{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,12]],"date-time":"2026-04-12T08:08:18Z","timestamp":1775981298210,"version":"3.50.1"},"reference-count":22,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2020,12,26]],"date-time":"2020-12-26T00:00:00Z","timestamp":1608940800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/100018088","name":"University of Virginia School of Medicine","doi-asserted-by":"crossref","id":[{"id":"10.13039\/100018088","id-type":"DOI","asserted-by":"crossref"}]},{"name":"University of Virginia 4-VA program"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,4,9]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>Databases of large-scale genome projects now contain thousands of genomic interval datasets. These data are a critical resource for understanding the function of DNA. However, our ability to examine and integrate interval data of this scale is limited. Here, we introduce the integrated genome database (IGD), a method and tool for searching genome interval datasets more than three orders of magnitude faster than existing approaches, while using only one hundredth of the memory. IGD uses a novel linear binning method that allows us to scale analysis to billions of genomic regions.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availabilityand implementation<\/jats:title>\n                    <jats:p>https:\/\/github.com\/databio\/IGD.<\/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\/btaa1062","type":"journal-article","created":{"date-parts":[[2020,12,15]],"date-time":"2020-12-15T15:14:14Z","timestamp":1608045254000},"page":"118-120","source":"Crossref","is-referenced-by-count":7,"title":["IGD: high-performance search for large-scale genomic interval datasets"],"prefix":"10.1093","volume":"37","author":[{"given":"Jianglin","family":"Feng","sequence":"first","affiliation":[{"name":"Center for Public Health Genomics, School of Medicine, University of Virginia , Charlottesville, VA 22903, USA"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5643-4068","authenticated-orcid":false,"given":"Nathan C","family":"Sheffield","sequence":"additional","affiliation":[{"name":"Center for Public Health Genomics, School of Medicine, University of Virginia , Charlottesville, VA 22903, USA"},{"name":"Department of Public Health Sciences, School of Medicine, University of Virginia , Charlottesville, VA 22903, USA"},{"name":"Department of Biomedical Engineering, School of Medicine, University of Virginia , Charlottesville, VA 22903, USA"},{"name":"Department of Biochemistry and Molecular Genetics, School of Medicine, University of Virginia , Charlottesville, VA 22903, USA"}]}],"member":"286","published-online":{"date-parts":[[2020,12,26]]},"reference":[{"key":"2023051510472499900_btaa1062-B1","doi-asserted-by":"crossref","first-page":"1386","DOI":"10.1093\/bioinformatics\/btl647","article-title":"Nested containment list (NCList): a new algorithm for accelerating interval query of genome alignment and interval databases","volume":"23","author":"Alekseyenko","year":"2007","journal-title":"Bioinformatics"},{"key":"2023051510472499900_btaa1062-B2","doi-asserted-by":"crossref","first-page":"253","DOI":"10.1186\/s12859-018-2255-6","article-title":"BROCKMAN: deciphering variance in epigenomic regulators by k-mer factorization","volume":"19","author":"Boer","year":"2018","journal-title":"BMC Bioinformatics"},{"key":"2023051510472499900_btaa1062-B3","doi-asserted-by":"crossref","first-page":"D267","DOI":"10.1093\/nar\/gkx1092","article-title":"ReMap 2018: An updated atlas of regulatory regions from an integrative analysis of DNA-binding ChIP-seq experiments","volume":"46","author":"Ch\u00e8neby","year":"2018","journal-title":"Nucleic Acids Res"},{"key":"2023051510472499900_btaa1062-B4","author":"Cormen","year":"2001"},{"key":"2023051510472499900_btaa1062-B5","doi-asserted-by":"crossref","first-page":"3323","DOI":"10.1093\/bioinformatics\/btx414","article-title":"Epigenomic annotation-based interpretation of genomic data: from enrichment analysis to machine learning","volume":"33","author":"Dozmorov","year":"2017","journal-title":"Bioinformatics"},{"key":"2023051510472499900_btaa1062-B6","doi-asserted-by":"crossref","first-page":"4907","DOI":"10.1093\/bioinformatics\/btz407","article-title":"Augmented interval list: a novel data structure for efficient genomic interval search","volume":"35","author":"Feng","year":"2019","journal-title":"Bioinformatics"},{"key":"2023051510472499900_btaa1062-B7","doi-asserted-by":"crossref","first-page":"581","DOI":"10.12688\/f1000research.23390.1","article-title":"Seqpare: a self-consistent metric of similarity between genomic interval sets","volume":"9","author":"Feng","year":"2020","journal-title":"F1000Research"},{"key":"2023051510472499900_btaa1062-B8","doi-asserted-by":"crossref","first-page":"e98","DOI":"10.1093\/nar\/gkz590","article-title":"coMethDMR: accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies with continuous phenotypes","volume":"47","author":"Gomez","year":"2019","journal-title":"Nucleic Acids Res"},{"key":"2023051510472499900_btaa1062-B9","doi-asserted-by":"crossref","first-page":"2008","DOI":"10.1109\/TKDE.2018.2871031","article-title":"Next generation indexing for genomic intervals","volume":"31","author":"Jalili","year":"2019","journal-title":"IEEE Trans. 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