{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,9]],"date-time":"2026-10-09T20:15:13Z","timestamp":1791576913012,"version":"4.3.4"},"reference-count":32,"publisher":"Wiley","issue":"1","license":[{"start":{"date-parts":[[2019,1,28]],"date-time":"2019-01-28T00:00:00Z","timestamp":1548633600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R01HD072122"],"award-info":[{"award-number":["R01HD072122"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R01HD093783"],"award-info":[{"award-number":["R01HD093783"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["currentprotocols.onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["CP Molecular Biology"],"published-print":{"date-parts":[[2019,4]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Determining the genomic location of DNA\u2010binding proteins is essential to understanding their function. Cleavage Under Targets and Release Using Nuclease (CUT&amp;RUN) is a powerful method for mapping protein\u2010DNA interactions at high resolution. In CUT&amp;RUN, a recombinant protein A\u2013microccocal nuclease (pA\u2010MN) fusion is recruited by an antibody targeting the chromatin protein of interest; this can be done with either uncrosslinked or formaldehyde\u2010crosslinked cells. DNA fragments near sites of antibody binding are released from the insoluble bulk chromatin through endonucleolytic cleavage and used to build barcoded DNA\u2010sequencing libraries that can be sequenced in pools of at least 30. Therefore, CUT&amp;RUN provides an alternative to ChIP\u2010seq approaches for mapping chromatin proteins, which typically have relatively high signal\u2010to\u2010noise ratios, while using fewer cells and at a lower cost. Here, we describe the methods for performing CUT&amp;RUN, generating DNA\u2010sequencing libraries, and analyzing the resulting datasets. \u00a9 2019 by John Wiley &amp; Sons, Inc.<\/jats:p>","DOI":"10.1002\/cpmb.85","type":"journal-article","created":{"date-parts":[[2019,1,28]],"date-time":"2019-01-28T11:30:37Z","timestamp":1548675037000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":134,"title":["High\u2010Resolution Chromatin Profiling Using CUT&amp;RUN"],"prefix":"10.1002","volume":"126","author":[{"given":"Sarah J.","family":"Hainer","sequence":"first","affiliation":[{"name":"Department of Biological Sciences, University of Pittsburgh  Pittsburgh Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas G.","family":"Fazzio","sequence":"additional","affiliation":[{"name":"Department of Molecular, Cell, and Cancer Biology, University of Massachusetts Medical School  Worcester Massachusetts"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2019,1,28]]},"reference":[{"key":"e_1_2_8_2_1_1","doi-asserted-by":"publisher","DOI":"10.1007\/s10577-015-9509-1"},{"key":"e_1_2_8_2_2_1","doi-asserted-by":"publisher","DOI":"10.1038\/ncomms7033"},{"key":"e_1_2_8_2_3_1","doi-asserted-by":"publisher","DOI":"10.1002\/0471142727.mb2129s109"},{"key":"e_1_2_8_2_4_1","doi-asserted-by":"publisher","DOI":"10.1038\/nature19360"},{"key":"e_1_2_8_2_5_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.81.14.4275"},{"key":"e_1_2_8_2_6_1","doi-asserted-by":"publisher","DOI":"10.1128\/MCB.5.8.2009"},{"key":"e_1_2_8_2_7_1","first-page":"286351","article-title":"Profiling of pluripotency factors in individual stem cells and early embryos","author":"Hainer S. 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See above."},{"key":"e_1_2_8_4_2_1","unstructured":"Information on IgG affinities: Retrieved fromhttps:\/\/www.neb.com\/tools\u2010and\u2010resources\/selection\u2010charts\/affinity\u2010of\u2010protein\u2010ag\u2010for\u2010igg\u2010types\u2010from\u2010different\u2010species"},{"key":"e_1_2_8_4_3_1","unstructured":"Picard website: Retrieved fromhttp:\/\/broadinstitute.github.io\/picard\/"},{"key":"e_1_2_8_4_4_1","unstructured":"HOMER website: Retrieved fromhttp:\/\/homer.ucsd.edu\/homer\/"},{"key":"e_1_2_8_4_5_1","unstructured":"Samtools website: Retrieved fromhttp:\/\/samtools.sourceforge.net"},{"key":"e_1_2_8_4_6_1","unstructured":"Bowtie2 website: Retrieved fromhttp:\/\/bowtie\u2010bio.sourceforge.net\/bowtie2\/index.shtml"}],"container-title":["Current Protocols in Molecular Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.wiley.com\/onlinelibrary\/tdm\/v1\/articles\/10.1002%2Fcpmb.85","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/cpmb.85","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/full-xml\/10.1002\/cpmb.85","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/currentprotocols.onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/cpmb.85","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,9,11]],"date-time":"2023-09-11T12:24:22Z","timestamp":1694435062000},"score":1,"resource":{"primary":{"URL":"https:\/\/currentprotocols.onlinelibrary.wiley.com\/doi\/10.1002\/cpmb.85"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,1,28]]},"references-count":32,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2019,4]]}},"alternative-id":["10.1002\/cpmb.85"],"URL":"https:\/\/doi.org\/10.1002\/cpmb.85","archive":["Portico"],"relation":{},"ISSN":["1934-3639","1934-3647"],"issn-type":[{"value":"1934-3639","type":"print"},{"value":"1934-3647","type":"electronic"}],"subject":[],"published":{"date-parts":[[2019,1,28]]},"assertion":[{"value":"2019-01-28","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"e85"}}