COLOMBOS v3.0: leveraging gene expression compendia for cross-species analyses. Issue Volume 44:Issue D1(2016) (19th November 2015)

• Record Type: Journal Article
• Authors: Moretto, Marco; Sonego, Paolo; Dierckxsens, Nicolas; Brilli, Matteo; Bianco, Luca; Ledezma-Tejeida, Daniela; Gama-Castro, Socorro; Galardini, Marco; Romualdi, Chiara; Laukens, Kris; Collado-Vides, Julio; Meysman, Pieter; Engelen, Kristof
• Is Part Of: Nucleic acids research. Volume 44:Issue D1(2016)
• Page Start: D620
• Page End: D623
• Publication Date: 2015-11-19
• Subjects: Nucleic acids -- Periodicals; Molecular biology -- Periodicals; 572.805
• DOI: 10.1093/nar/gkv1251
• Languages: English
• ISSNs: 0305-1048

Abstract

Abstract: COLOMBOS is a database that integrates publicly available transcriptomics data for several prokaryotic model organisms. Compared to the previous version it has more than doubled in size, both in terms of species and data available. The manually curated condition annotation has been overhauled as well, giving more complete information about samples' experimental conditions and their differences. Functionality-wise cross-species analyses now enable users to analyse expression data for all species simultaneously, and identify candidate genes with evolutionary conserved expression behaviour. All the expression-based query tools have undergone a substantial improvement, overcoming the limit of enforced co-expression data retrieval and instead enabling the return of more complex patterns of expression behaviour. COLOMBOS is freely available through a web application at http://colombos.net/ . The complete database is also accessible via REST API or downloadable as tab-delimited text files.