ArticleJournal of computational biology : a journal of computational molecular cell biology2012
Large-scale elucidation of drug response pathways in humans.
Article in Journal of computational biology : a journal of computational molecular cell biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Article
- Metabolomics based biomarker identification of anti-diabetes and anti-obesity properties of Malaysian herbs.Metabolomics : Official journal of the Metabolomic Society · 2022Review
- A Discovery of Clinically Approved Formula FBRP for Repositioning to Treat HCC by Inhibiting PI3K/AKT/NF-κB Activation.Molecular therapy. Nucleic acids · 2020Article
- SIGN: similarity identification in gene expression.Bioinformatics (Oxford, England) · 2019Article
- Drug repositioning using drug-disease vectors based on an integrated network.BMC bioinformatics · 2018Article
- Identifying drug-pathway association pairs based on LBMC systems biology · 2017Article
- Drug voyager: a computational platform for exploring unintended drug action.BMC bioinformatics · 2017Article
- Computational discovery of transcription factors associated with drug response.The pharmacogenomics journal · 2016Article
- Prediction of Metabolic Pathway Involvement in Prokaryotic UniProtKB Data by Association Rule Mining.PloS one · 2016Article
- A Systematic Framework for Drug Repositioning from Integrated Omics and Drug Phenotype Profiles Using Pathway-Drug Network.BioMed research international · 2016Article
- The potential of translational bioinformatics approaches for pharmacology research.British journal of clinical pharmacology · 2015Article
- Integrating systems biology sources illuminates drug action.Clinical pharmacology and therapeutics · 2014Article
- Using molecular features of xenobiotics to predict hepatic gene expression response.Journal of chemical information and modeling · 2013Article
- Drug target inference through pathway analysis of genomics data.Advanced drug delivery reviews · 2013Review
- Machine learning prediction of cancer cell sensitivity to drugs based on genomic and chemical properties.PloS one · 2013Article
- Systems biology approaches for identifying adverse drug reactions and elucidating their underlying biological mechanisms.Wiley interdisciplinary reviews. Systems biology and medicineReview
Corrections and comments
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Authors and funding
5 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Elucidating signaling pathways is a fundamental step in understanding cellular processes and developing new therapeutic strategies. Here we introduce a method for the large-scale elucidation of signaling pathways involved in cellular response to drugs. Combining drug targets, drug response expression profiles, and the human physical interaction network, we infer 99 human drug response pathways and study their properties. Based on the newly inferred pathways, we develop a pathway-based drug-drug similarity measure and compare it to two common, gold standard drug-drug similarity measures. Remarkably, our measure provides better correspondence to these gold standards than similarity measures that are based on associations between drugs and known pathways, or on drug-specific gene expression profiles. It further improves the prediction of drug side effects and indications, elucidating specific response pathways that may be associated with these drug properties. Supplementary Material for this article is available at www.liebertonline.com/cmb.
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