SIEGE: Smoking Induced Epithelial Gene Expression Database

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dc.contributor.author Shah, Vishal en_US
dc.contributor.author Sridhar, Sriram en_US
dc.contributor.author Beane, Jennifer en_US
dc.contributor.author Brody, Jerome S. en_US
dc.contributor.author Spira, Avrum en_US
dc.date.accessioned 2009-04-13T23:04:02Z
dc.date.available 2009-04-13T23:04:02Z
dc.date.issued 2005-01-01 en_US
dc.identifier.citation 2005. "SIEGE: Smoking Induced Epithelial Gene Expression Database," Nucleic Acids Research. vol. 33 issue. Database Issue . en_US
dc.identifier.other PMC539989 en_US
dc.identifier.uri 10.1093/nar/gki035 en_US
dc.identifier.uri http://hdl.handle.net/2144/993
dc.description.abstract The SIEGE (Smoking Induced Epithelial Gene Expression) database is a clinical resource for compiling and analyzing gene expression data from epithelial cells of the human intra-thoracic airway. This database supports a translational research study whose goal is to profile the changes in airway gene expression that are induced by cigarette smoke. RNA is isolated from airway epithelium obtained at bronchoscopy from current-, former- and never-smoker subjects, and hybridized to Affymetrix HG-U133A Genechips, which measure the level of expression of ~22 500 human transcripts. The microarray data generated along with relevant patient information is uploaded to SIEGE by study administrators using the database's web interface, found at http://pulm.bumc.bu.edu/siegeDB. PERL-coded scripts integrated with SIEGE perform various quality control functions including the processing, filtering and formatting of stored data. The R statistical package is used to import database expression values and execute a number of statistical analyses including t-tests, correlation coefficients and hierarchical clustering. Values from all statistical analyses can be queried through CGI-based tools and web forms found on the �Search� section of the database website. Query results are embedded with graphical capabilities as well as with links to other databases containing valuable gene resources, including Entrez Gene, GO, Biocarta, GeneCards, dbSNP and the NCBI Map Viewer. en_US
dc.relation.ispartof Nucleic Acids Research en_US
dc.relation.ispartofseries vol. 33 issue. Database Issue en_US
dc.title SIEGE: Smoking Induced Epithelial Gene Expression Database en_US
dc.type article en_US

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