{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2023,1,26]],"date-time":"2023-01-26T05:20:10Z","timestamp":1674710410005},"reference-count":20,"publisher":"Oxford University Press (OUP)","issue":"15","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2012,8,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Identifying functional relation of copy number variation regions (CNVRs) and gene is an essential process in understanding the impact of genotypic variations on phenotype. There have been many related works, but only a few attempts were made to normal populations.<\/jats:p>\n               <jats:p>Results: To analyze the functions of genome-wide CNVRs, we applied a novel correlation measure called Correlation based on Sample Set (CSS) to paired Whole Genome TilePath array and messenger RNA (mRNA) microarray data from 210 HapMap individuals with normal phenotypes and calculated the confident CNVR\u2013gene relationships. Two CNVR nodes form an edge if they regulate a common set of genes, allowing the construction of a global CNVR network. We performed functional enrichment on the common genes that were trans-regulated from CNVRs clustered together in our CNVR network. As a result, we observed that most of CNVR clusters in our CNVR network were reported to be involved in some biological processes or cellular functions, while most CNVR clusters from randomly constructed CNVR networks showed no evidence of functional enrichment. Those results imply that CSS is capable of finding related CNVR\u2013gene pairs and CNVR networks that have functional significance.<\/jats:p>\n               <jats:p>Availability: \u00a0http:\/\/embio.yonsei.ac.kr\/~ Park\/cnv_net.php.<\/jats:p>\n               <jats:p>Contact: \u00a0sanghyun@cs.yonsei.ac.kr<\/jats:p>\n               <jats:p>Supplementary Information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/bts318","type":"journal-article","created":{"date-parts":[[2012,5,31]],"date-time":"2012-05-31T04:44:22Z","timestamp":1338439462000},"page":"2045-2051","source":"Crossref","is-referenced-by-count":2,"title":["Identification of functional CNV region networks using a CNV-gene mapping algorithm in a genome-wide scale"],"prefix":"10.1093","volume":"28","author":[{"given":"Chihyun","family":"Park","sequence":"first","affiliation":[{"name":"1 Department of Computer Science, Yonsei University, South Korea, Seoul 120-749 and 2Department of Computer Engineering, Gachon University, Incheon 406-709, South Korea"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jaegyoon","family":"Ahn","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, Yonsei University, South Korea, Seoul 120-749 and 2Department of Computer Engineering, Gachon University, Incheon 406-709, South Korea"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Youngmi","family":"Yoon","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, Yonsei University, South Korea, Seoul 120-749 and 2Department of Computer Engineering, Gachon University, Incheon 406-709, South Korea"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sanghyun","family":"Park","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, Yonsei University, South Korea, Seoul 120-749 and 2Department of Computer Engineering, Gachon University, Incheon 406-709, South Korea"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2012,5,30]]},"reference":[{"key":"2023012512450703100_B1","doi-asserted-by":"crossref","first-page":"761","DOI":"10.1038\/nature09182","article-title":"Link communities reveal multiscale complexity in networks","volume":"466","author":"Ahn","year":"2010","journal-title":"Nature"},{"key":"2023012512450703100_B2","doi-asserted-by":"crossref","first-page":"1299","DOI":"10.1038\/nature04226","article-title":"A haplotype map of the human genome","volume":"437","author":"Altshuler","year":"2005","journal-title":"Nature"},{"key":"2023012512450703100_B3","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1109\/TCBB.2006.10","article-title":"Jointly analyzing gene expression and copy number data in breast cancer using data reduction models","volume":"3","author":"Berger","year":"2006","journal-title":"IEEE\/ACM Trans. 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