A review of connectivity map and computational approaches in pharmacogenomics

• Published in: Briefings in bioinformatics Vol. 19; no. 3; pp. 506 - 523
• Main Authors: Musa, Aliyu, Ghoraie, Laleh Soltan, Zhang, Shu-Dong, Glazko, Galina, Yli-Harja, Olli, Dehmer, Matthias, Haibe-Kains, Benjamin, Emmert-Streib, Frank
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 01-05-2018; Oxford Publishing Limited (England)
• Subjects: Cellular communication; Computational Biology - methods; Computer applications; Computer networks; Databases, Factual; Drug development; Gene Expression Profiling - methods; Gene Regulatory Networks; Humans; Perturbation; Pharmacogenetics; Pharmacogenomics; Pharmacology; Small Molecule Libraries - pharmacology; Transcriptome
• ISSN: 1467-5463; 1477-4054
• DOI: 10.1093/bib/bbw112

Abstract
Large-scale perturbation databases, such as Connectivity Map (CMap) or Library of Integrated Network-based Cellular Signatures (LINCS), provide enormous opportunities for computational pharmacogenomics and drug design. A reason for this is that in contrast to classical pharmacology focusing at one target at a time, the transcriptomics profiles provided by CMap and LINCS open the door for systems biology approaches on the pathway and network level. In this article, we provide a review of recent developments in computational pharmacogenomics with respect to CMap and LINCS and related applications.