{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,19]],"date-time":"2026-01-19T10:30:57Z","timestamp":1768818657955,"version":"3.49.0"},"reference-count":45,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2024,11,8]],"date-time":"2024-11-08T00:00:00Z","timestamp":1731024000000},"content-version":"vor","delay-in-days":312,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001407","name":"Department of Biotechnology, Ministry of Science and Technology, India","doi-asserted-by":"publisher","award":["BT\/PR40160\/BTIS\/137\/64\/2023 BT\/PR40169\/BTIS\/137\/71\/2023 BT\/PR40261\/ BTIS\/137\/55\/2023 PR40146\/BTIS\/137\/4\/2020"],"award-info":[{"award-number":["BT\/PR40160\/BTIS\/137\/64\/2023 BT\/PR40169\/BTIS\/137\/71\/2023 BT\/PR40261\/ BTIS\/137\/55\/2023 PR40146\/BTIS\/137\/4\/2020"]}],"id":[{"id":"10.13039\/501100001407","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001407","name":"Department of Biotechnology, Ministry of Science and Technology, India","doi-asserted-by":"publisher","award":["BT\/PR40160\/BTIS\/137\/64\/2023 BT\/PR40169\/BTIS\/137\/71\/2023 BT\/PR40261\/ BTIS\/137\/55\/2023 PR40146\/BTIS\/137\/4\/2020"],"award-info":[{"award-number":["BT\/PR40160\/BTIS\/137\/64\/2023 BT\/PR40169\/BTIS\/137\/71\/2023 BT\/PR40261\/ BTIS\/137\/55\/2023 PR40146\/BTIS\/137\/4\/2020"]}],"id":[{"id":"10.13039\/501100001407","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,11,8]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Several pieces of evidence challenge the traditional view of miRNAs as static molecules, revealing dynamic isomiRs originating from each miRNA precursor arm. In plants, isomiRs, which result from imprecise cleavage during pre-miRNA processing and post-transcriptional alterations, serve as crucial regulators of target microRNAs (miRNAs). Despite numerous studies on Arabidopsis miRNAs, the systematic identification and annotation of isomiRs across various tissues and conditions remain limited. Due to the lack of systematically collected isomiR information, we introduce the athisomiRDB database, which houses 20\u2009764 isomiRs from Arabidopsis small RNA-sequencing (sRNA-seq) libraries. It comprises &amp;gt;2700 diverse samples and allows exploration at the sample, miRNA, or isomiR levels, offering insights into the presence or absence of isomiRs. The athisomiRDB includes exclusive and ambiguous isomiRs, each with features such as transcriptional origin, variant-containing isomiRs, and identifiers for frequent single-nucleotide polymorphisms from the 1001 Genomes Project. It also provides 3\u02b9 nontemplated post-transcriptional additions, isomiR\u2013target interactions, and trait associations for each isomiR. We anticipate that athisomiRDB will play a pivotal role in unraveling the regulatory nature of the Arabidopsis miRNAome and enhancing sRNA research by leveraging isomiR profiles from extensive sRNA-seq datasets.<\/jats:p>\n               <jats:p>Database URL: https:\/\/www.nipgr.ac.in\/athisomiRDB<\/jats:p>","DOI":"10.1093\/database\/baae115","type":"journal-article","created":{"date-parts":[[2024,11,8]],"date-time":"2024-11-08T14:11:45Z","timestamp":1731075105000},"source":"Crossref","is-referenced-by-count":1,"title":["athisomiRDB: A comprehensive database of <i>Arabidopsis<\/i> isomiRs"],"prefix":"10.1093","volume":"2024","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2046-4841","authenticated-orcid":false,"given":"A T","family":"Vivek","sequence":"first","affiliation":[{"name":"Bioinformatics Laboratory, National Institute of Plant Genome Research (NIPGR) , Aruna Asaf Ali Marg, New Delhi 110067,","place":["India"]}]},{"given":"Ajay","family":"Arya","sequence":"additional","affiliation":[{"name":"Bioinformatics Laboratory, National Institute of Plant Genome Research (NIPGR) , Aruna Asaf Ali Marg, New Delhi 110067,","place":["India"]}]},{"given":"Supriya P","family":"Swain","sequence":"additional","affiliation":[{"name":"Bioinformatics Laboratory, National Institute of Plant Genome Research (NIPGR) , Aruna Asaf Ali Marg, New Delhi 110067,","place":["India"]}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1872-9903","authenticated-orcid":false,"given":"Shailesh","family":"Kumar","sequence":"additional","affiliation":[{"name":"Bioinformatics Laboratory, National Institute of Plant Genome Research (NIPGR) , Aruna Asaf Ali Marg, New Delhi 110067,","place":["India"]}]}],"member":"286","published-online":{"date-parts":[[2024,11,8]]},"reference":[{"key":"2025030713441899800_R1","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1093\/bib\/bbaa322","article-title":"Computational methods for annotation of plant regulatory non-coding RNAs using RNA-seq","volume":"22","author":"Vivek","year":"2021","journal-title":"Brief Bioinform"},{"key":"2025030713441899800_R2","doi-asserted-by":"crossref","first-page":"707","DOI":"10.1016\/j.fmre.2023.02.023","article-title":"microRNA biogenesis and stabilization in plants","volume":"3","author":"Xu","year":"2023","journal-title":"Fundam Res"},{"key":"2025030713441899800_R3","doi-asserted-by":"crossref","first-page":"272","DOI":"10.1105\/tpc.17.00851","article-title":"Revisiting criteria for plant microRNA annotation in the era of big data","volume":"30","author":"Axtell","year":"2018","journal-title":"Plant 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