Cited by 208Computational Drug Discovery MethodsBioinformatics and Genomic NetworksBiomedical Text Mining and Ontologies

DRAR-CPI: a server for identifying drug repositioning potential and adverse drug reactions via the chemical–protein interactome

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Luo, Heng, Chen, Jian, Shi, Leming, Mikailov, Mike, Zhu, Huang, Wang, Kejian, He, Lin, Yang, Lun·2011·Nucleic Acids Research

Abstract

Identifying new indications for existing drugs (drug repositioning) is an efficient way of maximizing their potential. Adverse drug reaction (ADR) is one of the leading causes of death among hospitalized patients. As both new indications and ADRs are caused by unexpected chemical-protein interactions on off-targets, it is reasonable to predict these interactions by mining the chemical-protein interactome (CPI). Making such predictions has recently been facilitated by a web server named DRAR-CPI. This server has a representative collection of drug molecules and targetable human proteins built up from our work in drug repositioning and ADR. When a user submits a molecule, the server will give the positive or negative association scores between the user's molecule and our library drugs based on their interaction profiles towards the targets. Users can thus predict the indications or ADRs of their molecule based on the association scores towards our library drugs. We have matched our predictions of drug-drug associations with those predicted via gene-expression profiles, achieving a matching rate as high as 74%. We have also successfully predicted the connections between anti-psychotics and anti-infectives, indicating the underlying relevance of anti-psychotics in the potential treatment of infections, vice versa. This server is freely available at http://cpi.bio-x.cn/drar/.

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  • All ML methods showed relatively small differences in predictive accuracy and the advantage of DNN was not readily apparent.

    “It is noteworthy that all ML methods showed relatively small differences in predictive accuracy and the advantage of the DNN was not readily apparent.”

    From QSAR without borders (2020) · cites this paper as [114]

  • In a large evaluation set of half a million compounds across >1,000 assays from ChEMBL, kNN generated the best results, SEA lowest.

    “The performance of several ML methods was evaluated, and again kNN generated the best results, while SEA showed the lowest predictivity.”

    From QSAR without borders (2020) · cites this paper as [114]

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Authors
Luo, H., Chen, J., Shi, L., Mikailov, M., Zhu, H., Wang, K., He, L., & Yang, L.
Affiliations
  • Shanghai Jiao Tong University (CN)
  • United States Food and Drug Administration (US)
Corresponding author
  • He, Lin
  • Yang, Lun
Venue
Nucleic Acids Research
Published
2011-05-10
Volume
39
Issue
suppl_2
Pages
W492-W498
ISSN
  • 0305-1048 (ISSN-L)
  • 1362-4962
OpenAlex
W2143251418
Cited by
206
References
54
Citations by year
2026: 4 · 2025: 4 · 2024: 5 · 2023: 12 · 2022: 10 · 2021: 17 · 2020: 18 · 2019: 26 · 2018: 17 · 2017: 13 · 2016: 22 · 2015: 14 · 2014: 15 · 2013: 14 · 2012: 13
FWCI
13.29
Type
journal article
Language
en
Open access
Locations
  • Nucleic Acids Research (publishedVersion, cc-by-nc)
  • PubMed Central (publishedVersion, cc-by-nc)
  • PubMed (publishedVersion)
Topics
  • Physical Sciences › Computer Science › Computational Theory and Mathematics › Computational Drug Discovery Methods
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Biomedical Text Mining and Ontologies
Keywords
drug repurposing, adverse drug reactions, off-target interactions, web server, gene expression profiles, anti-infective agents
MeSH terms
Rosiglitazone, Anti-Infective Agents, Pharmaceutical Preparations, Humans, Hypoglycemic Agents, Ligands, Proteins, Software, Antipsychotic Agents, Internet, Thiazolidinediones, Drug Repositioning, Drug-Related Side Effects and Adverse Reactions

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