IQRray, a new method for Affymetrix microarray quality control, and the homologous organ conservation score, a new benchmark method for quality control metrics
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[1] T. Hudson,et al. Characterization of variability in large-scale gene expression data: implications for study design. , 2002, Genomics.
[2] Audrey Kauffmann,et al. Bioinformatics Applications Note Arrayqualitymetrics—a Bioconductor Package for Quality Assessment of Microarray Data , 2022 .
[3] D. Lockhart,et al. Expression monitoring by hybridization to high-density oligonucleotide arrays , 1996, Nature Biotechnology.
[4] Ibrahim Emam,et al. Gene Expression Atlas at the European Bioinformatics Institute , 2009, Nucleic Acids Res..
[5] T P Speed,et al. Experimental design and low-level analysis of microarray data. , 2004, International review of neurobiology.
[6] H. Klein,et al. Leukemia Gene Atlas – A Public Platform for Integrative Exploration of Genome-Wide Molecular Data , 2012, PloS one.
[7] G. Tseng,et al. Comprehensive literature review and statistical considerations for microarray meta-analysis , 2012, Nucleic acids research.
[8] Jean YH Yang,et al. Bioconductor: open software development for computational biology and bioinformatics , 2004, Genome Biology.
[9] Terence P. Speed,et al. Quality Assessment for Short Oligonucleotide Microarray Data , 2007, Technometrics.
[10] Crispin J. Miller,et al. Simpleaffy: a BioConductor package for Affymetrix Quality Control and data analysis , 2005, Bioinform..
[11] Kengo Kinoshita,et al. COXPRESdb: a database of comparative gene coexpression networks of eleven species for mammals , 2012, Nucleic Acids Res..
[12] Chi Zhang,et al. TiSGeD: a database for tissue-specific genes , 2010, Bioinform..
[13] T. Speed,et al. Summaries of Affymetrix GeneChip probe level data. , 2003, Nucleic acids research.
[14] Terence P. Speed,et al. Quality Assessment of Affymetrix GeneChip Data , 2005 .
[15] Audrey Kauffmann,et al. Contributions of the EMERALD project to assessing and improving microarray data quality. , 2011, BioTechniques.
[16] Benjamin M. Bolstad,et al. affy - analysis of Affymetrix GeneChip data at the probe level , 2004, Bioinform..
[17] Wei Chen,et al. Comparison of seven methods for producing Affymetrix expression scores based on False Discovery Rates in disease profiling data , 2005, BMC Bioinformatics.
[18] Rafael A Irizarry,et al. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. , 2003, Biostatistics.
[19] Sven Bergmann,et al. Comparative modular analysis of gene expression in vertebrate organs , 2012, BMC Genomics.
[20] T. Barrette,et al. Oncomine 3.0: genes, pathways, and networks in a collection of 18,000 cancer gene expression profiles. , 2007, Neoplasia.
[21] Peter N. Murakami,et al. Assessing affymetrix GeneChip microarray quality , 2011, BMC Bioinformatics.
[22] Stéphane Le Crom,et al. yMGV: helping biologists with yeast microarray data mining , 2002, Nucleic Acids Res..
[23] Sébastien Moretti,et al. Bgee: Integrating and Comparing Heterogeneous Transcriptome Data Among Species , 2008, DILS.
[24] Rafael A Irizarry,et al. Frozen robust multiarray analysis (fRMA). , 2010, Biostatistics.
[25] Johann A. Gagnon-Bartsch,et al. Using control genes to correct for unwanted variation in microarray data. , 2012, Biostatistics.
[26] Catalin C. Barbacioru,et al. Evaluation of DNA microarray results with quantitative gene expression platforms , 2006, Nature Biotechnology.
[27] Julie A. Dickerson,et al. PLEXdb: gene expression resources for plants and plant pathogens , 2011, Nucleic Acids Res..
[28] Timothy Wilkes,et al. Microarray data quality - review of current developments. , 2007, Omics : a journal of integrative biology.
[29] S. Bergmann,et al. The evolution of gene expression levels in mammalian organs , 2011, Nature.
[30] Chunlei Wu,et al. BioGPS and MyGene.info: organizing online, gene-centric information , 2012, Nucleic Acids Res..
[31] Alex E. Lash,et al. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository , 2002, Nucleic Acids Res..
[32] Beate Sick,et al. Quality assessment of Affymetrix GeneChip data. , 2006, Omics : a journal of integrative biology.
[33] Peter Widmayer,et al. Genevestigator V3: A Reference Expression Database for the Meta-Analysis of Transcriptomes , 2008, Adv. Bioinformatics.
[34] Sergio Contrino,et al. ArrayExpress—a public repository for microarray gene expression data at the EBI , 2004, Nucleic Acids Res..
[35] W. Huber,et al. Microarray data quality control improves the detection of differentially expressed genes. , 2010, Genomics.
[36] G. Tseng,et al. Comprehensive literature review and statistical considerations for GWAS meta-analysis , 2012, Nucleic acids research.
[37] H. Parkinson,et al. Large scale comparison of global gene expression patterns in human and mouse , 2010, Genome Biology.
[38] Yidong Chen,et al. GEOmetadb: powerful alternative search engine for the Gene Expression Omnibus , 2008, Bioinform..
[39] Adam L. Asare,et al. Power enhancement via multivariate outlier testing with gene expression arrays , 2009, Bioinform..