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A scaling normalization method for differential expression analysis of RNA-seq data.
Robinson MD, Oshlack A. Robinson MD, et al. Genome Biol. 2010;11(3):R25. doi: 10.1186/gb-2010-11-3-r25. Epub 2010 Mar 2. Genome Biol. 2010. PMID: 20196867 Free PMC article.
From RNA-seq reads to differential expression results.
Oshlack A, Robinson MD, Young MD. Oshlack A, et al. Among authors: robinson md. Genome Biol. 2010;11(12):220. doi: 10.1186/gb-2010-11-12-220. Epub 2010 Dec 22. Genome Biol. 2010. PMID: 21176179 Free PMC article. Review.
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.
Robinson MD, McCarthy DJ, Smyth GK. Robinson MD, et al. Bioinformatics. 2010 Jan 1;26(1):139-40. doi: 10.1093/bioinformatics/btp616. Epub 2009 Nov 11. Bioinformatics. 2010. PMID: 19910308 Free PMC article.
Differential splicing using whole-transcript microarrays.
Robinson MD, Speed TP. Robinson MD, et al. BMC Bioinformatics. 2009 May 22;10:156. doi: 10.1186/1471-2105-10-156. BMC Bioinformatics. 2009. PMID: 19463149 Free PMC article.
A comparison of Affymetrix gene expression arrays.
Robinson MD, Speed TP. Robinson MD, et al. BMC Bioinformatics. 2007 Nov 15;8:449. doi: 10.1186/1471-2105-8-449. BMC Bioinformatics. 2007. PMID: 18005448 Free PMC article.
A dynamic programming approach for the alignment of signal peaks in multiple gas chromatography-mass spectrometry experiments.
Robinson MD, De Souza DP, Keen WW, Saunders EC, McConville MJ, Speed TP, Likić VA. Robinson MD, et al. BMC Bioinformatics. 2007 Oct 29;8:419. doi: 10.1186/1471-2105-8-419. BMC Bioinformatics. 2007. PMID: 17963529 Free PMC article.
Small-sample estimation of negative binomial dispersion, with applications to SAGE data.
Robinson MD, Smyth GK. Robinson MD, et al. Biostatistics. 2008 Apr;9(2):321-32. doi: 10.1093/biostatistics/kxm030. Epub 2007 Aug 29. Biostatistics. 2008. PMID: 17728317
Moderated statistical tests for assessing differences in tag abundance.
Robinson MD, Smyth GK. Robinson MD, et al. Bioinformatics. 2007 Nov 1;23(21):2881-7. doi: 10.1093/bioinformatics/btm453. Epub 2007 Sep 19. Bioinformatics. 2007. PMID: 17881408
Protocol matters: which methylome are you actually studying?
Robinson MD, Statham AL, Speed TP, Clark SJ. Robinson MD, et al. Epigenomics. 2010 Aug;2(4):587-98. doi: 10.2217/epi.10.36. Epigenomics. 2010. PMID: 21566704 Free PMC article.
Evaluation of affinity-based genome-wide DNA methylation data: effects of CpG density, amplification bias, and copy number variation.
Robinson MD, Stirzaker C, Statham AL, Coolen MW, Song JZ, Nair SS, Strbenac D, Speed TP, Clark SJ. Robinson MD, et al. Genome Res. 2010 Dec;20(12):1719-29. doi: 10.1101/gr.110601.110. Epub 2010 Nov 2. Genome Res. 2010. PMID: 21045081 Free PMC article.
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