MiMiR – an integrated platform for microarray data sharing, mining and analysis
Christopher Tomlinson,Manjula Thimma,Stelios Alexandrakis,Tito Castillo,Jayne L. Dennis,Anthony Brooks,Thomas Bradley,Carly Turnbull,Ekaterini Blaveri,Geraint Barton,Norie Chiba,Klio Maratou,Pat Soutter,Timothy J. Aitman,Laurence Game +14 more
TL;DR: The new MiMiR suite of software enables systematic and effective capture of extensive experimental and clinical information with the highest MIAME score, and secure data sharing prior to publication.
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Abstract: Background: Despite considerable efforts within the microarray community for standardising data format, content and description, microarray technologies present major challenges in managing, sharing, analysing and re-using the large amount of data generated locally or internationally. Additionally, it is recognised that inconsistent and low quality experimental annotation in public data repositories significantly compromises the re-use of microarray data for meta-analysis. MiMiR, the Microarray data Mining Resource was designed to tackle some of these limitations and challenges. Here we present new software components and enhancements to the original infrastructure that increase accessibility, utility and opportunities for large scale mining of experimental and clinical data.
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Comprehensive literature review and statistical considerations for GWAS meta-analysis
TL;DR: In this paper, a systematic search from PubMed and manual collection to obtain 620 genomic meta-analysis papers, of which 333 microarray metaanalysis papers are summarized as the basis of this paper and the other 249 GWAS meta analysis papers are discussed in the next companion paper.
SURVEY AND SUMMARY Comprehensive literature review and statistical considerations for GWAS meta-analysis
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ArrayExpress—a public database of microarray experiments and gene expression profiles
Helen Parkinson,Misha Kapushesky,Mohammadreza Shojatalab,Niran Abeygunawardena,Richard M.R. Coulson,Anna Farne,Ele Holloway,Nikolay Kolesnykov,P. Lilja,Margus Lukk,Roby Mani,Tim F. Rayner,Anjan Sharma,E. William,Ugis Sarkans,Alvis Brazma +15 more
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