{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,30]],"date-time":"2025-10-30T22:40:27Z","timestamp":1761864027853,"version":"3.37.3"},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2019,10,11]],"date-time":"2019-10-11T00:00:00Z","timestamp":1570752000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100012166","name":"National Key R&D Program of China","doi-asserted-by":"crossref","award":["2018YFA0801100"],"award-info":[{"award-number":["2018YFA0801100"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31971117","81672873"],"award-info":[{"award-number":["31971117","81672873"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Cancer hallmarks rely on its specific transcriptional programs, which are dysregulated by multiple mechanisms, including genomic aberrations in the DNA regulatory regions. Genome-wide association studies have shown many variants are found within putative enhancer elements. To provide insights into the regulatory role of enhancer-associated non-coding variants in cancer epigenome, and to facilitate the identification of functional non-coding mutations, we present dbInDel, a database where we have comprehensively analyzed enhancer-associated insertion and deletion variants for both human and murine samples using ChIP-Seq data. Moreover, we provide the identification and visualization of upstream TF binding motifs in InDel-containing enhancers. Downstream target genes are also predicted and analyzed in the context of cancer biology. The dbInDel database promotes the investigation of functional contributions of non-coding variants in cancer epigenome.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The database, dbInDel, can be accessed from http:\/\/enhancer-indel.cam-su.org\/.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btz770","type":"journal-article","created":{"date-parts":[[2019,10,8]],"date-time":"2019-10-08T19:33:06Z","timestamp":1570563186000},"page":"1649-1651","source":"Crossref","is-referenced-by-count":5,"title":["dbInDel: a database of enhancer-associated insertion and deletion variants by analysis of H3K27ac ChIP-Seq"],"prefix":"10.1093","volume":"36","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-5543-9334","authenticated-orcid":false,"given":"Moli","family":"Huang","sequence":"first","affiliation":[{"name":"Department of Bioinformatics, School of Biology and Basic Medical Sciences"},{"name":"Cambridge-Suda Genomic Research Center, Soochow University , Suzhou 215123, China"}]},{"given":"Yunpeng","family":"Wang","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics, School of Biology and Basic Medical Sciences"}]},{"given":"Manqiu","family":"Yang","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics, School of Biology and Basic Medical Sciences"}]},{"given":"Jun","family":"Yan","sequence":"additional","affiliation":[{"name":"MOE Key Laboratory of Model Animal for Disease Study, Nanjing University , Nanjing 210061, China"}]},{"given":"Henry","family":"Yang","sequence":"additional","affiliation":[{"name":"Cancer Science Institute of Singapore, National University of Singapore , Singapore 119074, Singapore"}]},{"given":"Wenzhuo","family":"Zhuang","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics, School of Biology and Basic Medical Sciences"}]},{"given":"Ying","family":"Xu","sequence":"additional","affiliation":[{"name":"Cambridge-Suda Genomic Research Center, Soochow University , Suzhou 215123, China"}]},{"given":"H Phillip","family":"Koeffler","sequence":"additional","affiliation":[{"name":"Cancer Science Institute of Singapore, National University of Singapore , Singapore 119074, Singapore"},{"name":"Department of Medicine, Cedars-Sinai Medical Center , Los Angeles, CA 90048, USA"}]},{"given":"De-Chen","family":"Lin","sequence":"additional","affiliation":[{"name":"Department of Medicine, Cedars-Sinai Medical Center , Los Angeles, CA 90048, USA"}]},{"given":"Xi","family":"Chen","sequence":"additional","affiliation":[{"name":"Department of Biology, Southern University of Science and Technology , Shenzhen 518055, China"}]}],"member":"286","published-online":{"date-parts":[[2019,10,11]]},"reference":[{"key":"2023060910380237600_btz770-B1","doi-asserted-by":"crossref","first-page":"14385","DOI":"10.1038\/ncomms14385","article-title":"Small genomic insertions form enhancers that misregulate oncogenes","volume":"8","author":"Abraham","year":"2017","journal-title":"Nat. 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