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dc.contributor.authorGanzfried, Benjamin Frederick
dc.contributor.authorRiester, Markus
dc.contributor.authorHaibe-Kains, Benjamin
dc.contributor.authorRisch, Thomas
dc.contributor.authorTyekucheva, Svitlana
dc.contributor.authorJazic, Ina
dc.contributor.authorWang, Xin Victoria
dc.contributor.authorAhmadifar, Mahnaz
dc.contributor.authorBirrer, Michael James
dc.contributor.authorParmigiani, Giovanni
dc.contributor.authorHuttenhower, Curtis
dc.contributor.authorWaldron, Levi D.
dc.date.accessioned2013-10-16T19:28:09Z
dc.date.issued2013
dc.identifier.citationGanzfried, Benjamin Frederick, Markus Riester, Benjamin Haibe-Kains, Thomas Risch, Svitlana Tyekucheva, Ina Jazic, Xin Victoria Wang, et al. 2013. curatedOvarianData: clinically annotated data for the ovarian cancer transcriptome. Database: The Journal of Biological Databases and Curation 2013:bat013.en_US
dc.identifier.issn1758-0463en_US
dc.identifier.urihttp://nrs.harvard.edu/urn-3:HUL.InstRepos:11179752
dc.description.abstractThis article introduces a manually curated data collection for gene expression meta-analysis of patients with ovarian cancer and software for reproducible preparation of similar databases. This resource provides uniformly prepared microarray data for 2970 patients from 23 studies with curated and documented clinical metadata. It allows users to efficiently identify studies and patient subgroups of interest for analysis and to perform meta-analysis immediately without the challenges posed by harmonizing heterogeneous microarray technologies, study designs, expression data processing methods and clinical data formats. We confirm that the recently proposed biomarker CXCL12 is associated with patient survival, independently of stage and optimal surgical debulking, which was possible only through meta-analysis owing to insufficient sample sizes of the individual studies. The database is implemented as the curatedOvarianData Bioconductor package for the R statistical computing language, providing a comprehensive and flexible resource for clinically oriented investigation of the ovarian cancer transcriptome. The package and pipeline for producing it are available from http://bcb.dfci.harvard.edu/ovariancancer. Database URL: http://bcb.dfci.harvard.edu/ovariancanceren_US
dc.language.isoen_USen_US
dc.publisherOxford University Pressen_US
dc.relation.isversionofdoi:10.1093/database/bat013en_US
dc.relation.hasversionhttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC3625954/pdf/en_US
dash.licenseLAA
dc.titlecuratedOvarianData: clinically annotated data for the ovarian cancer transcriptomeen_US
dc.typeJournal Articleen_US
dc.description.versionVersion of Recorden_US
dc.relation.journalDatabase: The Journal of Biological Databases and Curationen_US
dash.depositing.authorWaldron, Levi D.
dc.date.available2013-10-16T19:28:09Z
dc.identifier.doi10.1093/database/bat013*
dash.authorsorderedfalse
dash.contributor.affiliatedRiester, Markus
dash.contributor.affiliatedWaldron, Levi
dash.contributor.affiliatedTyekucheva, Svitlana
dash.contributor.affiliatedWang, Xin
dash.contributor.affiliatedJazic, Ina
dash.contributor.affiliatedBirrer, Michael J.
dash.contributor.affiliatedParmigiani, Giovanni
dash.contributor.affiliatedHuttenhower, Curtis


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