A benchmark of gene expression tissue-specificity metrics.

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State: Serval
Version: Final published version
Serval ID
serval:BIB_87132E302513
Type
Article: article from journal or magazin.
Collection
Publications
Title
A benchmark of gene expression tissue-specificity metrics.
Journal
Briefings in Bioinformatics
Author(s)
Kryuchkova-Mostacci N., Robinson-Rechavi M.
ISSN
1477-4054 (Electronic)
ISSN-L
1467-5463
Publication state
Published
Issued date
2017
Peer-reviewed
Oui
Volume
18
Number
2
Pages
205-214
Language
english
Abstract
One of the major properties of genes is their expression pattern. Notably, genes are often classified as tissue specific or housekeeping. This property is of interest to molecular evolution as an explanatory factor of, e.g. evolutionary rate, as well as a functional feature which may in itself evolve. While many different methods of measuring tissue specificity have been proposed and used for such studies, there has been no comparison or benchmarking of these methods to our knowledge, and little justification of their use. In this study, we compare nine measures of tissue specificity. Most methods were established for ESTs and microarrays, and several were later adapted to RNA-seq. We analyse their capacity to distinguish gene categories, their robustness to the choice and number of tissues used and their capture of evolutionary conservation signal.

Keywords
tissue specificity, expression, human, mouse, RNA-seq, microarray
Pubmed
Web of science
Create date
07/02/2017 10:42
Last modification date
03/03/2018 19:00
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