ArticleMolecular systems biology2013
Characterization of drug-induced transcriptional modules: towards drug repositioning and functional understanding.
Article in Molecular systems biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 67 papers.
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Who cites it
67 citing papers in PubMed, 121 citations in OpenAlex.
- Trial
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- A comprehensive spectral assay library to quantify the Halobacterium salinarum NRC-1 proteome by DIA/SWATH-MS.Scientific data · 2023Article
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- Vorinostat Corrects Cognitive and Non-Cognitive Symptoms in a Mouse Model of Fragile X Syndrome.The international journal of neuropsychopharmacology · 2022Article
- DISA tool: Discriminative and informative subspace assessment with categorical and numerical outcomes.PloS one · 2022Article
- Artificial intelligence unifies knowledge and actions in drug repositioning.Emerging topics in life sciences · 2021Review
- Drug Therapeutic-Use Class Prediction and Repurposing Using Graph Convolutional Networks.Pharmaceutics · 2021Article
- Agent Clustering Strategy Based on Metabolic Flux Distribution and Transcriptome Expression for Novel Drug Development.Biomedicines · 2021Article
- Review
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- A Gene Expression Biomarker Identifies Chemical Modulators of Estrogen Receptor α in an MCF-7 Microarray Compendium.Chemical research in toxicology · 2021Article
- PIMD: An Integrative Approach for Drug Repositioning Using Multiple Characterization Fusion.Genomics, proteomics & bioinformatics · 2020Article
- A platform for target prediction of phenotypic screening hit molecules.Journal of molecular graphics & modelling · 2020Article
- Drug repurposing to improve treatment of rheumatic autoimmune inflammatory diseases.Nature reviews. Rheumatology · 2020Review
- Functional Gene Module-Based Identification of Phillyrin as an Anticardiac Fibrosis Agent.Frontiers in pharmacology · 2020Article
- A novel drug repurposing approach for non-small cell lung cancer using deep learning.PloS one · 2020Article
- It is time to apply biclustering: a comprehensive review of biclustering applications in biological and biomedical data.Briefings in bioinformatics · 2019Review
7 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
11 authors at 7 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In pharmacology, it is crucial to understand the complex biological responses that drugs elicit in the human organism and how well they can be inferred from model organisms. We therefore identified a large set of drug-induced transcriptional modules from genome-wide microarray data of drug-treated human cell lines and rat liver, and first characterized their conservation. Over 70% of these modules were common for multiple cell lines and 15% were conserved between the human in vitro and the rat in vivo system. We then illustrate the utility of conserved and cell-type-specific drug-induced modules by predicting and experimentally validating (i) gene functions, e.g., 10 novel regulators of cellular cholesterol homeostasis and (ii) new mechanisms of action for existing drugs, thereby providing a starting point for drug repositioning, e.g., novel cell cycle inhibitors and new modulators of α-adrenergic receptor, peroxisome proliferator-activated receptor and estrogen receptor. Taken together, the identified modules reveal the conservation of transcriptional responses towards drugs across cell types and organisms, and improve our understanding of both the molecular basis of drug action and human biology.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.