{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,11]],"date-time":"2026-02-11T01:49:22Z","timestamp":1770774562962,"version":"3.50.0"},"reference-count":18,"publisher":"Oxford University Press (OUP)","issue":"13","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2016,7,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Next-Generation Sequencing (NGS) technology has revealed that microRNAs (miRNAs) are capable of exhibiting frequent differences from their corresponding mature reference sequences, generating multiple variants: the isoforms of miRNAs (isomiRs). These isomiRs mainly originate via the imprecise and alternative cleavage during the pre-miRNA processing and post-transcriptional modifications that influence miRNA stability, their sub-cellular localization and target selection. Although several tools for the identification of isomiR have been reported, no bioinformatics resource dedicated to gather isomiRs from public NGS data and to provide functional analysis of these isomiRs is available to date. Thus, a free online database, IsomiR Bank has been created to integrate isomiRs detected by our previously published algorithm CPSS. In total, 2727 samples (Small RNA NGS data downloaded from ArrayExpress) from eight species (Arabidopsis thaliana, Drosophila melanogaster, Danio rerio, Homo sapiens, Mus musculus, Oryza sativa, Solanum lycopersicum and Zea mays) are analyzed. At present, 308 919 isomiRs from 4706 mature miRNAs are collected into IsomiR Bank. In addition, IsomiR Bank provides target prediction and enrichment analysis to evaluate the effects of isomiRs on target selection.<\/jats:p>\n               <jats:p>Availability and implementation: IsomiR Bank is implemented in PHP\/PERL\u2009+\u2009MySQL\u2009+\u2009R format and can be freely accessed at http:\/\/mcg.ustc.edu.cn\/bsc\/isomir\/<\/jats:p>\n               <jats:p>Contacts: aoli@ustc.edu.cn or qshi@ustc.edu.cn<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btw070","type":"journal-article","created":{"date-parts":[[2016,3,4]],"date-time":"2016-03-04T02:13:45Z","timestamp":1457057625000},"page":"2069-2071","source":"Crossref","is-referenced-by-count":56,"title":["IsomiR Bank: a research resource for tracking IsomiRs"],"prefix":"10.1093","volume":"32","author":[{"given":"Yuanwei","family":"Zhang","sequence":"first","affiliation":[{"name":"1 Molecular and Cell Genetics Laboratory, The CAS Key Laboratory of Innate Immunity and Chronic Diseases, Hefei National Laboratory for Physical Sciences at Microscale, School of Life Sciences, CAS Center for Excellence in Molecular Cell Science, University of Science and Technology of China, Collaborative Innovation Center of Genetics and Development, Collaborative Innovation Center for Cancer Medicine, Hefei 230027, Anhui, China,"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Qiguang","family":"Zang","sequence":"additional","affiliation":[{"name":"2 School of Information Science and Biology, Centers for Biomedical Engineering, University of Science and Technology of China, Hefei 230027, China,"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bo","family":"Xu","sequence":"additional","affiliation":[{"name":"3 Reproductive Medical Centre of Anhui, Provincial Hospital Affiliated to Anhui Medical University, Hefei 230001, 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China,"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Huan","family":"Zhang","sequence":"additional","affiliation":[{"name":"1 Molecular and Cell Genetics Laboratory, The CAS Key Laboratory of Innate Immunity and Chronic Diseases, Hefei National Laboratory for Physical Sciences at Microscale, School of Life Sciences, CAS Center for Excellence in Molecular Cell Science, University of Science and Technology of China, Collaborative Innovation Center of Genetics and Development, Collaborative Innovation Center for Cancer Medicine, Hefei 230027, Anhui, China,"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yifan","family":"Yang","sequence":"additional","affiliation":[{"name":"4 Department of Statistics, University of Kentucky, Lexington, KY 40536, USA and"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Qiaomei","family":"Hao","sequence":"additional","affiliation":[{"name":"1 Molecular and Cell Genetics Laboratory, The CAS Key Laboratory of Innate Immunity and Chronic Diseases, Hefei National Laboratory for Physical Sciences at Microscale, School of Life Sciences, CAS Center for Excellence in Molecular Cell Science, University of Science and Technology of China, Collaborative Innovation Center of Genetics and Development, Collaborative Innovation Center for Cancer Medicine, Hefei 230027, Anhui, China,"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Furhan","family":"Iqbal","sequence":"additional","affiliation":[{"name":"1 Molecular and Cell Genetics Laboratory, The CAS Key Laboratory of Innate Immunity and Chronic Diseases, Hefei National Laboratory for Physical Sciences at Microscale, School of Life Sciences, CAS Center for Excellence in Molecular Cell Science, University of Science and Technology of China, Collaborative Innovation Center of Genetics and Development, Collaborative Innovation Center for Cancer Medicine, Hefei 230027, Anhui, 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