Bozhilova LV, Pardo-Diaz J, Reinert G, Deane CM. COGENT: evaluating the consistency of gene co-expression networks.
Bioinformatics 2021;
37:1928-1929. [PMID:
32931579 PMCID:
PMC8317122 DOI:
10.1093/bioinformatics/btaa787]
[Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2020] [Revised: 08/28/2020] [Accepted: 09/03/2020] [Indexed: 12/02/2022] Open
Abstract
Summary
Gene co-expression networks can be constructed in multiple different ways, both in the use of different measures of co-expression, and in the thresholds applied to the calculated co-expression values, from any given dataset. It is often not clear which co-expression network construction method should be preferred. COGENT provides a set of tools designed to aid the choice of network construction method without the need for any external validation data.
Availability and implementation
https://github.com/lbozhilova/COGENT.
Supplementary information
Supplementary information is available at Bioinformatics online.
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