{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,3]],"date-time":"2026-03-03T07:28:43Z","timestamp":1772522923003,"version":"3.50.1"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2019,11,9]],"date-time":"2019-11-09T00:00:00Z","timestamp":1573257600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Royal Society and Chinese Academy of Sciences"},{"name":"Newton Advanced Fellowship","award":["164914"],"award-info":[{"award-number":["164914"]}]},{"DOI":"10.13039\/501100001809","name":"NSFC","doi-asserted-by":"publisher","award":["31571359"],"award-info":[{"award-number":["31571359"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"NSFC","doi-asserted-by":"publisher","award":["31771464"],"award-info":[{"award-number":["31771464"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key R&D Program of China","doi-asserted-by":"crossref","award":["2017YFC0907505"],"award-info":[{"award-number":["2017YFC0907505"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100012166","name":"National Key R&D Program of China","doi-asserted-by":"crossref","award":["2016YFC0901904"],"award-info":[{"award-number":["2016YFC0901904"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>It is well recognized that cell-type heterogeneity hampers the interpretation of Epigenome-Wide Association Studies (EWAS). Many tools have emerged to address this issue, including several R\/Bioconductor packages that infer cell-type composition. Here we present a web application for cell-type deconvolution, which offers the functionality of our EpiDISH Bioconductor\/R package in a user-friendly GUI environment. Users can upload their data to infer cell-type composition and differentially methylated cytosines in individual cell-types for a range of different tissues.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>EpiDISH web server is implemented with Shiny in R, and is freely available at https:\/\/www.biosino.org\/EpiDISH\/.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btz833","type":"journal-article","created":{"date-parts":[[2019,11,8]],"date-time":"2019-11-08T20:14:44Z","timestamp":1573244084000},"page":"1950-1951","source":"Crossref","is-referenced-by-count":79,"title":["EpiDISH web server: Epigenetic Dissection of Intra-Sample-Heterogeneity with online GUI"],"prefix":"10.1093","volume":"36","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2902-3164","authenticated-orcid":false,"given":"Shijie C","family":"Zheng","sequence":"first","affiliation":[{"name":"CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences , Shanghai 200031, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5294-915X","authenticated-orcid":false,"given":"Charles E","family":"Breeze","sequence":"additional","affiliation":[{"name":"Altius Institute for Biomedical Sciences , Seattle, WA 98121, USA"}]},{"given":"Stephan","family":"Beck","sequence":"additional","affiliation":[{"name":"UCL Cancer Institute, University College London , London WC1E 6BT, UK"}]},{"given":"Danyue","family":"Dong","sequence":"additional","affiliation":[{"name":"CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences , Shanghai 200031, China"}]},{"given":"Tianyu","family":"Zhu","sequence":"additional","affiliation":[{"name":"CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences , Shanghai 200031, China"}]},{"given":"Liangxiao","family":"Ma","sequence":"additional","affiliation":[{"name":"Bio-Med Big Data Center, CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences , Shanghai 200031, China"}]},{"given":"Wei","family":"Ye","sequence":"additional","affiliation":[{"name":"Bio-Med Big Data Center, CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences , Shanghai 200031, China"}]},{"given":"Guoqing","family":"Zhang","sequence":"additional","affiliation":[{"name":"Bio-Med Big Data Center, CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences , Shanghai 200031, China"}]},{"given":"Andrew E","family":"Teschendorff","sequence":"additional","affiliation":[{"name":"CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences , Shanghai 200031, China"},{"name":"UCL Cancer Institute, University College London , London WC1E 6BT, UK"}]}],"member":"286","published-online":{"date-parts":[[2019,11,9]]},"reference":[{"key":"2023060912003550300_btz833-B1","doi-asserted-by":"crossref","first-page":"86","DOI":"10.1186\/1471-2105-13-86","article-title":"DNA methylation arrays as surrogate measures of cell mixture distribution","volume":"13","author":"Houseman","year":"2012","journal-title":"BMC Bioinformatics"},{"key":"2023060912003550300_btz833-B2","first-page":"1431","article-title":"Reference-free cell mixture adjustments in analysis of DNA methylation data","author":"Houseman","year":"2014"},{"key":"2023060912003550300_btz833-B3","doi-asserted-by":"crossref","first-page":"R31","DOI":"10.1186\/gb-2014-15-2-r31","article-title":"Accounting for cellular heterogeneity is critical in epigenome-wide association studies","volume":"15","author":"Jaffe","year":"2014","journal-title":"Genome 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Biotechnol"},{"key":"2023060912003550300_btz833-B5","doi-asserted-by":"crossref","first-page":"453","DOI":"10.1038\/nmeth.3337","article-title":"Robust enumeration of cell subsets from tissue expression profiles","volume":"12","author":"Newman","year":"2015","journal-title":"Nat. Methods"},{"key":"2023060912003550300_btz833-B6"},{"key":"2023060912003550300_btz833-B7","doi-asserted-by":"crossref","first-page":"129","DOI":"10.1038\/nrg.2017.86","article-title":"Statistical and integrative system-level analysis of DNA methylation data","volume":"19","author":"Teschendorff","year":"2018","journal-title":"Nat. Rev. Genet"},{"key":"2023060912003550300_btz833-B8","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1186\/s12859-017-1511-5","article-title":"A comparison of reference-based algorithms for correcting cell-type heterogeneity in Epigenome-Wide Association Studies","volume":"18","author":"Teschendorff","year":"2017","journal-title":"BMC Bioinformatics"},{"key":"2023060912003550300_btz833-B9","doi-asserted-by":"crossref","first-page":"1059","DOI":"10.1038\/s41592-018-0213-x","article-title":"Identification of differentially methylated cell types in epigenome-wide association studies","volume":"15","author":"Zheng","year":"2018","journal-title":"Nat. Methods"},{"key":"2023060912003550300_btz833-B10","doi-asserted-by":"crossref","first-page":"925","DOI":"10.2217\/epi-2018-0037","article-title":"A novel cell-type deconvolution algorithm reveals substantial contamination by immune cells in saliva, buccal and cervix","volume":"10","author":"Zheng","year":"2018","journal-title":"Epigenomics"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btz833\/30551711\/btz833.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/36\/6\/1950\/50554308\/bioinformatics_36_6_1950.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/36\/6\/1950\/50554308\/bioinformatics_36_6_1950.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,6,9]],"date-time":"2023-06-09T12:05:05Z","timestamp":1686312305000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/36\/6\/1950\/5618716"}},"subtitle":[],"editor":[{"given":"Janet","family":"Kelso","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2019,11,9]]},"references-count":10,"journal-issue":{"issue":"6","published-print":{"date-parts":[[2020,3,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btz833","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2020,3,15]]},"published":{"date-parts":[[2019,11,9]]}}}