SignaLink
SignaLink is an integrated resource to analyze signaling pathway cross-talks, transcription factors, miRNAs and regulatory enzymes. it allows browsing of signaling pathways, cross-talks and multi-pathway proteins; selection of transcriptional, post- transcriptional and post translational regulators of a signaling pathway; downloading of species- and pathway-specific information in several formats; designing of genetic/biochemical experiments to verify predicted pathway member proteins; modeling of tissue- or disease-specific signaling processes by merging SignaLink with expression data; and the discovering of novel signaling drug target candidates.
Description
More detailed information about this field from each metasource.
SignaLink is an integrated resource to analyze signaling pathway cross-talks, transcription factors, miRNAs and regulatory enzymes. it allows browsing of signaling pathways, cross-talks and multi-pathway proteins; selection of transcriptional, post- transcriptional and post translational regulators of a signaling pathway; downloading of species- and pathway-specific information in several formats; designing of genetic/biochemical experiments to verify predicted pathway member proteins; modeling of tissue- or disease-specific signaling processes by merging SignaLink with expression data; and the discovering of novel signaling drug target candidates.
metasource: Fairsharing.orgversion: None
Webpage:
http://signalink.org/Webpage
More detailed information about this field from each metasource.
Publications:
Publications
More detailed information about this field from each metasource.
SignaLink 2 - a signaling pathway resource with multi-layered regulatory networks
PMID: 23331499
metasource: Fairsharing.org
version: None
Uniformly curated signaling pathways reveal tissue-specific cross-talks and support drug target discovery
PMID: 20542890
metasource: Fairsharing.org
version: None
Publications
More detailed information about this field from each metasource.
SignaLink 2 - a signaling pathway resource with multi-layered regulatory networks
PMID: 23331499
metasource: Fairsharing.org
version: None
Uniformly curated signaling pathways reveal tissue-specific cross-talks and support drug target discovery
PMID: 20542890
metasource: Fairsharing.org
version: None
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SignaLink 2 - a signaling pathway resource with multi-layered regulatory networks
PubMed citations: 89.
89 articles citing: SignaLink 2 - a signaling pathway resource with multi-layered regulatory networks
Single-cell network biology characterizes cell type gene regulation for drug repurposing and phenotype prediction in Alzheimer's disease. PMID:35849618
Identifying Candidate Flavonoids for Non-Alcoholic Fatty Liver Disease by Network-Based Strategy. PMID:35721123
Comparison of methods and resources for cell-cell communication inference from single-cell RNA-Seq data. PMID:35680885
Network Pharmacology Approach for Medicinal Plants: Review and Assessment. PMID:35631398
Reconstruction and analysis of a large-scale binary Ras-effector signaling network. PMID:35246154
Three topological features of regulatory networks control life-essential and specialized subsystems. PMID:34930908
Pathway Enrichment Analysis of Microarray Data. PMID:34902127
ConsensusPathDB 2022: molecular interactions update as a resource for network biology. PMID:34850110
ERK inhibition in glioblastoma is associated with autophagy activation and tumorigenesis suppression. PMID:34797524
Network Biology Approaches to Achieve Precision Medicine in Inflammatory Bowel Disease. PMID:34745229
Music of metagenomics-a review of its applications, analysis pipeline, and associated tools. PMID:34657989
SignaLink3: a multi-layered resource to uncover tissue-specific signaling networks. PMID:34634810
VB10, a new blood biomarker for differential diagnosis and recovery monitoring of acute viral and bacterial infections. PMID:33906069
Immune Subtyping in Latent Tuberculosis. PMID:33897680
Network-based modeling of herb combinations in traditional Chinese medicine. PMID:33834186
A Detailed Catalogue of Multi-Omics Methodologies for Identification of Putative Biomarkers and Causal Molecular Networks in Translational Cancer Research. PMID:33802234
Integrated intra- and intercellular signaling knowledge for multicellular omics analysis. PMID:33749993
A systems-based method to repurpose marketed therapeutics for antiviral use: a SARS-CoV-2 case study. PMID:33593923
Integrating Patient-Specific Information into Logic Models of Complex Diseases: Application to Acute Myeloid Leukemia. PMID:33578936
A network-based deep learning methodology for stratification of tumor mutations. PMID:33416857
The status of causality in biological databases: data resources and data retrieval possibilities to support logical modeling. PMID:33378765
Exercise protects against spinal cord injury through miR-21-mediated suppression of PDCD4. PMID:33042450
MasterPATH: network analysis of functional genomics screening data. PMID:32928103
Network-based characterization of disease-disease relationships in terms of drugs and therapeutic targets. PMID:32657408
The Minimum Information about a Molecular Interaction CAusal STatement (MI2CAST). PMID:32637990
Predicting and affecting response to cancer therapy based on pathway-level biomarkers. PMID:32620799
Network Medicine Framework for Identifying Drug Repurposing Opportunities for COVID-19. PMID:32550253
Discovering the genes mediating the interactions between chronic respiratory diseases in the human interactome. PMID:32041952
Mechanical forces induce an asthma gene signature in healthy airway epithelial cells. PMID:31969610
pathDIP 4: an extended pathway annotations and enrichment analysis resource for human, model organisms and domesticated species. PMID:31733064
SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update. PMID:31665520
A Survey of Gene Prioritization Tools for Mendelian and Complex Human Diseases. PMID:31494632
Connecting signaling and metabolic pathways in EGF receptor-mediated oncogenesis of glioblastoma. PMID:31386654
A genome-wide positioning systems network algorithm for in silico drug repurposing. PMID:31375661
Estimation of Transcription Factor Activity in Knockdown Studies. PMID:31270369
Genetic Predisposition for Immune System, Hormone, and Metabolic Dysfunction in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome: A Pilot Study. PMID:31179255
A Systems Pharmacology Approach Uncovers Wogonoside as an Angiogenesis Inhibitor of Triple-Negative Breast Cancer by Targeting Hedgehog Signaling. PMID:31178408
Conformational Dynamics and Allosteric Regulation Landscapes of Germline PTEN Mutations Associated with Autism Compared to Those Associated with Cancer. PMID:31006514
Elucidation of Novel Therapeutic Targets for Acute Myeloid Leukemias with RUNX1-RUNX1T1 Fusion. PMID:30959925
Network spectra for drug-target identification in complex diseases: new guns against old foes. PMID:30596144
Network-based approach to prediction and population-based validation of in silico drug repurposing. PMID:30002366
Controllability in an islet specific regulatory network identifies the transcriptional factor NFATC4, which regulates Type 2 Diabetes associated genes. PMID:29977601
Developments in toxicogenomics: understanding and predicting compound-induced toxicity from gene expression data. PMID:29917034
REGGAE: a novel approach for the identification of key transcriptional regulators. PMID:29741575
SPV: a JavaScript Signaling Pathway Visualizer. PMID:29590303
Network-based integration of multi-omics data for prioritizing cancer genes. PMID:29547932
Transcription factors Tp73, Cebpd, Pax6, and Spi1 rather than DNA methylation regulate chronic transcriptomics changes after experimental traumatic brain injury. PMID:29482641
Novel identification of STAT1 as a crucial mediator of ETV6-NTRK3-induced tumorigenesis. PMID:29391602
Inferring hidden causal relations between pathway members using reduced Google matrix of directed biological networks. PMID:29370181
Phosphoproteomics-Based Profiling of Kinase Activities in Cancer Cells. PMID:29344887
Critical controllability analysis of directed biological networks using efficient graph reduction. PMID:29084972
SalmoNet, an integrated network of ten Salmonella enterica strains reveals common and distinct pathways to host adaptation. PMID:29057095
Differential Tissue-specific and Pathway-specific Anti-obesity Effects of Green Tea and Taeumjowitang, a Traditional Korean Medicine, in Mice. PMID:29018779
Autophagy-related gene expression is an independent prognostic indicator of glioma. PMID:28977840
An individualized gene expression signature for prediction of lung adenocarcinoma metastases. PMID:28922552
Logic Modeling in Quantitative Systems Pharmacology. PMID:28681552
MicroRNA‑21 promotes neurite outgrowth by regulating PDCD4 in a rat model of spinal cord injury. PMID:28656242
Meta-analysis of host response networks identifies a common core in tuberculosis. PMID:28649431
Neighbours of cancer-related proteins have key influence on pathogenesis and could increase the drug target space for anticancer therapies. PMID:28603644
RegulatorTrail: a web service for the identification of key transcriptional regulators. PMID:28472408
Protein Bioinformatics Databases and Resources. PMID:28150231
Unbiased Identification of Blood-based Biomarkers for Pulmonary Tuberculosis by Modeling and Mining Molecular Interaction Networks. PMID:28065665
Identification of critical paralog groups with indispensable roles in the regulation of signaling flow. PMID:27922122
XTalkDB: a database of signaling pathway crosstalk. PMID:27899583
Biomolecular Network-Based Synergistic Drug Combination Discovery. PMID:27891522
Intracellular and intercellular signaling networks in cancer initiation, development and precision anti-cancer therapy: RAS acts as contextual signaling hub. PMID:27395026
MetaNetVar: Pipeline for applying network analysis tools for genomic variants analysis. PMID:27158457
Controllability analysis of the directed human protein interaction network identifies disease genes and drug targets. PMID:27091990
Multi-label multi-instance transfer learning for simultaneous reconstruction and cross-talk modeling of multiple human signaling pathways. PMID:26718335
ORegAnno 3.0: a community-driven resource for curated regulatory annotation. PMID:26578589
SIGNOR: a database of causal relationships between biological entities. PMID:26467481
Integrative systems analysis of diet-induced obesity identified a critical transition in the transcriptomes of the murine liver and epididymal white adipose tissue. PMID:26268884
GLAD: an Online Database of Gene List Annotation for Drosophila. PMID:26157507
Using gene expression signatures to identify novel treatment strategies in gulf war illness. PMID:26156520
PALM-IST: Pathway Assembly from Literature Mining--an Information Search Tool. PMID:25989388
Targets of drugs are generally, and targets of drugs having side effects are specifically good spreaders of human interactome perturbations. PMID:25960144
Systematic identification of cancer driving signaling pathways based on mutual exclusivity of genomic alterations. PMID:25887147
Role of SMC1A overexpression as a predictor of poor prognosis in late stage colorectal cancer. PMID:25884313
PathCards: multi-source consolidation of human biological pathways. PMID:25725062
Autophagy Regulatory Network - a systems-level bioinformatics resource for studying the mechanism and regulation of autophagy. PMID:25635527
Comparison of human cell signaling pathway databases--evolution, drawbacks and challenges. PMID:25632107
ReNE: a cytoscape plugin for regulatory network enhancement. PMID:25541727
Robustness and evolvability of the human signaling network. PMID:25077791
Navigating the multilayered organization of eukaryotic signaling: a new trend in data integration. PMID:24550716
Pattern search in BioPAX models. PMID:24045775
Navigating traditional chinese medicine network pharmacology and computational tools. PMID:23983798
NRF2-ome: an integrated web resource to discover protein interaction and regulatory networks of NRF2. PMID:23710289
Dynamics and structure in cell signaling networks: off-state stability and dynamically positive cycles. PMID:23520476
Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review. PMID:23384594 -
Uniformly curated signaling pathways reveal tissue-specific cross-talks and support drug target discovery
PubMed citations: 34.
34 articles citing: Uniformly curated signaling pathways reveal tissue-specific cross-talks and support drug target discovery
Systematic analysis of noise reduction properties of coupled and isolated feed-forward loops. PMID:34860832
SignaLink3: a multi-layered resource to uncover tissue-specific signaling networks. PMID:34634810
Fuzzy protein theory for disordered proteins. PMID:33170209
Loss-of-function tolerance of enhancers in the human genome. PMID:32243438
Transcription factors Tp73, Cebpd, Pax6, and Spi1 rather than DNA methylation regulate chronic transcriptomics changes after experimental traumatic brain injury. PMID:29482641
SalmoNet, an integrated network of ten Salmonella enterica strains reveals common and distinct pathways to host adaptation. PMID:29057095
Identification of critical paralog groups with indispensable roles in the regulation of signaling flow. PMID:27922122
VEGF-A/VEGFR2 signaling network in endothelial cells relevant to angiogenesis. PMID:27619687
Intracellular and intercellular signaling networks in cancer initiation, development and precision anti-cancer therapy: RAS acts as contextual signaling hub. PMID:27395026
MetaNetVar: Pipeline for applying network analysis tools for genomic variants analysis. PMID:27158457
DL-3-n-butylphthalide delays the onset and progression of diabetic cataract by inhibiting oxidative stress in rat diabetic model. PMID:26759189
ASD v3.0: unraveling allosteric regulation with structural mechanisms and biological networks. PMID:26365237
Role of SMC1A overexpression as a predictor of poor prognosis in late stage colorectal cancer. PMID:25884313
Network features suggest new hepatocellular carcinoma treatment strategies. PMID:25070212
Targeting molecular networks for drug research. PMID:24926314
Curation accuracy of model organism databases. PMID:24923819
Protein conservation and variation suggest mechanisms of cell type-specific modulation of signaling pathways. PMID:24922536
Signaling hypergraphs. PMID:24857424
Integrating protein-protein interaction networks with phenotypes reveals signs of interactions. PMID:24240319
Sulforaphane-induced transcription of thioredoxin reductase in lens: possible significance against cataract formation. PMID:24187484
Allosteric conformational barcodes direct signaling in the cell. PMID:24010710
Mining large-scale response networks reveals 'topmost activities' in Mycobacterium tuberculosis infection. PMID:23892477
NRF2-ome: an integrated web resource to discover protein interaction and regulatory networks of NRF2. PMID:23710289
Dynamics and structure in cell signaling networks: off-state stability and dynamically positive cycles. PMID:23520476
Interpretation of genomic variants using a unified biological network approach. PMID:23505346
Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review. PMID:23384594
SignaLink 2 - a signaling pathway resource with multi-layered regulatory networks. PMID:23331499
The ConsensusPathDB interaction database: 2013 update. PMID:23143270
CellNOptR: a flexible toolkit to train protein signaling networks to data using multiple logic formalisms. PMID:23079107
Endosomal crosstalk: meeting points for signaling pathways. PMID:22796207
The NRF2-related interactome and regulome contain multifunctional proteins and fine-tuned autoregulatory loops. PMID:22641035
Linking proteins to signaling pathways for experiment design and evaluation. PMID:22558382
Allo-network drugs: harnessing allostery in cellular networks. PMID:21925743
Signalogs: orthology-based identification of novel signaling pathway components in three metazoans. PMID:21559328
Tags:
Tags
More detailed information about this field from each metasource.
biological regulation
metasource: Fairsharing.org
version: None
enzyme
metasource: Fairsharing.org
version: None
micro rna
metasource: Fairsharing.org
version: None
network model
metasource: Fairsharing.org
version: None
protein interaction
metasource: Fairsharing.org
version: None
signaling
metasource: Fairsharing.org
version: None
transcription factor
metasource: Fairsharing.org
version: None
Tags
More detailed information about this field from each metasource.
biological regulation
metasource: Fairsharing.orgversion: None
enzyme
metasource: Fairsharing.orgversion: None
micro rna
metasource: Fairsharing.orgversion: None
network model
metasource: Fairsharing.orgversion: None
protein interaction
metasource: Fairsharing.orgversion: None
signaling
metasource: Fairsharing.orgversion: None
transcription factor
metasource: Fairsharing.orgversion: None
biological regulation enzyme micro rna network model protein interaction signaling transcription
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