Do count-based differential expression methods perform poorly when genes are expressed in only one condition?

Xiaobei Zhou; Mark D Robinson

doi:10.1186/s13059-015-0781-3

Do count-based differential expression methods perform poorly when genes are expressed in only one condition?

Genome Biol. 2015 Oct 8:16:222. doi: 10.1186/s13059-015-0781-3.

Authors

Xiaobei Zhou^{1

2}, Mark D Robinson^{3

4}

Affiliations

¹ SIB Swiss Institute of Bioinformatics, University of Zurich, Zurich, CH-8057, Switzerland. xiaobei.zhou@uzh.ch.
² Institute of Molecular Life Sciences, University of Zurich, Zurich, CH-8057, Switzerland. xiaobei.zhou@uzh.ch.
³ SIB Swiss Institute of Bioinformatics, University of Zurich, Zurich, CH-8057, Switzerland. mark.robinson@imls.uzh.ch.
⁴ Institute of Molecular Life Sciences, University of Zurich, Zurich, CH-8057, Switzerland. mark.robinson@imls.uzh.ch.

Abstract

A response to 'Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data' by Rapaport F, Khanin R, Liang Y, Pirun M, Krek A, Zumbo P, Mason CE, Socci ND and Betel D in Genome Biology, 2013, 14:R95.

Publication types

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

MeSH terms

High-Throughput Nucleotide Sequencing / statistics & numerical data*
Humans
Nerve Tissue Proteins / genetics*
RNA / genetics*
Sequence Analysis, RNA / statistics & numerical data*
Software*

Substances

Nerve Tissue Proteins
RNA