{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,16]],"date-time":"2026-10-16T03:42:41Z","timestamp":1792122161349,"version":"4.4.0"},"reference-count":65,"publisher":"Rockefeller University Press","issue":"5","license":[{"start":{"date-parts":[[2023,3,7]],"date-time":"2023-03-07T00:00:00Z","timestamp":1678147200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["HL148577"],"award-info":[{"award-number":["HL148577"]}],"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":["HL144651"],"award-info":[{"award-number":["HL144651"]}],"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":["DK117850"],"award-info":[{"award-number":["DK117850"]}],"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":["HL147883"],"award-info":[{"award-number":["HL147883"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["rupress.org"],"crossmark-restriction":true},"short-container-title":[],"published-print":{"date-parts":[[2023,5,1]]},"abstract":"<jats:p>The small intestine plays a key role in immunity and mediates inflammatory responses to high fat diets. We have used single-cell RNA-sequencing (scRNA-seq) and statistical modeling to examine gaps in our understanding of the dynamic properties of intestinal cells and underlying cellular mechanisms. Our scRNA-seq and flow cytometry studies of different layers of intestinal cells revealed new cell subsets and modeled developmental trajectories of intestinal intraepithelial lymphocytes, lamina propria lymphocytes, conventional dendritic cells, and enterocytes. As compared to chow-fed mice, a high-fat high-sucrose (HFHS) \u201cWestern\u201d diet resulted in the accumulation of specific immune cell populations and marked changes to enterocytes nutrient absorption function. Utilizing ligand\u2013receptor analysis, we profiled high-resolution intestine interaction networks across all immune cell and epithelial structural cell types in mice fed chow or HFHS diets. These results revealed novel interactions and communication hubs among intestinal cells, and their potential roles in local as well as systemic inflammation.<\/jats:p>","DOI":"10.1084\/jem.20221437","type":"journal-article","created":{"date-parts":[[2023,2,11]],"date-time":"2023-02-11T02:21:04Z","timestamp":1676082064000},"update-policy":"https:\/\/doi.org\/10.1084\/jem.crossmarkpolicy","source":"Crossref","is-referenced-by-count":32,"title":["Intestinal cell type-specific communication networks underlie homeostasis and response to Western diet"],"prefix":"10.1084","volume":"220","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0690-2422","authenticated-orcid":true,"given":"Yu-Chen","family":"Wang","sequence":"first","affiliation":[{"id":[{"id":"https:\/\/ror.org\/046rm7j60","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Medicine, Division of Cardiology, University of California, Los Angeles 1 , Los Angeles, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2086-6314","authenticated-orcid":true,"given":"Yang","family":"Cao","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/046rm7j60","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Medicine, Division of Cardiology, University of California, Los Angeles 1 , Los Angeles, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0752-833X","authenticated-orcid":true,"given":"Calvin","family":"Pan","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/046rm7j60","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Medicine, Division of Cardiology, University of California, Los Angeles 1 , Los Angeles, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8914-0864","authenticated-orcid":true,"given":"Zhiqiang","family":"Zhou","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/046rm7j60","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Medicine, Division of Cardiology, University of California, Los Angeles 1 , Los Angeles, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6568-0404","authenticated-orcid":true,"given":"Lili","family":"Yang","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Immunology and Molecular Genetics, University of California, Los Angeles 2 , Los Angeles, CA, USA"},{"name":"Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research, University of California, Los Angeles 3 , Los Angeles, CA, USA"},{"name":"Jonsson Comprehensive Cancer Center, the David Geffen School of Medicine, University of California, Los Angeles 4 , Los Angeles, CA, USA"},{"name":"Molecular Biology Institute, University of California, Los Angeles 5 , Los Angeles, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9013-0228","authenticated-orcid":true,"given":"Aldons J.","family":"Lusis","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/046rm7j60","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Medicine, Division of Cardiology, University of California, Los Angeles 1 , Los Angeles, CA, USA"},{"name":"Department of Microbiology, Immunology and Molecular Genetics, University of California, Los Angeles 2 , Los Angeles, CA, USA"},{"id":[{"id":"https:\/\/ror.org\/00mjfew53","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Human Genetics, David Geffen School of Medicine at UCLA 6 , Los Angeles, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"291","published-online":{"date-parts":[[2023,3,7]]},"reference":[{"key":"2023041816062295600_bib1","doi-asserted-by":"publisher","first-page":"3924","DOI":"10.1210\/en.2015-1301","article-title":"A transcriptome-led exploration of molecular mechanisms regulating somatostatin-producing D-cells in the gastric epithelium","volume":"156","author":"Adriaenssens","year":"2015","journal-title":"Endocrinology"},{"key":"2023041816062295600_bib2","doi-asserted-by":"publisher","first-page":"20","DOI":"10.3390\/ijms20122970","article-title":"Multifaceted role of the placental growth factor (PlGF) in the antitumor immune response and cancer progression","volume":"20","author":"Albonici","year":"2019","journal-title":"Int. J. Mol. Sci."},{"key":"2023041816062295600_bib3","doi-asserted-by":"publisher","first-page":"677","DOI":"10.1016\/j.it.2018.04.002","article-title":"The intestinal epithelium: Central coordinator of mucosal immunity","volume":"39","author":"Allaire","year":"2018","journal-title":"Trends Immunol."},{"key":"2023041816062295600_bib4","doi-asserted-by":"publisher","first-page":"758518","DOI":"10.3389\/fnut.2021.758518","article-title":"Long-term overconsumption of fat and sugar causes a partially reversible pre-inflammatory bowel disease state","volume":"8","author":"Arnone","year":"2021","journal-title":"Front. Nutr."},{"key":"2023041816062295600_bib5","doi-asserted-by":"publisher","first-page":"604989","DOI":"10.3389\/fimmu.2020.604989","article-title":"Regulation of intestinal inflammation by dietary fats","volume":"11","author":"Basson","year":"2021","journal-title":"Front. Immunol."},{"key":"2023041816062295600_bib6","doi-asserted-by":"publisher","first-page":"118","DOI":"10.1073\/pnas.2112814118","article-title":"Single-cell sequencing of rotavirus-infected intestinal epithelium reveals cell-type specific epithelial repair and tuft cell infection","volume":"118","author":"Bomidi","year":"2021","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2023041816062295600_bib7","doi-asserted-by":"publisher","first-page":"1022","DOI":"10.1016\/j.cell.2018.01.004","article-title":"NK cells stimulate recruitment of cDC1 into the tumor microenvironment promoting cancer immune control","volume":"172","author":"B\u00f6ttcher","year":"2018","journal-title":"Cell"},{"key":"2023041816062295600_bib8","doi-asserted-by":"publisher","first-page":"488","DOI":"10.3389\/fimmu.2014.00488","article-title":"Cellular plasticity of CD4+ T cells in the intestine","volume":"5","author":"Brucklacher-Waldert","year":"2014","journal-title":"Front. Immunol."},{"key":"2023041816062295600_bib9","doi-asserted-by":"publisher","first-page":"411","DOI":"10.1038\/nbt.4096","article-title":"Integrating single-cell transcriptomic data across different conditions, technologies, and species","volume":"36","author":"Butler","year":"2018","journal-title":"Nat. Biotechnol."},{"key":"2023041816062295600_bib10","doi-asserted-by":"publisher","first-page":"131","DOI":"10.1146\/annurev-immunol-061020-053707","article-title":"Dendritic cells revisited","volume":"39","author":"Cabeza-Cabrerizo","year":"2021","journal-title":"Annu. Rev. Immunol."},{"key":"2023041816062295600_bib11","doi-asserted-by":"publisher","first-page":"1653","DOI":"10.1136\/gutjnl-2012-303955","article-title":"Recent advances in inflammatory bowel disease: Mucosal immune cells in intestinal inflammation","volume":"62","author":"Cader","year":"2013","journal-title":"Gut"},{"key":"2023041816062295600_bib12","doi-asserted-by":"publisher","first-page":"246","DOI":"10.4103\/2319-4170.130922","article-title":"Mammalian gut immunity","volume":"37","author":"Chassaing","year":"2014","journal-title":"Biomed. J."},{"key":"2023041816062295600_bib13","doi-asserted-by":"publisher","first-page":"445","DOI":"10.1038\/nri3007","article-title":"The light and dark sides of intestinal intraepithelial lymphocytes","volume":"11","author":"Cheroutre","year":"2011","journal-title":"Nat. Rev. Immunol."},{"key":"2023041816062295600_bib14","doi-asserted-by":"publisher","first-page":"658097","DOI":"10.3389\/fimmu.2021.658097","article-title":"Dickkopf-1: A promising target for cancer immunotherapy","volume":"12","author":"Chu","year":"2021","journal-title":"Front. Immunol."},{"key":"2023041816062295600_bib15","doi-asserted-by":"publisher","first-page":"252","DOI":"10.1038\/nature12428","article-title":"Stability and function of regulatory T cells is maintained by a neuropilin-1-semaphorin-4a axis","volume":"501","author":"Delgoffe","year":"2013","journal-title":"Nature"},{"key":"2023041816062295600_bib16","doi-asserted-by":"publisher","first-page":"1067","DOI":"10.1002\/eji.201545828","article-title":"Suppression of innate inflammation and immunity by interleukin-37","volume":"46","author":"Dinarello","year":"2016","journal-title":"Eur. J. Immunol."},{"key":"2023041816062295600_bib17","doi-asserted-by":"publisher","first-page":"1484","DOI":"10.1038\/s41596-020-0292-x","article-title":"CellPhoneDB: Inferring cell-cell communication from combined expression of multi-subunit ligand-receptor complexes","volume":"15","author":"Efremova","year":"2020","journal-title":"Nat. Protoc."},{"key":"2023041816062295600_bib18","doi-asserted-by":"publisher","first-page":"250","DOI":"10.1038\/s41586-021-03852-1","article-title":"Cells of the human intestinal tract mapped across space and time","volume":"597","author":"Elmentaite","year":"2021","journal-title":"Nature"},{"key":"2023041816062295600_bib19","doi-asserted-by":"publisher","first-page":"771","DOI":"10.1016\/j.devcel.2020.11.010","article-title":"Single-cell sequencing of developing human gut reveals transcriptional links to childhood Crohn\u2019s disease","volume":"55","author":"Elmentaite","year":"2020","journal-title":"Dev. Cell"},{"key":"2023041816062295600_bib20","doi-asserted-by":"publisher","first-page":"545","DOI":"10.1038\/ni.3408","article-title":"Classical dendritic cells are required for dietary antigen-mediated induction of peripheral Treg cells and tolerance","volume":"17","author":"Esterh\u00e1zy","year":"2016","journal-title":"Nat. Immunol."},{"key":"2023041816062295600_bib21","doi-asserted-by":"publisher","first-page":"405","DOI":"10.1126\/science.aax0249","article-title":"Single-cell transcriptional diversity is a hallmark of developmental potential","volume":"367","author":"Gulati","year":"2020","journal-title":"Science"},{"key":"2023041816062295600_bib22","doi-asserted-by":"publisher","first-page":"333","DOI":"10.1038\/nature24489","article-title":"A single-cell survey of the small intestinal epithelium","volume":"551","author":"Haber","year":"2017","journal-title":"Nature"},{"key":"2023041816062295600_bib23","doi-asserted-by":"publisher","first-page":"8","DOI":"10.3390\/cells8111380","article-title":"Wnt signaling in the regulation of immune cell and cancer therapeutics","volume":"8","author":"Haseeb","year":"2019","journal-title":"Cells"},{"key":"2023041816062295600_bib24","doi-asserted-by":"publisher","first-page":"564","DOI":"10.3389\/fcell.2020.00564","article-title":"CD226: An emerging role in immunologic diseases","volume":"8","author":"Huang","year":"2020","journal-title":"Front. Cell Dev. Biol."},{"key":"2023041816062295600_bib25","doi-asserted-by":"publisher","first-page":"138","DOI":"10.3390\/biomedicines3010138","article-title":"HGF\/Met-signaling contributes to immune regulation by modulating tolerogenic and motogenic properties of dendritic cells","volume":"3","author":"H\u00fcbel","year":"2015","journal-title":"Biomedicines"},{"key":"2023041816062295600_bib26","doi-asserted-by":"publisher","first-page":"10978","DOI":"10.1093\/nar\/gkx754","article-title":"Accounting for technical noise in differential expression analysis of single-cell RNA sequencing data","volume":"45","author":"Jia","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"2023041816062295600_bib27","doi-asserted-by":"publisher","first-page":"1088","DOI":"10.1038\/s41467-021-21246-9","article-title":"Inference and analysis of cell-cell communication using CellChat","volume":"12","author":"Jin","year":"2021","journal-title":"Nat. Commun."},{"key":"2023041816062295600_bib28","doi-asserted-by":"publisher","first-page":"4584","DOI":"10.4049\/jimmunol.1601146","article-title":"CD8\u03b1\u03b2+ \u03b3\u03b4 T cells: A novel T cell subset with a potential role in inflammatory bowel disease","volume":"197","author":"Kadivar","year":"2016","journal-title":"J. Immunol."},{"key":"2023041816062295600_bib29","doi-asserted-by":"publisher","first-page":"713","DOI":"10.1038\/s41575-019-0189-8","article-title":"Global burden of colorectal cancer: Emerging trends, risk factors and prevention strategies","volume":"16","author":"Keum","year":"2019","journal-title":"Nat. Rev. Gastroenterol. Hepatol."},{"key":"2023041816062295600_bib30","doi-asserted-by":"publisher","first-page":"494","DOI":"10.1038\/s41586-018-0414-6","article-title":"RNA velocity of single cells","volume":"560","author":"La Manno","year":"2018","journal-title":"Nature"},{"key":"2023041816062295600_bib31","doi-asserted-by":"publisher","first-page":"19","DOI":"10.1002\/0471142735.im0319s17","article-title":"Isolation of mouse small intestinal intraepithelial lymphocytes, Peyer\u2019s patch, and lamina propria cells","volume":"3","author":"Lefrancois","year":"2001","journal-title":"Curr. Protoc. Immunol."},{"key":"2023041816062295600_bib32","doi-asserted-by":"publisher","first-page":"2497","DOI":"10.1073\/pnas.1424626112","article-title":"Extracellular forms of IL-37 inhibit innate inflammation in vitro and in vivo but require the IL-1 family decoy receptor IL-1R8","volume":"112","author":"Li","year":"2015","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2023041816062295600_bib33","doi-asserted-by":"publisher","first-page":"988","DOI":"10.1016\/j.chom.2021.04.004","article-title":"Western diet induces Paneth cell defects through microbiome alterations and farnesoid X receptor and type I interferon activation","volume":"29","author":"Liu","year":"2021","journal-title":"Cell Host Microbe"},{"key":"2023041816062295600_bib34","doi-asserted-by":"publisher","DOI":"10.15252\/msb.20188746","article-title":"Current best practices in single-cell RNA-seq analysis: A tutorial","volume":"15","author":"Luecken","year":"2019","journal-title":"Mol. Syst. Biol."},{"key":"2023041816062295600_bib35","doi-asserted-by":"publisher","first-page":"711633","DOI":"10.3389\/fimmu.2021.711633","article-title":"Post-transcriptional regulation of immune responses and inflammatory diseases by RNA-binding ZFP36 family proteins","volume":"12","author":"Makita","year":"2021","journal-title":"Front. Immunol."},{"key":"2023041816062295600_bib36","doi-asserted-by":"publisher","first-page":"514","DOI":"10.1038\/s41577-018-0013-7","article-title":"Diverse developmental pathways of intestinal intraepithelial lymphocytes","volume":"18","author":"McDonald","year":"2018","journal-title":"Nat. Rev. Immunol."},{"key":"2023041816062295600_bib37","doi-asserted-by":"publisher","first-page":"1156","DOI":"10.1016\/j.cell.2018.08.063","article-title":"Spatial reconstruction of single enterocytes uncovers broad zonation along the intestinal villus axis","volume":"175","author":"Moor","year":"2018","journal-title":"Cell"},{"key":"2023041816062295600_bib38","doi-asserted-by":"publisher","first-page":"667","DOI":"10.1038\/nri3738","article-title":"Regional specialization within the intestinal immune system","volume":"14","author":"Mowat","year":"2014","journal-title":"Nat. Rev. Immunol."},{"key":"2023041816062295600_bib39","doi-asserted-by":"publisher","first-page":"100153","DOI":"10.1016\/j.jlr.2021.100153","article-title":"Oxidized phospholipids cause changes in jejunum mucus that induce dysbiosis and systemic inflammation","volume":"63","author":"Mukherjee","year":"2022","journal-title":"J. Lipid Res."},{"key":"2023041816062295600_bib40","doi-asserted-by":"publisher","first-page":"10","DOI":"10.3390\/cells10113168","article-title":"Effect of a high-fat diet on the small-intestinal environment and mucosal integrity in the gut-liver axis","volume":"10","author":"Nakanishi","year":"2021","journal-title":"Cells"},{"key":"2023041816062295600_bib41","doi-asserted-by":"publisher","first-page":"e20","DOI":"10.1182\/blood-2016-05-716480","article-title":"A single-cell resolution map of mouse hematopoietic stem and progenitor cell differentiation","volume":"128","author":"Nestorowa","year":"2016","journal-title":"Blood"},{"key":"2023041816062295600_bib42","doi-asserted-by":"publisher","first-page":"264","DOI":"10.1016\/j.it.2017.11.003","article-title":"Intestinal intraepithelial lymphocytes: Sentinels of the mucosal barrier","volume":"39","author":"Olivares-Villag\u00f3mez","year":"2018","journal-title":"Trends Immunol."},{"key":"2023041816062295600_bib43","doi-asserted-by":"publisher","first-page":"141","DOI":"10.1038\/nri3608","article-title":"Intestinal epithelial cells: Regulators of barrier function and immune homeostasis","volume":"14","author":"Peterson","year":"2014","journal-title":"Nat. Rev. Immunol."},{"key":"2023041816062295600_bib44","doi-asserted-by":"publisher","first-page":"12100","DOI":"10.1096\/fj.202000864R","article-title":"CITED2 limits pathogenic inflammatory gene programs in myeloid cells","volume":"34","author":"Pong Ng","year":"2020","journal-title":"FASEB J."},{"key":"2023041816062295600_bib45","first-page":"57281","article-title":"Isolating lymphocytes from the mouse small intestinal immune system","author":"Qiu","year":"2018","journal-title":"J. Vis. Exp."},{"key":"2023041816062295600_bib46","doi-asserted-by":"publisher","first-page":"W191","DOI":"10.1093\/nar\/gkz369","article-title":"g:Profiler: A web server for functional enrichment analysis and conversions of gene lists (2019 update)","volume":"47","author":"Raudvere","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2023041816062295600_bib47","doi-asserted-by":"publisher","first-page":"1004","DOI":"10.1111\/cmi.12301","article-title":"Intestinal microbiota and its effects on the immune system","volume":"16","author":"Rescigno","year":"2014","journal-title":"Cell. Microbiol."},{"key":"2023041816062295600_bib48","doi-asserted-by":"publisher","first-page":"125","DOI":"10.1111\/imm.12597","article-title":"Innate immunity in vertebrates: An overview","volume":"148","author":"Riera Romo","year":"2016","journal-title":"Immunology"},{"key":"2023041816062295600_bib49","doi-asserted-by":"publisher","first-page":"341","DOI":"10.1038\/nri.2016.42","article-title":"Gut microbiota, metabolites and host immunity","volume":"16","author":"Rooks","year":"2016","journal-title":"Nat. Rev. Immunol."},{"key":"2023041816062295600_bib50","doi-asserted-by":"publisher","first-page":"771","DOI":"10.1038\/ni.3751","article-title":"CD8\u03b1\u03b1 intraepithelial lymphocytes arise from two main thymic precursors","volume":"18","author":"Ruscher","year":"2017","journal-title":"Nat. Immunol."},{"key":"2023041816062295600_bib51","doi-asserted-by":"publisher","first-page":"22","DOI":"10.1093\/bib\/bbaa269","article-title":"CellTalkDB: A manually curated database of ligand-receptor interactions in humans and mice","volume":"22","author":"Shao","year":"2021","journal-title":"Brief. Bioinform."},{"key":"2023041816062295600_bib52","doi-asserted-by":"publisher","first-page":"969","DOI":"10.1038\/mi.2015.49","article-title":"Regulatory immune cells in regulation of intestinal inflammatory response to microbiota","volume":"8","author":"Sun","year":"2015","journal-title":"Mucosal Immunol."},{"key":"2023041816062295600_bib53","doi-asserted-by":"publisher","first-page":"40","DOI":"10.1186\/s40104-022-00690-7","article-title":"Role of omega-3 polyunsaturated fatty acids, citrus pectin, and milk-derived exosomes on intestinal barrier integrity and immunity in animals","volume":"13","author":"Sundaram","year":"2022","journal-title":"J. Anim. Sci. Biotechnol."},{"key":"2023041816062295600_bib54","doi-asserted-by":"publisher","first-page":"4209","DOI":"10.4049\/jimmunol.156.11.4209","article-title":"TAP-independent selection of CD8+ intestinal intraepithelial lymphocytes","volume":"156","author":"Sydora","year":"1996","journal-title":"J. Immunol."},{"key":"2023041816062295600_bib55","doi-asserted-by":"publisher","first-page":"533","DOI":"10.1093\/intimm\/dxh059","article-title":"Functional characterization of DNAM-1 (CD226) interaction with its ligands PVR (CD155) and nectin-2 (PRR-2\/CD112)","volume":"16","author":"Tahara-Hanaoka","year":"2004","journal-title":"Int. Immunol."},{"key":"2023041816062295600_bib56","doi-asserted-by":"publisher","first-page":"12","DOI":"10.1186\/s13059-019-1850-9","article-title":"A benchmark of batch-effect correction methods for single-cell RNA sequencing data","volume":"21","author":"Tran","year":"2020","journal-title":"Genome Biol."},{"key":"2023041816062295600_bib57","doi-asserted-by":"publisher","first-page":"381","DOI":"10.1038\/nbt.2859","article-title":"The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells","volume":"32","author":"Trapnell","year":"2014","journal-title":"Nat. Biotechnol."},{"key":"2023041816062295600_bib58","doi-asserted-by":"publisher","first-page":"415","DOI":"10.1038\/nri2778","article-title":"Securing the immune tightrope: Mononuclear phagocytes in the intestinal lamina propria","volume":"10","author":"Varol","year":"2010","journal-title":"Nat. Rev. Immunol."},{"key":"2023041816062295600_bib59","doi-asserted-by":"publisher","first-page":"217","DOI":"10.1084\/jem.20191130","article-title":"Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine","volume":"217","author":"Wang","year":"2020","journal-title":"J. Exp. Med."},{"key":"2023041816062295600_bib60","doi-asserted-by":"publisher","first-page":"3530","DOI":"10.1038\/s41467-021-23164-2","article-title":"Targeting monoamine oxidase A-regulated tumor-associated macrophage polarization for cancer immunotherapy","volume":"12","author":"Wang","year":"2021","journal-title":"Nat. Commun."},{"key":"2023041816062295600_bib61","doi-asserted-by":"publisher","first-page":"2440","DOI":"10.1056\/NEJMsa1909301","article-title":"Projected U.S. state-level prevalence of adult obesity and severe obesity","volume":"381","author":"Ward","year":"2019","journal-title":"N. Engl. J. Med."},{"key":"2023041816062295600_bib62","doi-asserted-by":"publisher","first-page":"2011","DOI":"10.1084\/jem.20130728","article-title":"Intestinal lamina propria dendritic cells maintain T cell homeostasis but do not affect commensalism","volume":"210","author":"Welty","year":"2013","journal-title":"J. Exp. Med."},{"key":"2023041816062295600_bib63","doi-asserted-by":"publisher","first-page":"30","DOI":"10.1038\/nri.2016.116","article-title":"Dendritic cell migration in health and disease","volume":"17","author":"Worbs","year":"2017","journal-title":"Nat. Rev. Immunol."},{"key":"2023041816062295600_bib64","doi-asserted-by":"publisher","first-page":"14","DOI":"10.3390\/ph14030200","article-title":"TIGIT\/CD226 Axis regulates anti-tumor immunity","volume":"14","author":"Yeo","year":"2021","journal-title":"Pharmaceuticals"},{"key":"2023041816062295600_bib65","doi-asserted-by":"publisher","first-page":"577656","DOI":"10.3389\/fbioe.2020.577656","article-title":"Organoids to study intestinal nutrient transport, drug uptake and metabolism: Update to the human model and expansion of applications","volume":"8","author":"Zietek","year":"2020","journal-title":"Front. Bioeng. Biotechnol."}],"container-title":["Journal of Experimental Medicine"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/rupress.org\/jem\/article-pdf\/doi\/10.1084\/jem.20221437\/1448928\/jem_20221437.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/rupress.org\/jem\/article-pdf\/doi\/10.1084\/jem.20221437\/1448928\/jem_20221437.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,4,18]],"date-time":"2023-04-18T12:07:52Z","timestamp":1681819672000},"score":1,"resource":{"primary":{"URL":"https:\/\/rupress.org\/jem\/article\/220\/5\/e20221437\/213924\/Intestinal-cell-type-specific-communication"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,3,7]]},"references-count":65,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2023,5,1]]}},"URL":"https:\/\/doi.org\/10.1084\/jem.20221437","relation":{},"ISSN":["0022-1007","1540-9538"],"issn-type":[{"value":"0022-1007","type":"print"},{"value":"1540-9538","type":"electronic"}],"subject":[],"published":{"date-parts":[[2023,3,7]]},"article-number":"e20221437"}}