DSigDB: drug signatures database for gene set analysis

Minjae Yoo; Jimin Shin; Jihye Kim; Karen A Ryall; Kyubum Lee; Sunwon Lee; Minji Jeon; Jaewoo Kang; Aik Choon Tan

doi:10.1093/bioinformatics/btv313

DSigDB: drug signatures database for gene set analysis

Bioinformatics. 2015 Sep 15;31(18):3069-71. doi: 10.1093/bioinformatics/btv313. Epub 2015 May 19.

Authors

Minjae Yoo¹, Jimin Shin¹, Jihye Kim¹, Karen A Ryall¹, Kyubum Lee¹, Sunwon Lee¹, Minji Jeon¹, Jaewoo Kang¹, Aik Choon Tan²

Affiliations

¹ Department of Medicine, Translational Bioinformatics and Cancer Systems Biology Laboratory, Division of Medical Oncology, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA and Department of Computer Science and Engineering, Korea University, Seoul 136-713, South Korea.
² Department of Medicine, Translational Bioinformatics and Cancer Systems Biology Laboratory, Division of Medical Oncology, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA and Department of Computer Science and Engineering, Korea University, Seoul 136-713, South Korea Department of Medicine, Translational Bioinformatics and Cancer Systems Biology Laboratory, Division of Medical Oncology, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA and Department of Computer Science and Engineering, Korea University, Seoul 136-713, South Korea.

Abstract

We report the creation of Drug Signatures Database (DSigDB), a new gene set resource that relates drugs/compounds and their target genes, for gene set enrichment analysis (GSEA). DSigDB currently holds 22 527 gene sets, consists of 17 389 unique compounds covering 19 531 genes. We also developed an online DSigDB resource that allows users to search, view and download drugs/compounds and gene sets. DSigDB gene sets provide seamless integration to GSEA software for linking gene expressions with drugs/compounds for drug repurposing and translational research.

Availability and implementation: DSigDB is freely available for non-commercial use at http://tanlab.ucdenver.edu/DSigDB.

Supplementary information: Supplementary data are available at Bioinformatics online.

Contact: aikchoon.tan@ucdenver.edu.

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

MeSH terms

Carcinoma, Non-Small-Cell Lung / drug therapy
Carcinoma, Non-Small-Cell Lung / genetics
Computational Biology / methods*
Databases, Pharmaceutical*
Drug Repositioning
ErbB Receptors / antagonists & inhibitors
ErbB Receptors / genetics
Gene Expression Profiling*
Gene Expression Regulation*
Humans
Lung Neoplasms / drug therapy
Lung Neoplasms / genetics*
Mutation / genetics
Protein Kinase Inhibitors / pharmacology*
Software*

Substances

Protein Kinase Inhibitors
EGFR protein, human
ErbB Receptors

Abstract

Publication types

MeSH terms

Substances

Grants and funding