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A summarization approach for Affymetrix GeneChip data using a reference training set from a large, biologically diverse database

Simon Katz, Rafael A Irizarry, Xue Lin, Mark Tripputi and Mark W Porter*

BMC Bioinformatics 2006, 7:464 doi:10.1186/1471-2105-7-464

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BioMed Central: 7 citations

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SiPaGene: A new repository for instant online retrieval, sharing and meta-analyses of GeneChip® expression data

Adriane Menßen, Götz Edinger, Joachim R Grün, Ulrike Haase, Ria Baumgrass, Andreas Grützkau, Andreas Radbruch, Gerd-R Burmester, Thomas Häupl BMC Genomics 2009, 10:98 (5 March 2009)

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Research article   Open Access

Human and mouse switch-like genes share common transcriptional regulatory mechanisms for bimodality

Adam Ertel, Aydin Tozeren BMC Genomics 2008, 9:628 (23 December 2008)

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Expression profiles of switch-like genes accurately classify tissue and infectious disease phenotypes in model-based classification

Michael Gormley, Aydin Tozeren BMC Bioinformatics 2008, 9:486 (17 November 2008)

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Methodology article   Open Access

Empirical Bayes accomodation of batch-effects in microarray data using identical replicate reference samples: application to RNA expression profiling of blood from Duchenne muscular dystrophy patients

Wynn L Walker, Isaac H Liao, Donald L Gilbert, Brenda Wong, Katherine S Pollard, Charles E McCulloch, Lisa Lit, Frank R Sharp BMC Genomics 2008, 9:494 (20 October 2008)

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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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Research article   Open Access

Effect of RNA quality on transcript intensity levels in microarray analysis of human post-mortem brain tissues

Tatiana Popova, Detlev Mennerich, Andreas Weith, Karsten Quast BMC Genomics 2008, 9:91 (25 February 2008)

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Celsius: a community resource for Affymetrix microarray data

Allen Day, Marc RJ Carlson, Jun Dong, Brian D O'Connor, Stanley F Nelson Genome Biology 2007, 8:R112 (14 June 2007)

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

Celsius is a new system that serves as a warehouse by aggregating Affymetrix files and associated metadata, and containing the largest publicly available source of Affymetrix microarray data.

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