A survey of statistical software for analysing RNA-seq data

Dexiang Gao, Jihye Kim, Hyunmin Kim, Tzu L. Phang, Heather Selby, Aik-Choon Tan, Tiejun Tong

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

High-throughput RNA sequencing is rapidly emerging as a favourite method for gene expression studies. We review three software packages - edgeR, DEGseq and baySeq - from Bioconductor http://bioconductor.org for analysing RNA-sequencing data. We focus on three aspects: normalisation, statistical models and the testing employed on these methods. We also discuss the advantages and limitations of these software packages.

Original languageEnglish
Pages (from-to)56-60
Number of pages5
JournalHuman Genomics
Volume5
Issue number1
Publication statusPublished - 2010 Oct 1
Externally publishedYes

Fingerprint

Software
RNA
RNA Sequence Analysis
High-Throughput Nucleotide Sequencing
Statistical Models
Gene Expression
Surveys and Questionnaires

Keywords

  • normalisation
  • RNA-sequencing analysis
  • sequencing data
  • statistical software

ASJC Scopus subject areas

  • Drug Discovery
  • Genetics
  • Molecular Biology
  • Molecular Medicine

Cite this

Gao, D., Kim, J., Kim, H., Phang, T. L., Selby, H., Tan, A-C., & Tong, T. (2010). A survey of statistical software for analysing RNA-seq data. Human Genomics, 5(1), 56-60.

A survey of statistical software for analysing RNA-seq data. / Gao, Dexiang; Kim, Jihye; Kim, Hyunmin; Phang, Tzu L.; Selby, Heather; Tan, Aik-Choon; Tong, Tiejun.

In: Human Genomics, Vol. 5, No. 1, 01.10.2010, p. 56-60.

Research output: Contribution to journalArticle

Gao, D, Kim, J, Kim, H, Phang, TL, Selby, H, Tan, A-C & Tong, T 2010, 'A survey of statistical software for analysing RNA-seq data', Human Genomics, vol. 5, no. 1, pp. 56-60.
Gao D, Kim J, Kim H, Phang TL, Selby H, Tan A-C et al. A survey of statistical software for analysing RNA-seq data. Human Genomics. 2010 Oct 1;5(1):56-60.
Gao, Dexiang ; Kim, Jihye ; Kim, Hyunmin ; Phang, Tzu L. ; Selby, Heather ; Tan, Aik-Choon ; Tong, Tiejun. / A survey of statistical software for analysing RNA-seq data. In: Human Genomics. 2010 ; Vol. 5, No. 1. pp. 56-60.
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