{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,17]],"date-time":"2026-08-17T15:29:56Z","timestamp":1786980596997,"version":"build-2736575974"},"reference-count":34,"publisher":"Elsevier BV","issue":"8","license":[{"start":{"date-parts":[[2026,8,1]],"date-time":"2026-08-01T00:00:00Z","timestamp":1785542400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2026,8,1]],"date-time":"2026-08-01T00:00:00Z","timestamp":1785542400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2026,5,15]],"date-time":"2026-05-15T00:00:00Z","timestamp":1778803200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"DOI":"10.13039\/100032233","name":"Versiti Blood Research Institute","doi-asserted-by":"publisher","award":["SCR_025503"],"award-info":[{"award-number":["SCR_025503"]}],"id":[{"id":"10.13039\/100032233","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000060","name":"National Institute of Allergy and Infectious Diseases","doi-asserted-by":"publisher","award":["AI 183571"],"award-info":[{"award-number":["AI 183571"]}],"id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000050","name":"National Heart Lung and Blood Institute","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000050","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["R01 DK134064"],"award-info":[{"award-number":["R01 DK134064"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100015982","name":"Midwest Athletes Against Childhood Cancer","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100015982","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100032234","name":"Versiti Blood Research Institute Foundation","doi-asserted-by":"publisher","award":["R01 DK134064"],"award-info":[{"award-number":["R01 DK134064"]}],"id":[{"id":"10.13039\/100032234","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100032234","name":"Versiti Blood Research Institute Foundation","doi-asserted-by":"publisher","award":["K01 DK132453"],"award-info":[{"award-number":["K01 DK132453"]}],"id":[{"id":"10.13039\/100032234","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008411","name":"Versiti Blood Research Institute Foundation Inc","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100008411","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100017342","name":"Medical College of Wisconsin Cancer Center","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100017342","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["cell.com","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Cell Reports Methods"],"published-print":{"date-parts":[[2026,8]]},"DOI":"10.1016\/j.crmeth.2026.101499","type":"journal-article","created":{"date-parts":[[2026,6,12]],"date-time":"2026-06-12T15:01:07Z","timestamp":1781276467000},"page":"101499","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":0,"title":["Systematic benchmarking of CUT&Tag improves the reliability and reproducibility of chromatin analysis"],"prefix":"10.1016","volume":"6","author":[{"given":"Josiah D.","family":"Murray","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Atrayee","family":"Ray","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Khanmi","family":"Kasomva","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Erica","family":"Steen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cary","family":"Stelloh","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kirthi","family":"Pulakanti","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Phillip A.","family":"Doerfler","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Navonil","family":"De Sarkar","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qiongzi","family":"Qiu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yong","family":"Liu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aron M.","family":"Geurts","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"suffix":"Jr.","given":"Allen W.","family":"Cowley","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alison E.","family":"Meyer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mingyu","family":"Liang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2688-9541","authenticated-orcid":false,"given":"Sridhar","family":"Rao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.crmeth.2026.101499_bib1","doi-asserted-by":"crossref","DOI":"10.7554\/eLife.63274","article-title":"Efficient chromatin accessibility mapping in situ by nucleosome-tethered tagmentation","volume":"9","author":"Henikoff","year":"2020","journal-title":"eLife"},{"key":"10.1016\/j.crmeth.2026.101499_bib2","doi-asserted-by":"crossref","first-page":"1930","DOI":"10.1038\/s41467-019-09982-5","article-title":"CUT&Tag for efficient epigenomic profiling of small samples and single cells","volume":"10","author":"Kaya-Okur","year":"2019","journal-title":"Nat. Commun."},{"key":"10.1016\/j.crmeth.2026.101499_bib3","doi-asserted-by":"crossref","first-page":"1586","DOI":"10.1038\/s41588-021-00941-9","article-title":"Automated CUT&Tag profiling of chromatin heterogeneity in mixed-lineage leukemia","volume":"53","author":"Janssens","year":"2021","journal-title":"Nat. Genet."},{"key":"10.1016\/j.crmeth.2026.101499_bib4","doi-asserted-by":"crossref","DOI":"10.1186\/gb-2008-9-9-r137","article-title":"Model-based analysis of ChIP-Seq (MACS)","volume":"9","author":"Zhang","year":"2008","journal-title":"Genome Biol."},{"key":"10.1016\/j.crmeth.2026.101499_bib5","doi-asserted-by":"crossref","first-page":"42","DOI":"10.1186\/s13072-019-0287-4","article-title":"Peak calling by Sparse Enrichment Analysis for CUT&RUN chromatin profiling","volume":"12","author":"Meers","year":"2019","journal-title":"Epigenetics Chromatin"},{"key":"10.1016\/j.crmeth.2026.101499_bib6","doi-asserted-by":"crossref","first-page":"144","DOI":"10.1186\/s13059-022-02707-w","article-title":"GoPeaks: histone modification peak calling for CUT&Tag","volume":"23","author":"Yashar","year":"2022","journal-title":"Genome Biol."},{"key":"10.1016\/j.crmeth.2026.101499_bib7","doi-asserted-by":"crossref","first-page":"3797","DOI":"10.1007\/s00018-020-03508-9","article-title":"HOX gene cluster (de)regulation in brain: from neurodevelopment to malignant glial tumours","volume":"77","author":"Gon\u00e7alves","year":"2020","journal-title":"Cell. Mol. Life Sci."},{"key":"10.1016\/j.crmeth.2026.101499_bib8","doi-asserted-by":"crossref","first-page":"1123","DOI":"10.1101\/gad.381706","article-title":"Genome-wide mapping of Polycomb target genes unravels their roles in cell fate transitions","volume":"20","author":"Bracken","year":"2006","journal-title":"Genes Dev."},{"key":"10.1016\/j.crmeth.2026.101499_bib9","doi-asserted-by":"crossref","first-page":"443","DOI":"10.1097\/CMR.0000000000000675","article-title":"Silencing of CEBPB-AS1 modulates CEBPB expression and resensitizes BRAF-inhibitor resistant melanoma cells to vemurafenib","volume":"30","author":"Vidarsdottir","year":"2020","journal-title":"Melanoma Res."},{"key":"10.1016\/j.crmeth.2026.101499_bib10","doi-asserted-by":"crossref","first-page":"1952","DOI":"10.1093\/bioinformatics\/btp340","article-title":"A clustering approach for identification of enriched domains from histone modification ChIP-Seq data","volume":"25","author":"Zang","year":"2009","journal-title":"Bioinformatics"},{"key":"10.1016\/j.crmeth.2026.101499_bib11","doi-asserted-by":"crossref","first-page":"320","DOI":"10.1016\/j.cell.2013.03.036","article-title":"Selective inhibition of tumor oncogenes by disruption of super-enhancers","volume":"153","author":"Lov\u00e9n","year":"2013","journal-title":"Cell"},{"key":"10.1016\/j.crmeth.2026.101499_bib12","doi-asserted-by":"crossref","first-page":"2993","DOI":"10.1038\/s41467-025-58137-2","article-title":"CUT&Tag recovers up to half of ENCODE ChIP-seq histone acetylation peaks","volume":"16","author":"Abbasova","year":"2025","journal-title":"Nat. Commun."},{"key":"10.1016\/j.crmeth.2026.101499_bib13","doi-asserted-by":"crossref","first-page":"699","DOI":"10.1038\/s41586-020-2493-4","article-title":"Expanded encyclopaedias of DNA elements in the human and mouse genomes","volume":"583","author":"Moore","year":"2020","journal-title":"Nature"},{"key":"10.1016\/j.crmeth.2026.101499_bib14","doi-asserted-by":"crossref","first-page":"675","DOI":"10.1038\/s42003-020-01403-4","article-title":"ATAC-seq with unique molecular identifiers improves quantification and footprinting","volume":"3","author":"Zhu","year":"2020","journal-title":"Commun. Biol."},{"key":"10.1016\/j.crmeth.2026.101499_bib15","doi-asserted-by":"crossref","DOI":"10.1016\/j.celrep.2020.03.067","article-title":"A WIZ\/Cohesin\/CTCF Complex Anchors DNA Loops to Define Gene Expression and Cell Identity","volume":"31","author":"Justice","year":"2020","journal-title":"Cell Rep."},{"key":"10.1016\/j.crmeth.2026.101499_bib16","doi-asserted-by":"crossref","first-page":"305","DOI":"10.1016\/j.cell.2017.09.026","article-title":"Cohesin Loss Eliminates All Loop Domains","volume":"171","author":"Rao","year":"2017","journal-title":"Cell"},{"key":"10.1016\/j.crmeth.2026.101499_bib17","doi-asserted-by":"crossref","first-page":"403","DOI":"10.1038\/s41588-021-00790-6","article-title":"ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis","volume":"53","author":"Granja","year":"2021","journal-title":"Nat. Genet."},{"key":"10.1016\/j.crmeth.2026.101499_bib18","doi-asserted-by":"crossref","first-page":"2820","DOI":"10.1093\/nar\/gkl179","article-title":"Defining characteristics of Tn5 Transposase non-specific DNA binding","volume":"34","author":"Steiniger","year":"2006","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.crmeth.2026.101499_bib19","doi-asserted-by":"crossref","first-page":"799","DOI":"10.1038\/s44320-024-00038-5","article-title":"A continuum of zinc finger transcription factor retention on native chromatin underlies dynamic genome organization","volume":"20","author":"Hu","year":"2024","journal-title":"Mol. Syst. Biol."},{"key":"10.1016\/j.crmeth.2026.101499_bib20","article-title":"Protocol for chromatin immunoprecipitation of chromatin-binding proteins in Schizosaccharomyces pombe using a dual-crosslinking approach","volume":"6","author":"Khanduja","year":"2025","journal-title":"STAR Protoc."},{"key":"10.1016\/j.crmeth.2026.101499_bib21","doi-asserted-by":"crossref","first-page":"1167","DOI":"10.1074\/mcp.T400016-MCP200","article-title":"Isotopically coded cleavable cross-linker for studying protein-protein interaction and protein complexes","volume":"4","author":"Petrotchenko","year":"2005","journal-title":"Mol. Cell. Proteomics"},{"key":"10.1016\/j.crmeth.2026.101499_bib22","doi-asserted-by":"crossref","first-page":"30","DOI":"10.1186\/s13072-019-0277-6","article-title":"XL-DNase-seq: improved footprinting of dynamic transcription factors","volume":"12","author":"Oh","year":"2019","journal-title":"Epigenetics Chromatin"},{"key":"10.1016\/j.crmeth.2026.101499_bib23","doi-asserted-by":"crossref","DOI":"10.1074\/jbc.RA120.015152","article-title":"Genome editing demonstrates that the -5 kb Nanog enhancer regulates Nanog expression by modulating RNAPII initiation and\/or recruitment","volume":"296","author":"Agrawal","year":"2021","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.crmeth.2026.101499_bib24","doi-asserted-by":"crossref","first-page":"3","DOI":"10.14806\/ej.17.1.200","article-title":"Cutadapt removes adapter sequences from high-throughput sequencing reads","volume":"17","author":"Martin","year":"2011","journal-title":"EMBnet. J."},{"key":"10.1016\/j.crmeth.2026.101499_bib25","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.1923","article-title":"Fast gapped-read alignment with Bowtie 2","volume":"9","author":"Langmead","year":"2012","journal-title":"Nat. Methods"},{"key":"10.1016\/j.crmeth.2026.101499_bib26","doi-asserted-by":"crossref","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The Sequence Alignment\/Map format and SAMtools","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"10.1016\/j.crmeth.2026.101499_bib27","doi-asserted-by":"crossref","first-page":"841","DOI":"10.1093\/bioinformatics\/btq033","article-title":"BEDTools: a flexible suite of utilities for comparing genomic features","volume":"26","author":"Quinlan","year":"2010","journal-title":"Bioinformatics"},{"key":"10.1016\/j.crmeth.2026.101499_bib28","doi-asserted-by":"crossref","first-page":"W187","DOI":"10.1093\/nar\/gku365","article-title":"deepTools: a flexible platform for exploring deep-sequencing data","volume":"42","author":"Ram\u00edrez","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.crmeth.2026.101499_bib30","doi-asserted-by":"crossref","first-page":"237","DOI":"10.1186\/1471-2105-11-237","article-title":"ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data","volume":"11","author":"Zhu","year":"2010","journal-title":"BMC Bioinf."},{"key":"10.1016\/j.crmeth.2026.101499_bib31","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pcbi.1003118","article-title":"Software for computing and annotating genomic ranges","volume":"9","author":"Lawrence","year":"2013","journal-title":"PLoS Comput. Biol."},{"key":"10.1016\/j.crmeth.2026.101499_bib32","author":"Wickham"},{"key":"10.1016\/j.crmeth.2026.101499_bib33","doi-asserted-by":"crossref","first-page":"2382","DOI":"10.1093\/bioinformatics\/btv145","article-title":"ChIPseeker: an R\/Bioconductor package for ChIP peak annotation, comparison and visualization","volume":"31","author":"Yu","year":"2015","journal-title":"Bioinformatics"},{"key":"10.1016\/j.crmeth.2026.101499_bib34","doi-asserted-by":"crossref","first-page":"486","DOI":"10.1038\/nature14590","article-title":"Single-cell chromatin accessibility reveals principles of regulatory variation","volume":"523","author":"Buenrostro","year":"2015","journal-title":"Nature"},{"key":"10.1016\/j.crmeth.2026.101499_bib35","doi-asserted-by":"crossref","first-page":"141","DOI":"10.1007\/978-1-0716-2433-3_16","article-title":"CUT&Tag Using \u201cStress-Free\u201d Con A-Conjugated Dynabeads((R))","volume":"2519","author":"Fujiwara","year":"2023","journal-title":"Methods Mol. Biol."}],"container-title":["Cell Reports Methods"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2667237526002006?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2667237526002006?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,8,17]],"date-time":"2026-08-17T15:15:45Z","timestamp":1786979745000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S2667237526002006"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,8]]},"references-count":34,"journal-issue":{"issue":"8","published-print":{"date-parts":[[2026,8]]}},"alternative-id":["S2667237526002006"],"URL":"https:\/\/doi.org\/10.1016\/j.crmeth.2026.101499","relation":{},"ISSN":["2667-2375"],"issn-type":[{"value":"2667-2375","type":"print"}],"subject":[],"published":{"date-parts":[[2026,8]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Systematic benchmarking of CUT&Tag improves the reliability and reproducibility of chromatin analysis","name":"articletitle","label":"Article Title"},{"value":"Cell Reports Methods","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.crmeth.2026.101499","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2026 The Author(s). Published by Elsevier Inc.","name":"copyright","label":"Copyright"}],"article-number":"101499"}}