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ANANASTRA accepts a list of dbSNP IDs or a VCF file and reports allele-specific binding (ASB) sites of particular transcription factors or in specific cell types, highlighting those with ASBs significantly enriched at SNPs in the query list. ANANASTRA is built on top of a systematic analysis of allelic imbalance in ChIP-Seq experiments and performs the ASB enrichment test against background sets of SNPs found in the same source experiments as ASB sites but not displaying significant allelic imbalance. We illustrate ANANASTRA usage with selected case studies and expect that ANANASTRA will help to conduct the follow-up of GWAS in terms of establishing functional hypotheses and designing experimental verification.<\/jats:p>","DOI":"10.1093\/nar\/gkac262","type":"journal-article","created":{"date-parts":[[2022,4,14]],"date-time":"2022-04-14T11:18:52Z","timestamp":1649935132000},"page":"W51-W56","source":"Crossref","is-referenced-by-count":31,"title":["ANANASTRA: annotation and enrichment analysis of allele-specific transcription factor binding at SNPs"],"prefix":"10.1093","volume":"50","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2712-8368","authenticated-orcid":false,"given":"Alexandr","family":"Boytsov","sequence":"first","affiliation":[{"name":"Vavilov Institute of General Genetics, Russian Academy of Sciences , Moscow, 119991, Russia"},{"name":"Moscow Institute of Physics and Technology , Dolgoprudny, 141701, Russia"},{"name":"Laboratory of Regulatory Genomics, Institute of Fundamental Medicine and Biology, Kazan Federal University , Kazan, 420008, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3334-5334","authenticated-orcid":false,"given":"Sergey","family":"Abramov","sequence":"additional","affiliation":[{"name":"Vavilov Institute of General Genetics, Russian Academy of Sciences , Moscow, 119991, Russia"},{"name":"Moscow Institute of Physics and Technology , Dolgoprudny, 141701, Russia"},{"name":"Laboratory of Regulatory Genomics, Institute of Fundamental Medicine and Biology, Kazan Federal University , Kazan, 420008, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ariuna Z","family":"Aiusheeva","sequence":"additional","affiliation":[{"name":"Institute of Protein Research, Russian Academy of Sciences , Pushchino, 142290, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alexandra\u00a0M","family":"Kasianova","sequence":"additional","affiliation":[{"name":"Institute of Protein Research, Russian Academy of Sciences , Pushchino, 142290, Russia"},{"name":"Southern Federal University , Rostov-on-Don, 344006, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4694-9783","authenticated-orcid":false,"given":"Eugene","family":"Baulin","sequence":"additional","affiliation":[{"name":"Moscow Institute of Physics and Technology , Dolgoprudny, 141701, Russia"},{"name":"Institute of Mathematical Problems of Biology RAS - the Branch of Keldysh Institute of Applied Mathematics of Russian Academy of Sciences , Pushchino, 142290, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4873-0729","authenticated-orcid":false,"given":"Ivan\u00a0A","family":"Kuznetsov","sequence":"additional","affiliation":[{"name":"Skolkovo Institute of Science and Technology , Moscow, 121205, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7899-1575","authenticated-orcid":false,"given":"Yurii\u00a0S","family":"Aulchenko","sequence":"additional","affiliation":[{"name":"Institute of Cytology and Genetics SB RAS , Novosibirsk, 630090, Russia"},{"name":"PolyKnomics BV, \u2019s-Hertogenbosch , 5237 PA, Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9259-0495","authenticated-orcid":false,"given":"Semyon","family":"Kolmykov","sequence":"additional","affiliation":[{"name":"Sirius University of Science and Technology , Sochi, 354340, Russia"},{"name":"Biosoft.Ru LLC, Novosibirsk , 630090, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7687-8002","authenticated-orcid":false,"given":"Ivan","family":"Yevshin","sequence":"additional","affiliation":[{"name":"Sirius University of Science and Technology , Sochi, 354340, Russia"},{"name":"Biosoft.Ru LLC, Novosibirsk , 630090, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0396-0256","authenticated-orcid":false,"given":"Fedor","family":"Kolpakov","sequence":"additional","affiliation":[{"name":"Sirius University of Science and Technology , Sochi, 354340, Russia"},{"name":"Federal Research Center for Information and Computational Technologies , Novosibirsk, 630090, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8888-0804","authenticated-orcid":false,"given":"Ilya\u00a0E","family":"Vorontsov","sequence":"additional","affiliation":[{"name":"Vavilov Institute of General Genetics, Russian Academy of Sciences , Moscow, 119991, Russia"},{"name":"Institute of Protein Research, Russian Academy of Sciences , Pushchino, 142290, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9405-9748","authenticated-orcid":false,"given":"Vsevolod\u00a0J","family":"Makeev","sequence":"additional","affiliation":[{"name":"Vavilov Institute of General Genetics, Russian Academy of Sciences , Moscow, 119991, Russia"},{"name":"Moscow Institute of Physics and Technology , Dolgoprudny, 141701, Russia"},{"name":"Laboratory of Regulatory Genomics, Institute of Fundamental Medicine and Biology, Kazan Federal University , Kazan, 420008, Russia"},{"name":"Engelhardt Institute of Molecular Biology, Russian Academy of Sciences , Moscow, 119991, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6554-8128","authenticated-orcid":false,"given":"Ivan\u00a0V","family":"Kulakovskiy","sequence":"additional","affiliation":[{"name":"Vavilov Institute of General Genetics, Russian Academy of Sciences , Moscow, 119991, Russia"},{"name":"Laboratory of Regulatory Genomics, Institute of Fundamental Medicine and Biology, Kazan Federal University , Kazan, 420008, Russia"},{"name":"Institute of Protein Research, Russian Academy of Sciences , Pushchino, 142290, Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2022,4,21]]},"reference":[{"key":"2022070423570948100_B1","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1016\/j.ajhg.2017.06.005","article-title":"10 Years of GWAS discovery: biology, function, and translation","volume":"101","author":"Visscher","year":"2017","journal-title":"Am. 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