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dc.contributor.authorLoza, Matthew J.en
dc.contributor.authorMcCall, Charles E.en
dc.contributor.authorLi, Liwuen
dc.contributor.authorIsaacs, William B.en
dc.contributor.authorXu, Jianfengen
dc.contributor.authorChang, Bao-Lien
dc.date.accessioned2018-11-15T14:43:31Zen
dc.date.available2018-11-15T14:43:31Zen
dc.date.issued2007-10-17en
dc.identifier.othere1035en
dc.identifier.urihttp://hdl.handle.net/10919/85856en
dc.description.abstractRecent identifications of associations between novel variants in inflammation-related genes and several common diseases emphasize the need for systematic evaluations of these genes in disease susceptibility. Considering that many genes are involved in the complex inflammation responses and many genetic variants in these genes have the potential to alter the functions and expression of these genes, we assembled a list of key inflammation-related genes to facilitate the identification of genetic associations of diseases with an inflammation-related etiology. We first reviewed various phases of inflammation responses, including the development of immune cells, sensing of danger, influx of cells to sites of insult, activation and functional responses of immune and non-immune cells, and resolution of the immune response. Assisted by the Ingenuity Pathway Analysis, we then identified 17 functional sub-pathways that are involved in one or multiple phases. This organization would greatly increase the chance of detecting gene-gene interactions by hierarchical clustering of genes with their functional closeness in a pathway. Finally, as an example application, we have developed tagging single nucleotide polymorphism (tSNP) arrays for populations of European and African descent to capture all the common variants of these key inflammation-related genes. Assays of these tSNPs have been designed and assembled into two Affymetrix ParAllele customized chips, one each for European (12,011 SNPs) and African (21,542 SNPs) populations. These tSNPs have greater coverage for these inflammation-related genes compared to the existing genome-wide arrays, particularly in the African population. These tSNP arrays can facilitate systematic evaluation of inflammation pathways in disease susceptibility. For additional applications, other genotyping platforms could also be employed. For existing genome-wide association data, this list of key inflammation-related genes and associated subpathways can facilitate comprehensive inflammation pathway- focused association analyses.en
dc.format.mimetypeapplication/pdfen
dc.language.isoen_USen
dc.publisherPLOSen
dc.rightsCreative Commons Attribution 4.0 Internationalen
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.titleAssembly of Inflammation-Related Genes for Pathway-Focused Genetic Analysisen
dc.typeArticle - Refereeden
dc.description.versionPeer Revieweden
dc.contributor.departmentBiological Sciencesen
dc.title.serialPLOS ONEen
dc.identifier.doihttps://doi.org/10.1371/journal.pone.0001035en
dc.identifier.volume2en
dc.identifier.issue10en
dc.type.dcmitypeTexten
dc.identifier.pmid17940599en
dc.identifier.eissn1932-6203en


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Creative Commons Attribution 4.0 International
License: Creative Commons Attribution 4.0 International