caution. PMID:25333471
Substrate trapping proteomics reveals targets of the βTrCP2/FBXW11 ubiquitin ligase. PMID:25332235
The Hsp90-dependent proteome is conserved and enriched for hub proteins with high levels of protein-protein connectivity. PMID:25316598
Refined phosphopeptide enrichment by phosphate additive and the analysis of human brain phosphoproteome. PMID:25307156
The peptide microarray "ChloroPhos1.0" identifies new phosphorylation targets of plastid casein kinase II (pCKII) in Arabidopsis thaliana. PMID:25295873
Proteomic profiles in acute respiratory distress syndrome differentiates survivors from non-survivors. PMID:25290099
Utilising proteomic approaches to understand oncogenic human herpesviruses (Review). PMID:25279171
Analysis of differential expression patterns of mRNA and protein during cold-acclimation and de-acclimation in Arabidopsis. PMID:25277243
Transcriptome-wide characterization of the eIF4A signature highlights plasticity in translation regulation. PMID:25273840
Label-free LC-MSe in tissue and serum reveals protein networks underlying differences between benign and malignant serous ovarian tumors. PMID:25265318
Species identification of archaeological skin objects from Danish bogs: comparison between mass spectrometry-based peptide sequencing and microscopy-based methods. PMID:25260035
SNW1 enables sister chromatid cohesion by mediating the splicing of sororin and APC2 pre-mRNAs. PMID:25257309
A transcriptional regulator Sll0794 regulates tolerance to biofuel ethanol in photosynthetic Synechocystis sp. PCC 6803. PMID:25239498
Identification of long-lived proteins retained in cells undergoing repeated asymmetric divisions. PMID:25228775
Uncovering global SUMOylation signaling networks in a site-specific manner. PMID:25218447
Differential cysteine labeling and global label-free proteomics reveals an altered metabolic state in skeletal muscle aging. PMID:25181601
A pipeline for determining protein-protein interactions and proximities in the cellular milieu. PMID:25172955
A normative study of the synovial fluid proteome from healthy porcine knee joints. PMID:25160569
Making proteomics data accessible and reusable: current state of proteomics databases and repositories. PMID:25158685
Systematic evaluation of quantotypic peptides for targeted analysis of the human kinome. PMID:25152083
A highly efficient tumor-infiltrating MDSC differentiation system for discovery of anti-neoplastic targets, which circumvents the need for tumor establishment in mice. PMID:25151659
Comparative proteome analysis reveals conserved and specific adaptation patterns of Staphylococcus aureus after internalization by different types of human non-professional phagocytic host cells. PMID:25136337
Proteomic analysis of the Plasmodium male gamete reveals the key role for glycolysis in flagellar motility. PMID:25124718
Label-free protein quantification for plant Golgi protein localization and abundance. PMID:25122472
The bromodomain of Gcn5 regulates site specificity of lysine acetylation on histone H3. PMID:25106422
A PWWP domain-containing protein targets the NuA3 acetyltransferase complex via histone H3 lysine 36 trimethylation to coordinate transcriptional elongation at coding regions. PMID:25104842
Environmental enrichment alters protein expression as well as the proteomic response to cocaine in rat nucleus accumbens. PMID:25100957
Proteomic analysis of human vitreous humor. PMID:25097467
Sumoylation controls host anti-bacterial response to the gut invasive pathogen Shigella flexneri. PMID:25097252
Proteomic analysis of the human cyclin-dependent kinase family reveals a novel CDK5 complex involved in cell growth and migration. PMID:25096995
A standardized framing for reporting protein identifications in mzIdentML 1.2. PMID:25092112
The LKB1-salt-inducible kinase pathway functions as a key gluconeogenic suppressor in the liver. PMID:25088745
Identification of candidate substrates for the Golgi Tul1 E3 ligase using quantitative diGly proteomics in yeast. PMID:25078903
Quantitative proteomic analysis reveals posttranslational responses to aneuploidy in yeast. PMID:25073701
Hippocampal extracellular matrix levels and stochasticity in synaptic protein expression increase with age and are associated with age-dependent cognitive decline. PMID:25044018
Colonization state influences the hemocyte proteome in a beneficial squid-Vibrio symbiosis. PMID:25038065
Quantitative proteomic analysis reveals metabolic alterations, calcium dysregulation, and increased expression of extracellular matrix proteins in laminin α2 chain-deficient muscle. PMID:24994560
The mzTab data exchange format: communicating mass-spectrometry-based proteomics and metabolomics experimental results to a wider audience. PMID:24980485
Deep proteomics of the Xenopus laevis egg using an mRNA-derived reference database. PMID:24954049
Genome-wide identification and functional analysis of Apobec-1-mediated C-to-U RNA editing in mouse small intestine and liver. PMID:24946870
Using PeptideAtlas, SRMAtlas, and PASSEL: Comprehensive Resources for Discovery and Targeted Proteomics. PMID:24939129
Interactions of proteins with biogenic iron oxyhydroxides and a new culturing technique to increase biomass yields of neutrophilic, iron-oxidizing bacteria. PMID:24910632
Mass-spectrometry-based draft of the human proteome. PMID:24870543
Proteomic identification of monoclonal antibodies from serum. PMID:24684310
State of the human proteome in 2013 as viewed through PeptideAtlas: comparing the kidney, urine, and plasma proteomes for the biology- and disease-driven Human Proteome Project. PMID:24261998 -
mzML--a community standard for mass spectrometry data
PubMed citations: 246.
246 articles citing: mzML--a community standard for mass spectrometry data
FLASHIda enables intelligent data acquisition for top-down proteomics to boost proteoform identification counts. PMID:35906205
A Current Encyclopedia of Bioinformatics Tools, Data Formats and Resources for Mass Spectrometry Lipidomics. PMID:35888710
Preovulatory serum estradiol concentration is positively associated with oocyte ATP and follicular fluid metabolite abundance in lactating beef cattle. PMID:35772749
PeakForest: a multi-platform digital infrastructure for interoperable metabolite spectral data and metadata management. PMID:35699774
Mass Deconvolution of Top-Down Mass Spectrometry Datasets by FLASHDeconv. PMID:35657592
A learned embedding for efficient joint analysis of millions of mass spectra. PMID:35637305
Engineered SH2 Domains for Targeted Phosphoproteomics. PMID:35613471
DEIMoS: An Open-Source Tool for Processing High-Dimensional Mass Spectrometry Data. PMID:35430813
automRm: An R Package for Fully Automatic LC-QQQ-MS Data Preprocessing Powered by Machine Learning. PMID:35412809
Glyco-Decipher enables glycan database-independent peptide matching and in-depth characterization of site-specific N-glycosylation. PMID:35393418
Changes in Microbiome Activity and Sporadic Viral Infection Help Explain Observed Variability in Microcosm Studies. PMID:35369463
StackZDPD: a novel encoding scheme for mass spectrometry data optimized for speed and compression ratio. PMID:35354909
Postmortem Skeletal Microbial Community Composition and Function in Buried Human Remains. PMID:35353006
Proteomics Standards Initiative's ProForma 2.0: Unifying the Encoding of Proteoforms and Peptidoforms. PMID:35290070
Gut Microbiome and Metabolome Variations in Self-Identified Muscle Builders Who Report Using Protein Supplements. PMID:35276896
Trait Energy and Fatigue May Be Connected to Gut Bacteria among Young Physically Active Adults: An Exploratory Study. PMID:35276824
NP Analyst: An Open Online Platform for Compound Activity Mapping. PMID:35233454
Mechanism-based traps enable protease and hydrolase substrate discovery. PMID:35173328
Aird: a computation-oriented mass spectrometry data format enables a higher compression ratio and less decoding time. PMID:35021987
Mouse Organ-Specific Proteins and Functions. PMID:34943957
Application of Skyline for Analysis of Protein-Protein Interactions In Vivo. PMID:34885753
ProMetIS, deep phenotyping of mouse models by combined proteomics and metabolomics analysis. PMID:34862403
Leaf Apoplast of Field-Grown Potato Analyzed by Quantitative Proteomics and Activity-Based Protein Profiling. PMID:34769464
The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences. PMID:34723319
PeptideShaker Online: A User-Friendly Web-Based Framework for the Identification of Mass Spectrometry-Based Proteomics Data. PMID:34709836
The Effect of Impaired Polyamine Transport on Pneumococcal Transcriptome. PMID:34684271
MSCAT: A Machine Learning Assisted Catalog of Metabolomics Software Tools. PMID:34677393
Hallstatt miners consumed blue cheese and beer during the Iron Age and retained a non-Westernized gut microbiome until the Baroque period. PMID:34648730
Data-independent acquisition mass spectrometry for site-specific glycoproteomics characterization of SARS-CoV-2 spike protein. PMID:34635934
Correlation between Pre-Ovulatory Follicle Diameter and Follicular Fluid Metabolome Profiles in Lactating Beef Cows. PMID:34564438
Metabolic drift in the aging nervous system is reflected in human cerebrospinal fluid. PMID:34552125
ISA API: An open platform for interoperable life science experimental metadata. PMID:34528664
Metabolomics for personalized medicine: the input of analytical chemistry from biomarker discovery to point-of-care tests. PMID:34432105
The Arabidopsis PeptideAtlas: Harnessing worldwide proteomics data to create a comprehensive community proteomics resource. PMID:34411258
A Preprocessing Tool for Enhanced Ion Mobility-Mass Spectrometry-Based Omics Workflows. PMID:34382401
Pipelines and Systems for Threshold-Avoiding Quantification of LC-MS/MS Data. PMID:34355890
MaxDIA enables library-based and library-free data-independent acquisition proteomics. PMID:34239088
Exhaled volatilome analysis as a useful tool to discriminate asthma with other coexisting atopic diseases in women of childbearing age. PMID:34226570
New insights into the conversion of electropherograms to the effective electrophoretic mobility scale. PMID:34216494
Universal Spectrum Identifier for mass spectra. PMID:34183830
Large-scale tandem mass spectrum clustering using fast nearest neighbor searching. PMID:34169593
The Human Salivary Proteome Wiki: A Community-Driven Research Platform. PMID:34032471
GlycoHybridSeq: Automated Identification of N-Linked Glycopeptides Using Electron Transfer/High-Energy Collision Dissociation (EThcD). PMID:34010560
PERCEPTRON: an open-source GPU-accelerated proteoform identification pipeline for top-down proteomics. PMID:33999207
Proteomic Identification and Meta-Analysis in Salvia hispanica RNA-Seq de novo Assemblies. PMID:33919777
Proteome Discoverer-A Community Enhanced Data Processing Suite for Protein Informatics. PMID:33806881
MS Amanda 2.0: Advancements in the standalone implementation. PMID:33759252
A wide-ranging Pseudomonas aeruginosa PeptideAtlas build: A useful proteomic resource for a versatile pathogen. PMID:33757883
RawBeans: A Simple, Vendor-Independent, Raw-Data Quality-Control Tool. PMID:33657803
Implementing FAIR data management within the German Network for Bioinformatics Infrastructure (de.NBI) exemplified by selected use cases. PMID:33589928
LC-MS based plant metabolic profiles of thirteen grassland species grown in diverse neighbourhoods. PMID:33563993
Comparative Decomposition of Humans and Pigs: Soil Biogeochemistry, Microbial Activity and Metabolomic Profiles. PMID:33519758
patRoon: open source software platform for environmental mass spectrometry based non-target screening. PMID:33407901
Challenges Associated With the Design and Deployment of Food Intake Urine Biomarker Technology for Assessment of Habitual Diet in Free-Living Individuals and Populations-A Perspective. PMID:33344495
Data preprocessing workflow for exhaled breath analysis by GC/MS using open sources. PMID:33319832
Chemically informed analyses of metabolomics mass spectrometry data with Qemistree. PMID:33199911
DNMSO; an ontology for representing de novo sequencing results from Tandem-MS data. PMID:33150092
Proteomic signatures of acute oxidative stress response to paraquat in the mouse heart. PMID:33116222
Modulation of Escherichia coli Translation by the Specific Inactivation of tRNAGly Under Oxidative Stress. PMID:33014012
Localized Sampling Enables Monitoring of Cell State via Inline Electrospray Ionization Mass Spectrometry. PMID:32975016
Research on the Human Proteome Reaches a Major Milestone: >90% of Predicted Human Proteins Now Credibly Detected, According to the HUPO Human Proteome Project. PMID:32931287
mzMLb: A Future-Proof Raw Mass Spectrometry Data Format Based on Standards-Compliant mzML and Optimized for Speed and Storage Requirements. PMID:32864978
Towards standardization guidelines for in silico approaches in personalized medicine. PMID:32827396
Discovery and predictive modeling of urine microbiome, metabolite and cytokine biomarkers in hospitalized patients with community acquired pneumonia. PMID:32770049
Mining for Peaks in LC-HRMS Datasets Using Finnee - A Case Study with Exhaled Breath Condensates from Healthy, Asthmatic, and COPD Patients. PMID:32656431
Measuring Site-specific Glycosylation Similarity between Influenza a Virus Variants with Statistical Certainty. PMID:32601173
Metabolomics Analysis Reveals Tissue-Specific Metabolite Compositions in Leaf Blade and Traps of Carnivorous Nepenthes Plants. PMID:32575527
The Archaeal Proteome Project advances knowledge about archaeal cell biology through comprehensive proteomics. PMID:32561711
Toffee - a highly efficient, lossless file format for DIA-MS. PMID:32488104
Community standards for open cell migration data. PMID:32396199
LipidCreator workbench to probe the lipidomic landscape. PMID:32345972
Lumenal calcification and microvasculopathy in fetuin-A-deficient mice lead to multiple organ morbidity. PMID:32074120
A Call to Action: the Need for Standardization in Developing Open-Source Mass Spectrometry-Based Methods for Microbial Subspecies Discrimination. PMID:32071161
A computational platform for high-throughput analysis of RNA sequences and modifications by mass spectrometry. PMID:32066737
Federating Structural Models and Data: Outcomes from A Workshop on Archiving Integrative Structures. PMID:31780431
ThermoRawFileParser: Modular, Scalable, and Cross-Platform RAW File Conversion. PMID:31755270
Polyamine Synthesis Effects Capsule Expression by Reduction of Precursors in Streptococcus pneumoniae. PMID:31555234
SPECTRUM - A MATLAB Toolbox for Proteoform Identification from Top-Down Proteomics Data. PMID:31375721
Towards a standardized bioinformatics infrastructure for N- and O-glycomics. PMID:31332201
PTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline. PMID:31290668
Urea Is Both a Carbon and Nitrogen Source for Microcystis aeruginosa: Tracking 13C Incorporation at Bloom pH Conditions. PMID:31164875
Using the Open-Source MALDI TOF-MS IDBac Pipeline for Analysis of Microbial Protein and Specialized Metabolite Data. PMID:31157770
Developing a Food Exposure and Urine Sampling Strategy for Dietary Exposure Biomarker Validation in Free-Living Individuals. PMID:31157514
Interactive Peptide Spectral Annotator: A Versatile Web-based Tool for Proteomic Applications. PMID:31088857
Proteomics Standards Initiative Extended FASTA Format. PMID:31081335
Data-Driven UPLC-Orbitrap MS Analysis in Astrochemistry. PMID:31052536
Addressing the pitfalls when designing intervention studies to discover and validate biomarkers of habitual dietary intake. PMID:31049735
First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study. PMID:31045356
Pixel: a content management platform for quantitative omics data. PMID:30944779
GRITS Toolbox-a freely available software for processing, annotating and archiving glycomics mass spectrometry data. PMID:30913289
Interoperable and scalable data analysis with microservices: applications in metabolomics. PMID:30851093
Carbon Fate and Flux in Prochlorococcus under Nitrogen Limitation. PMID:30834330
Review of recent developments in GC-MS approaches to metabolomics-based research. PMID:30830421
mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics. PMID:30688441
psims - A Declarative Writer for mzML and mzIdentML for Python. PMID:30563850
Plant immunity in natural populations and agricultural fields: Low presence of pathogenesis-related proteins in Solanum leaves. PMID:30412603
Expanding the Use of Spectral Libraries in Proteomics. PMID:30270626
iProX: an integrated proteome resource. PMID:30252093
Computational workflow to study the seasonal variation of secondary metabolites in nine different bryophytes. PMID:30152810
MS-based lipidomics of human blood plasma: a community-initiated position paper to develop accepted guidelines. PMID:30115755
In Vivo Metabolic Tracing Demonstrates the Site-Specific Contribution of Hepatic Ethanol Metabolism to Histone Acetylation. PMID:30030934
Nano LC-MS using capillary columns enables accurate quantification of modified ribonucleosides at low femtomol levels. PMID:30012570
Public proteomics data: How the field has evolved from sceptical inquiry to the promise of in silico proteomics. PMID:29900110
Metabolome changes are induced in the arbuscular mycorrhizal fungus Gigaspora margarita by germination and by its bacterial endosymbiont. PMID:29860608
Application of network smoothing to glycan LC-MS profiling. PMID:29790907
xiSPEC: web-based visualization, analysis and sharing of proteomics data. PMID:29741719
Coupling MALDI-TOF mass spectrometry protein and specialized metabolite analyses to rapidly discriminate bacterial function. PMID:29686101
Untargeted metabolomics confirms and extends the understanding of the impact of aminoimidazole carboxamide ribotide (AICAR) in the metabolic network of Salmonella enterica. PMID:29417056
The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data. PMID:29386051
qPortal: A platform for data-driven biomedical research. PMID:29352322
Integrated omics dissection of proteome dynamics during cardiac remodeling. PMID:29317621
Microcystin-LR does not induce alterations to transcriptomic or metabolomic profiles of a model heterotrophic bacterium. PMID:29240841
A tutorial in small molecule identification via electrospray ionization-mass spectrometry: The practical art of structural elucidation. PMID:29120505
Proteomic Analysis of Phytophthora infestans Reveals the Importance of Cell Wall Proteins in Pathogenicity. PMID:28935716
Navigating freely-available software tools for metabolomics analysis. PMID:28890673
Proteomics Standards Initiative: Fifteen Years of Progress and Future Work. PMID:28849660
Quantitative proteomic characterization of lung-MSC and bone marrow-MSC using DIA-mass spectrometry. PMID:28839187
Informed-Proteomics: open-source software package for top-down proteomics. PMID:28783154
PECAN: library-free peptide detection for data-independent acquisition tandem mass spectrometry data. PMID:28783153
pyQms enables universal and accurate quantification of mass spectrometry data. PMID:28729385
Alcohol-associated intestinal dysbiosis impairs pulmonary host defense against Klebsiella pneumoniae. PMID:28604843
The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics. PMID:28515314
Comparative transcriptome and proteome analysis reveals a global impact of the nitrogen regulators AreA and AreB on secondary metabolism in Fusarium fujikuroi. PMID:28441411
mzML2ISA & nmrML2ISA: generating enriched ISA-Tab metadata files from metabolomics XML data. PMID:28402395
MathIOmica-MSViewer: a dynamic viewer for mass spectrometry files for Mathematica. PMID:28299837
Training in metabolomics research. II. Processing and statistical analysis of metabolomics data, metabolite identification, pathway analysis, applications of metabolomics and its future. PMID:28239968
compMS2Miner: An Automatable Metabolite Identification, Visualization, and Data-Sharing R Package for High-Resolution LC-MS Data Sets. PMID:28225587
The PeptideAtlas of the Domestic Laying Hen. PMID:28166638
A Golden Age for Working with Public Proteomics Data. PMID:28118949
Global open data management in metabolomics. PMID:28092796
Computational tools and workflows in metabolomics: An international survey highlights the opportunity for harmonisation through Galaxy. PMID:28090198
The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition. PMID:27924013
jPOSTrepo: an international standard data repository for proteomes. PMID:27899654
MathIOmica: An Integrative Platform for Dynamic Omics. PMID:27883025
Genome, transcriptome and proteome: the rise of omics data and their integration in biomedical sciences. PMID:27881428
Functional Characteristics of the Gut Microbiome in C57BL/6 Mice Differentially Susceptible to Plasmodium yoelii. PMID:27729904
Comparative mass spectrometry-based metabolomics strategies for the investigation of microbial secondary metabolites. PMID:27604382
An Open Data Format for Visualization and Analysis of Cross-Linked Mass Spectrometry Results. PMID:27469004
The bicoid mRNA localization factor Exuperantia is an RNA-binding pseudonuclease. PMID:27376588
Dinosaur: A Refined Open-Source Peptide MS Feature Detector. PMID:27224449
Integrated Omics and Computational Glycobiology Reveal Structural Basis for Influenza A Virus Glycan Microheterogeneity and Host Interactions. PMID:26984886
Methodological challenges and analytic opportunities for modeling and interpreting Big Healthcare Data. PMID:26918190
The 5300-year-old Helicobacter pylori genome of the Iceman. PMID:26744403
Algorithms and design strategies towards automated glycoproteomics analysis. PMID:26728195
Opening a SWATH Window on Posttranslational Modifications: Automated Pursuit of Modified Peptides. PMID:26704149
Integrated analysis of shotgun proteomic data with PatternLab for proteomics 4.0. PMID:26658470
An evolving computational platform for biological mass spectrometry: workflows, statistics and data mining with MASSyPup64. PMID:26618079
Data standards can boost metabolomics research, and if there is a will, there is a way. PMID:26612985
PRIDE Inspector Toolsuite: Moving Toward a Universal Visualization Tool for Proteomics Data Standard Formats and Quality Assessment of ProteomeXchange Datasets. PMID:26545397
2016 update of the PRIDE database and its related tools. PMID:26527722
A comprehensive Candida albicans PeptideAtlas build enables deep proteome coverage. PMID:26493587
COordination of Standards in MetabOlomicS (COSMOS): facilitating integrated metabolomics data access. PMID:26491418
Exploring the potential of public proteomics data. PMID:26449181
Mass-Up: an all-in-one open software application for MALDI-TOF mass spectrometry knowledge discovery. PMID:26437641
The Pacific Northwest National Laboratory library of bacterial and archaeal proteomic biodiversity. PMID:26306205
Analysis of Metabolomics Datasets with High-Performance Computing and Metabolite Atlases. PMID:26287255
Galaxy Integrated Omics: Web-based Standards-Compliant Workflows for Proteomics Informed by Transcriptomics. PMID:26269333
The SEQUEST family tree. PMID:26122518
The association of low-molecular-weight hydrophobic compounds with native casein micelles in bovine milk. PMID:26074238
The mzqLibrary--An open source Java library supporting the HUPO-PSI quantitative proteomics standard. PMID:26037908
Fast and Efficient XML Data Access for Next-Generation Mass Spectrometry. PMID:25927999
ms-data-core-api: an open-source, metadata-oriented library for computational proteomics. PMID:25910694
Introducing the PRIDE Archive RESTful web services. PMID:25904633
Representation of selected-reaction monitoring data in the mzQuantML data standard. PMID:25884107
Personal genomes, quantitative dynamic omics and personalized medicine. PMID:25798291
Development of data representation standards by the human proteome organization proteomics standards initiative. PMID:25726569
Visualization of proteomics data using R and bioconductor. PMID:25690415
Streaming visualisation of quantitative mass spectrometry data based on a novel raw signal decomposition method. PMID:25663356
Maui-VIA: A User-Friendly Software for Visual Identification, Alignment, Correction, and Quantification of Gas Chromatography-Mass Spectrometry Data. PMID:25654076
Trans-Proteomic Pipeline, a standardized data processing pipeline for large-scale reproducible proteomics informatics. PMID:25631240
MetaDB a Data Processing Workflow in Untargeted MS-Based Metabolomics Experiments. PMID:25566535
A public repository for mass spectrometry imaging data. PMID:25542566
Ecology and Physiology of the Pathogenic Cyanobacterium Roseofilum reptotaenium. PMID:25517133
mzDB: a file format using multiple indexing strategies for the efficient analysis of large LC-MS/MS and SWATH-MS data sets. PMID:25505153
Computational phosphoproteomics: from identification to localization. PMID:25475148
Processing shotgun proteomics data on the Amazon cloud with the trans-proteomic pipeline. PMID:25418363
Biological Dynamics Markup Language (BDML): an open format for representing quantitative biological dynamics data. PMID:25414366
MS-GF+ makes progress towards a universal database search tool for proteomics. PMID:25358478
Identifying novel biomarkers through data mining-a realistic scenario? PMID:25347964
M2Lite: An Open-source, Light-weight, Pluggable and Fast Proteome Discoverer MSF to mzIdentML Tool. PMID:25346941
Phosphite-induced changes of the transcriptome and secretome in Solanum tuberosum leading to resistance against Phytophthora infestans. PMID:25270759
Photo-cross-linking and high-resolution mass spectrometry for assignment of RNA-binding sites in RNA-binding proteins. PMID:25173706
Making proteomics data accessible and reusable: current state of proteomics databases and repositories. PMID:25158685
A standardized framing for reporting protein identifications in mzIdentML 1.2. PMID:25092112
The mzTab data exchange format: communicating mass-spectrometry-based proteomics and metabolomics experimental results to a wider audience. PMID:24980485
Quantitative proteomics and transcriptomics of potato in response to Phytophthora infestans in compatible and incompatible interactions. PMID:24947944
Using PeptideAtlas, SRMAtlas, and PASSEL: Comprehensive Resources for Discovery and Targeted Proteomics. PMID:24939129
Employing ProteoWizard to Convert Raw Mass Spectrometry Data. PMID:24939128
Mycobacterium tuberculosis supports protein tyrosine phosphorylation. PMID:24927537
qcML: an exchange format for quality control metrics from mass spectrometry experiments. PMID:24760958
Numerical compression schemes for proteomics mass spectrometry data. PMID:24677029
jmzTab: a java interface to the mzTab data standard. PMID:24659499
The Vac14-interaction network is linked to regulators of the endolysosomal and autophagic pathway. PMID:24578385
The Risa R/Bioconductor package: integrative data analysis from experimental metadata and back again. PMID:24564732
The interplay of light and oxygen in the reactive oxygen stress response of Chlamydomonas reinhardtii dissected by quantitative mass spectrometry. PMID:24482124
The jmzQuantML programming interface and validator for the mzQuantML data standard. PMID:24453188
Automated label-free quantification of metabolites from liquid chromatography-mass spectrometry data. PMID:24176773
Deciphering the cryptic genome: genome-wide analyses of the rice pathogen Fusarium fujikuroi reveal complex regulation of secondary metabolism and novel metabolites. PMID:23825955
The metabolic status drives acclimation of iron deficiency responses in Chlamydomonas reinhardtii as revealed by proteomics based hierarchical clustering and reverse genetics. PMID:23820728
Tools (Viewer, Library and Validator) that facilitate use of the peptide and protein identification standard format, termed mzIdentML. PMID:23813117
A Candida albicans PeptideAtlas. PMID:23811049
Mass spectrometry imaging with high resolution in mass and space. PMID:23652571
The mzQuantML data standard for mass spectrometry-based quantitative studies in proteomics. PMID:23599424
A tutorial for software development in quantitative proteomics using PSI standard formats. PMID:23584085
MSiReader: an open-source interface to view and analyze high resolving power MS imaging files on Matlab platform. PMID:23536269
Access guide to human proteinpedia. PMID:23504933
The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary. PMID:23482073
Open source libraries and frameworks for mass spectrometry based proteomics: a developer's perspective. PMID:23467006
Controlled vocabularies and ontologies in proteomics: overview, principles and practice. PMID:23429179
A proteomics search algorithm specifically designed for high-resolution tandem mass spectra. PMID:23323968
Interlaboratory studies and initiatives developing standards for proteomics. PMID:23319436
FCC - An automated rule-based processing tool for life science data. PMID:23311610
An adaptive alignment algorithm for quality-controlled label-free LC-MS. PMID:23306530
Pyteomics--a Python framework for exploratory data analysis and rapid software prototyping in proteomics. PMID:23292976
Chromosome 19 annotations with disease speciation: a first report from the Global Research Consortium. PMID:23249167
Quality assessment for clinical proteomics. PMID:23246537
The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013. PMID:23203882
MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data. PMID:23109552
The Units Ontology: a tool for integrating units of measurement in science. PMID:23060432
A cross-platform toolkit for mass spectrometry and proteomics. PMID:23051804
Data management strategies for multinational large-scale systems biology projects. PMID:23047157
File formats commonly used in mass spectrometry proteomics. PMID:22956731
Fragmentation trees for the structural characterisation of metabolites. PMID:22956319
The PRoteomics IDEntification (PRIDE) Converter 2 framework: an improved suite of tools to facilitate data submission to the PRIDE database and the ProteomeXchange consortium. PMID:22949509
Find pairs: the module for protein quantification of the PeakQuant software suite. PMID:22909347
Minireview: progress and challenges in proteomics data management, sharing, and integration. PMID:22902541
A software toolkit and interface for performing stable isotope labeling and top3 quantification using Progenesis LC-MS. PMID:22888986
A Bovine PeptideAtlas of milk and mammary gland proteomes. PMID:22837157
A critical appraisal of techniques, software packages, and standards for quantitative proteomic analysis. PMID:22804616
Automated selected reaction monitoring software for accurate label-free protein quantification. PMID:22658081
jmzReader: A Java parser library to process and visualize multiple text and XML-based mass spectrometry data formats. PMID:22539430
PRIDE: quality control in a proteomics data repository. PMID:22434838
The mzIdentML data standard for mass spectrometry-based proteomics results. PMID:22375074
PPINGUIN: Peptide Profiling Guided Identification of Proteins improves quantitation of iTRAQ ratios. PMID:22340093
Proteomics and systems biology: current and future applications in the nutritional sciences. PMID:22332076
PASSEL: the PeptideAtlas SRMexperiment library. PMID:22318887
TraML--a standard format for exchange of selected reaction monitoring transition lists. PMID:22159873
MitoMiner: a data warehouse for mitochondrial proteomics data. PMID:22121219
Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam Principles). PMID:22053864
Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam Principles). PMID:22052993
Enabling BioSharing - a report on the Annual Spring Workshop of the HUPO-PSI April 11-13, 2011, EMBL-Heidelberg, Germany. PMID:22045680
The ProteoRed MIAPE web toolkit: a user-friendly framework to connect and share proteomics standards. PMID:21983993
mz5: space- and time-efficient storage of mass spectrometry data sets. PMID:21960719
A honey bee (Apis mellifera L.) PeptideAtlas crossing castes and tissues. PMID:21639908
compomics-utilities: an open-source Java library for computational proteomics. PMID:21385435
MALDI Imaging Mass Spectrometry (MALDI-IMS)-application of spatial proteomics for ovarian cancer classification and diagnosis. PMID:21340013
Tags:
Tags
More detailed information about this field from each metasource.
centrally registered identifier
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mass spectrometry assay
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mass spectrometry spectra
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
protein
metasource: Fairsharing.org
version: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
Tags
More detailed information about this field from each metasource.
centrally registered identifier
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mass spectrometry assay
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
mass spectrometry spectra
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
protein
metasource: Fairsharing.orgversion: FAIRsharing.org: mzML; mz Markup Language; DOI: https://doi.org/10.25504/FAIRsharing.26dmba; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Jan 03 2022 7:10 p.m.
centrally registered identifier mass spectrometry assay mass spectrometry spectra protein
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