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Herein, we probed human esophageal epithelial cells at single-cell resolution during homeostasis and EoE. During allergic inflammation, the epithelial differentiation program was blocked, leading to loss of\n                    <jats:italic>\n                      KRT6\n                      <jats:sup>hi<\/jats:sup>\n                    <\/jats:italic>\n                    differentiated populations and expansion of\n                    <jats:italic>\n                      TOP2\n                      <jats:sup>hi<\/jats:sup>\n                    <\/jats:italic>\n                    proliferating,\n                    <jats:italic>\n                      DSP\n                      <jats:sup>hi<\/jats:sup>\n                    <\/jats:italic>\n                    transitioning, and\n                    <jats:italic>\n                      SERPINB3\n                      <jats:sup>hi<\/jats:sup>\n                    <\/jats:italic>\n                    transitioning populations; however, there was stability of the stem cell\u2013enriched PDPN\n                    <jats:sup>hi<\/jats:sup>\n                    basal epithelial compartment. This differentiation program blockade was associated with dysregulation of transcription factors, including nuclear receptor signalers, in the most differentiated epithelial cells and altered NOTCH-related cell-to-cell communication. Each epithelial population expressed genes with allergic disease risk variants, supporting their functional interplay. The esophageal epithelium differed notably between EoE in histologic remission and controls, indicating that remission is a transitory state poised to relapse. Collectively, our data uncover the dynamic nature of the inflamed human esophageal epithelium and provide a framework to better understand esophageal health and disease.\n                  <\/jats:p>","DOI":"10.1172\/jci.insight.159093","type":"journal-article","created":{"date-parts":[[2022,4,26]],"date-time":"2022-04-26T12:01:54Z","timestamp":1650974514000},"source":"Crossref","is-referenced-by-count":86,"title":["Single-cell RNA-Seq of human esophageal epithelium in homeostasis and allergic inflammation"],"prefix":"10.1172","volume":"7","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0818-927X","authenticated-orcid":true,"given":"Mark","family":"Rochman","sequence":"first","affiliation":[{"name":"Division of Allergy and Immunology, Cincinnati Children\u2019s Hospital Medical Center (CCHMC), Cincinnati, Ohio, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ting","family":"Wen","sequence":"additional","affiliation":[{"name":"Division of Allergy and Immunology, Cincinnati Children\u2019s Hospital Medical Center (CCHMC), Cincinnati, Ohio, USA."},{"name":"Department of Pediatrics, CCHMC and the University of Cincinnati College of Medicine, Cincinnati, Ohio, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6486-3898","authenticated-orcid":true,"given":"Michael","family":"Kotliar","sequence":"additional","affiliation":[{"name":"Division of Allergy and Immunology, Cincinnati Children\u2019s Hospital Medical Center (CCHMC), Cincinnati, Ohio, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3965-6894","authenticated-orcid":true,"given":"Phillip J.","family":"Dexheimer","sequence":"additional","affiliation":[{"name":"Department of Pediatrics, CCHMC and the University of Cincinnati College of Medicine, Cincinnati, Ohio, USA."},{"name":"Division of Biomedical Informatics, CCHMC, Cincinnati, Ohio, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Netali","family":"Ben-Baruch Morgenstern","sequence":"additional","affiliation":[{"name":"Division of Allergy and Immunology, Cincinnati Children\u2019s Hospital Medical Center (CCHMC), Cincinnati, Ohio, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3855-299X","authenticated-orcid":true,"given":"Julie M.","family":"Caldwell","sequence":"additional","affiliation":[{"name":"Division of Allergy and Immunology, Cincinnati Children\u2019s Hospital Medical Center (CCHMC), Cincinnati, Ohio, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8599-1808","authenticated-orcid":true,"given":"Hee-Woong","family":"Lim","sequence":"additional","affiliation":[{"name":"Department of Pediatrics, CCHMC and the University of Cincinnati College of Medicine, Cincinnati, Ohio, USA."},{"name":"Division of Biomedical Informatics, CCHMC, Cincinnati, Ohio, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9790-6332","authenticated-orcid":true,"given":"Marc E.","family":"Rothenberg","sequence":"additional","affiliation":[{"name":"Division of Allergy and Immunology, Cincinnati Children\u2019s Hospital Medical Center (CCHMC), Cincinnati, Ohio, USA."},{"name":"Department of Pediatrics, CCHMC and the University of Cincinnati College of Medicine, Cincinnati, Ohio, USA."},{"name":"Division of Biomedical Informatics, CCHMC, Cincinnati, Ohio, USA."}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"232","published-online":{"date-parts":[[2022,6,8]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","DOI":"10.1016\/j.celrep.2021.108819"},{"issue":"1","key":"B2","doi-asserted-by":"crossref","DOI":"10.1186\/s13059-019-1906-x","article-title":"scRNA-Seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservation","volume":"21","author":"Madissoon","year":"2019","journal-title":"Genome Biol"},{"key":"B3","doi-asserted-by":"publisher","DOI":"10.1038\/s41368-019-0061-2"},{"key":"B4","doi-asserted-by":"publisher","DOI":"10.1126\/science.1260419"},{"key":"B5","doi-asserted-by":"publisher","DOI":"10.1172\/JCI26679"},{"key":"B6","doi-asserted-by":"publisher","DOI":"10.1038\/gene.2014.27"},{"key":"B7","doi-asserted-by":"publisher","DOI":"10.1016\/j.jaci.2018.05.008"},{"key":"B8","doi-asserted-by":"publisher","DOI":"10.1038\/mi.2017.4"},{"key":"B9","unstructured":"McInnes L, et al. 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