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The utility of MAS5 expression summary and detection call algorithms

Stuart D Pepper, Emma K Saunders, Laura E Edwards, Claire L Wilson and Crispin J Miller*

BMC Bioinformatics 2007, 8:273 doi:10.1186/1471-2105-8-273

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BioMed Central: 7 citations

Research article   Open Access

Genetic architecture of gene expression in ovine skeletal muscle

Lisette JA Kogelman, Keren Byrne, Tony Vuocolo, Nathan S Watson-Haigh, Haja N Kadarmideen, James W Kijas, Hutton V Oddy, Graham E Gardner, Cedric Gondro, Ross L Tellam BMC Genomics 2011, 12:607 (15 December 2011)

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Research article   Open Access

Comparative gene expression profiles between heterotic and non-heterotic hybrids of tetraploid Medicago sativa

Xuehui Li, Yanling Wei, Dan Nettleton, E Charles Brummer BMC Plant Biology 2009, 9:107 (13 August 2009)

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Methodology   Open Access

The chemiluminescence based Ziplex® automated workstation focus array reproduces ovarian cancer Affymetrix GeneChip® expression profiles

Michael CJ Quinn, Daniel J Wilson, Fiona Young, Adam A Dempsey, Suzanna L Arcand, Ashley H Birch, Paulina M Wojnarowicz, Diane Provencher, Anne-Marie Mes-Masson, David Englert, Patricia N Tonin Journal of Translational Medicine 2009, 7:55 (6 July 2009)

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Research article   Open Access

The removal of multiplicative, systematic bias allows integration of breast cancer gene expression datasets – improving meta-analysis and prediction of prognosis

Andrew H Sims, Graeme J Smethurst, Yvonne Hey, Michal J Okoniewski, Stuart D Pepper, Anthony Howell, Crispin J Miller, Robert B Clarke BMC Medical Genomics 2008, 1:42 (21 September 2008)

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Systematic bioinformatic analysis of expression levels of 17,330 human genes across 9,783 samples from 175 types of healthy and pathological tissues

Sami Kilpinen, Reija Autio, Kalle Ojala, Kristiina Iljin, Elmar Bucher, Henri Sara, Tommi Pisto, Matti Saarela, Rolf I Skotheim, Mari Björkman, John-Patrick Mpindi, Saija Haapa-Paananen, Paula Vainio, Henrik Edgren, Maija Wolf, Jaakko Astola, Matthias Nees, Sampsa Hautaniemi, Olli Kallioniemi Genome Biology 2008, 9:R139 (19 September 2008)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

A method for the comparison of mRNA expression levels of most human genes across gene expression array experiments, and a database of the results, are presented.

Research   Open Access Highly Accessed

A weighted average difference method for detecting differentially expressed genes from microarray data

Koji Kadota, Yuji Nakai, Kentaro Shimizu Algorithms for Molecular Biology 2008, 3:8 (26 June 2008)

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Methodology article   Open Access Highly Accessed

Exon level integration of proteomics and microarray data

Danny A Bitton, Michał J Okoniewski, Yvonne Connolly, Crispin J Miller BMC Bioinformatics 2008, 9:118 (25 February 2008)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | 1 comment |  Editor’s summary

Combining microarray and proteomics datasets at the level of individual exons and isoforms helps to obtain higher correlation between the datasets and to account for alternative splicing.

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