Mantra 2.0: an online collaborative resource for drug mode of action and repurposing by network analysis

Diego Carrella; Francesco Napolitano; Rossella Rispoli; Mario Miglietta; Annamaria Carissimo; Luisa Cutillo; Francesco Sirci; Francesco Gregoretti; Diego Di Bernardo

doi:10.1093/bioinformatics/btu058

Mantra 2.0: an online collaborative resource for drug mode of action and repurposing by network analysis

Bioinformatics. 2014 Jun 15;30(12):1787-8. doi: 10.1093/bioinformatics/btu058. Epub 2014 Feb 20.

Authors

Diego Carrella¹, Francesco Napolitano¹, Rossella Rispoli¹, Mario Miglietta¹, Annamaria Carissimo¹, Luisa Cutillo², Francesco Sirci¹, Francesco Gregoretti¹, Diego Di Bernardo²

Affiliations

¹ Telethon Institute of Genetics and Medicine, Via P. Castellino 111, 80131 Naples, Interactive SRL, Via Fratelli Bisogno 5, 83100 Avellino, Dip. di Studi Aziendali e Quantitativi Università degli studi di Napoli 'Parthenope', Via Generale Parisi 13, 80132 Naples, Institute for High-Performance Computing - ICAR - CNR, Via P. Castellino 111, 80131 Naples and Department of Electrical Engineering and Information Technology, University of Naples 'Federico II', Via Claudio 21, 80125 Naples, Italy.
² Telethon Institute of Genetics and Medicine, Via P. Castellino 111, 80131 Naples, Interactive SRL, Via Fratelli Bisogno 5, 83100 Avellino, Dip. di Studi Aziendali e Quantitativi Università degli studi di Napoli 'Parthenope', Via Generale Parisi 13, 80132 Naples, Institute for High-Performance Computing - ICAR - CNR, Via P. Castellino 111, 80131 Naples and Department of Electrical Engineering and Information Technology, University of Naples 'Federico II', Via Claudio 21, 80125 Naples, ItalyTelethon Institute of Genetics and Medicine, Via P. Castellino 111, 80131 Naples, Interactive SRL, Via Fratelli Bisogno 5, 83100 Avellino, Dip. di Studi Aziendali e Quantitativi Università degli studi di Napoli 'Parthenope', Via Generale Parisi 13, 80132 Naples, Institute for High-Performance Computing - ICAR - CNR, Via P. Castellino 111, 80131 Naples and Department of Electrical Engineering and Information Technology, University of Naples 'Federico II', Via Claudio 21, 80125 Naples, Italy.

PMID: 24558125
DOI: 10.1093/bioinformatics/btu058

Abstract

Summary: Elucidation of molecular targets of a compound [mode of action (MoA)] and its off-targets is a crucial step in drug development. We developed an online collaborative resource (MANTRA 2.0) that supports this process by exploiting similarities between drug-induced transcriptional profiles. Drugs are organized in a network of nodes (drugs) and edges (similarities) highlighting 'communities' of drugs sharing a similar MoA. A user can upload gene expression profiles before and after drug treatment in one or multiple cell types. An automated processing pipeline transforms the gene expression profiles into a unique drug 'node' embedded in the drug-network. Visual inspection of the neighbouring drugs and communities helps in revealing its MoA and to suggest new applications of known drugs (drug repurposing). MANTRA 2.0 allows storing and sharing user-generated network nodes, thus making MANTRA 2.0 a collaborative ever-growing resource.

Availability and implementation: The web tool is freely available for academic use at http://mantra.tigem.it.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Cooperative Behavior
Drug Discovery / methods*
Drug Repositioning / methods*
Gene Expression Profiling*
Internet
Software*
Transcriptome / drug effects

Grants and funding

TGM11SB1/TI_/Telethon/Italy