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Oxford University Press, Nucleic Acids Research, D1(42), p. D649-D653, 2013

DOI: 10.1093/nar/gkt1086

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COLOMBOS v2.0: an ever expanding collection of bacterial expression compendia: Table 1.

Journal article published in 2013 by Pieter Meysman, Paolo Sonego, Luca Bianco, Qiang Fu, Daniela Ledezma-Tejeida, Socorro Gama-Castro, Veerle Liebens, Jan Michiels ORCID, Kris Laukens ORCID, Kathleen Marchal, Julio Collado-Vides, Kristof Engelen
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

The COLOMBOS database (http://www.colombos.net) features comprehensive organism-specific cross-platform gene expression compendia of several bacterial model organisms and is supported by a fully interactive web portal and an extensive web API. COLOMBOS was originally published in PLoS One, and COLOMBOS v2.0 includes both an update of the expression data, by expanding the previously available compendia and by adding compendia for several new species, and an update of the surrounding functionality, with improved search and visualization options and novel tools for programmatic access to the database. The scope of the database has also been extended to incorporate RNA-seq data in our compendia by a dedicated analysis pipeline. We demonstrate the validity and robustness of this approach by comparing the same RNA samples measured in parallel using both microarrays and RNA-seq. As far as we know, COLOMBOS currently hosts the largest homogenized gene expression compendia available for seven bacterial model organisms.