Dietary suppression of MHC class II expression in intestinal epithelial cells enhances intestinal tumorigenesis.

[1]  S. Beyaz,et al.  High-fat diet activates a PPAR-δ program to enhance intestinal stem cell function. , 2021, Cell stem cell.

[2]  S. Itzkovitz,et al.  Diet Diurnally Regulates Small Intestinal Microbiome-Epithelial-Immune Homeostasis and Enteritis , 2020, Cell.

[3]  A. Shalek,et al.  Distribution and storage of inflammatory memory in barrier tissues , 2020, Nature Reviews Immunology.

[4]  N. Waddell,et al.  MHC Class II Antigen Presentation by the Intestinal Epithelium Initiates Graft-versus-Host Disease and Is Influenced by the Microbiota. , 2019, Immunity.

[5]  Kenny Q. Ye,et al.  The nutritional environment determines which and how intestinal stem cells contribute to homeostasis and tumorigenesis. , 2019, Carcinogenesis.

[6]  Onur Yukselen,et al.  DolphinNext: a distributed data processing platform for high throughput genomics , 2019, BMC Genomics.

[7]  H. Clevers,et al.  T Cell Recruitment to the Intestinal Stem Cell Compartment Drives Immune-Mediated Intestinal Damage after Allogeneic Transplantation. , 2019, Immunity.

[8]  R. Evans,et al.  FXR Regulates Intestinal Cancer Stem Cell Proliferation , 2019, Cell.

[9]  J. Luke,et al.  WNT/β-catenin Pathway Activation Correlates with Immune Exclusion across Human Cancers , 2019, Clinical Cancer Research.

[10]  Ramnik J. Xavier,et al.  T Helper Cell Cytokines Modulate Intestinal Stem Cell Renewal and Differentiation , 2018, Cell.

[11]  E. Fuchs,et al.  Two to Tango: Dialog between Immunity and Stem Cells in Health and Disease , 2018, Cell.

[12]  Stephanie A. Bien,et al.  Discovery of common and rare genetic risk variants for colorectal cancer , 2018, Nature Genetics.

[13]  G. Barton,et al.  A Map of Toll‐like Receptor Expression in the Intestinal Epithelium Reveals Distinct Spatial, Cell Type‐Specific, and Temporal Patterns , 2018, Immunity.

[14]  Onur Yukselen,et al.  DEBrowser: interactive differential expression analysis and visualization tool for count data , 2018, bioRxiv.

[15]  Benjamin J. Raphael,et al.  Abstract PR03: Genetic mechanisms of immune evasion in colorectal cancer , 2018, Systems Immuno-Oncology.

[16]  R. Sachidanandam,et al.  Quiescent Tissue Stem Cells Evade Immune Surveillance , 2018, Immunity.

[17]  D. Ford,et al.  Phospholipid Remodeling and Cholesterol Availability Regulate Intestinal Stemness and Tumorigenesis. , 2018, Cell stem cell.

[18]  J. Clohessy,et al.  An aberrant SREBP-dependent lipogenic program promotes metastatic prostate cancer , 2018, Nature Genetics.

[19]  Adam Akkad,et al.  Colonoscopy-based colorectal cancer modeling in mice with CRISPR–Cas9 genome editing and organoid transplantation , 2018, Nature Protocols.

[20]  David A. Drew,et al.  Association Between Inflammatory Diet Pattern and Risk of Colorectal Carcinoma Subtypes Classified by Immune Responses to Tumor. , 2017, Gastroenterology.

[21]  Nir Hacohen,et al.  Resistance to checkpoint blockade therapy through inactivation of antigen presentation , 2017, Nature Communications.

[22]  E. Fuchs,et al.  Inflammatory Memory Sensitizes Skin Epithelial Stem Cells to Tissue Damage , 2017, Nature.

[23]  H. Lee,et al.  Expression of the MHC class II in triple-negative breast cancer is associated with tumor-infiltrating lymphocytes and interferon signaling , 2017, PloS one.

[24]  S. Rosenberg,et al.  Treatment of Patients With Metastatic Cancer Using a Major Histocompatibility Complex Class II-Restricted T-Cell Receptor Targeting the Cancer Germline Antigen MAGE-A3. , 2017, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[25]  W. Willett,et al.  Dietary Fat Intake and Lung Cancer Risk: A Pooled Analysis. , 2017, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[26]  L. Zitvogel,et al.  Nutrition, inflammation and cancer , 2017, Nature Immunology.

[27]  G. Victora,et al.  Intestinal Epithelial and Intraepithelial T Cell Crosstalk Mediates a Dynamic Response to Infection , 2017, Cell.

[28]  Camille Stephan-Otto Attolini,et al.  Mex3a Marks a Slowly Dividing Subpopulation of Lgr5+ Intestinal Stem Cells. , 2017, Cell stem cell.

[29]  F. Nestle,et al.  Regulatory T Cells in Skin Facilitate Epithelial Stem Cell Differentiation , 2017, Cell.

[30]  Francisco J. Sánchez-Rivera,et al.  In vivo genome editing and organoid transplantation models of colorectal cancer , 2017, Nature Biotechnology.

[31]  Takashi Saito,et al.  CD4 CTL, a Cytotoxic Subset of CD4+ T Cells, Their Differentiation and Function , 2017, Front. Immunol..

[32]  Sean C. Bendall,et al.  Systemic Immunity Is Required for Effective Cancer Immunotherapy , 2017, Cell.

[33]  D. Vetrie,et al.  CML cells actively evade host immune surveillance through cytokine-mediated downregulation of MHC-II expression. , 2017, Blood.

[34]  Camille Stephan-Otto Attolini,et al.  Targeting metastasis-initiating cells through the fatty acid receptor CD36 , 2016, Nature.

[35]  S. Orkin,et al.  The histone demethylase UTX regulates the lineage-specific epigenetic program of invariant natural killer T cells , 2016, Nature Immunology.

[36]  Eran Segal,et al.  Persistent microbiome alterations modulate the rate of post-dieting weight regain , 2016, Nature.

[37]  S. Beyaz,et al.  Molecular Pathways: Dietary Regulation of Stemness and Tumor Initiation by the PPAR-δ Pathway , 2016, Clinical Cancer Research.

[38]  W. Wahli,et al.  High-fat diet modifies the PPAR-γ pathway leading to disruption of microbial and physiological ecosystem in murine small intestine , 2016, Proceedings of the National Academy of Sciences.

[39]  Evan Z. Macosko,et al.  Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics , 2016, Cell.

[40]  B. Bogen,et al.  Idiotype-specific CD4+ T cells eradicate disseminated myeloma , 2016, Leukemia.

[41]  Dudley Lamming,et al.  High fat diet enhances stemness and tumorigenicity of intestinal progenitors , 2016, Nature.

[42]  M. Karin,et al.  Obesity and Cancer: The Oil that Feeds the Flame. , 2016, Cell metabolism.

[43]  R. Jenq,et al.  Interleukin-22 Promotes Intestinal Stem Cell-Mediated Epithelial Regeneration , 2015, Nature.

[44]  P. Linsley,et al.  MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data , 2015, Genome Biology.

[45]  Derek LeRoith,et al.  Obesity and Diabetes: The Increased Risk of Cancer and Cancer-Related Mortality. , 2015, Physiological reviews.

[46]  J. Castle,et al.  Mutant MHC class II epitopes drive therapeutic immune responses to cancer , 2015, Nature.

[47]  J. Olefsky,et al.  High Fat Diet Causes Depletion of Intestinal Eosinophils Associated with Intestinal Permeability , 2015, PloS one.

[48]  L. Hooper,et al.  Antimicrobial defense of the intestine. , 2015, Immunity.

[49]  N. Warner,et al.  NOD1 and NOD2: signaling, host defense, and inflammatory disease. , 2014, Immunity.

[50]  B. Verrier,et al.  Cutting Edge: New Chimeric NOD2/TLR2 Adjuvant Drastically Increases Vaccine Immunogenicity , 2014, The Journal of Immunology.

[51]  S. Moossavi,et al.  Toll-like receptor expression in crypt epithelial cells, putative stem cells and intestinal myofibroblasts isolated from controls and patients with inflammatory bowel disease , 2014, Clinical and experimental immunology.

[52]  Shawn W. Polson,et al.  High-fat-diet-mediated dysbiosis promotes intestinal carcinogenesis independently of obesity , 2014, Nature.

[53]  S. Rosenberg,et al.  Cancer Immunotherapy Based on Mutation-Specific CD4+ T Cells in a Patient with Epithelial Cancer , 2014, Science.

[54]  Y. Belkaid,et al.  Role of the Microbiota in Immunity and Inflammation , 2014, Cell.

[55]  W. Reith,et al.  Interferon-γ Induces Expression of MHC Class II on Intestinal Epithelial Cells and Protects Mice from Colitis , 2014, PloS one.

[56]  T. Fehr,et al.  Allospecific Rejection of MHC Class I‐Deficient Bone Marrow by CD8 T Cells , 2014, American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons.

[57]  Åsa K. Björklund,et al.  Full-length RNA-seq from single cells using Smart-seq2 , 2014, Nature Protocols.

[58]  Lawrence A. David,et al.  Diet rapidly and reproducibly alters the human gut microbiome , 2013, Nature.

[59]  H. Waldmann,et al.  Secreted and Transmembrane 1A Is a Novel Co-Stimulatory Ligand , 2013, PloS one.

[60]  H. Clevers.  The Intestinal Crypt, A Prototype Stem Cell Compartment , 2013, Cell.

[61]  C. Sweeney,et al.  High- and low-fat dairy intake, recurrence, and mortality after breast cancer diagnosis. , 2013, Journal of the National Cancer Institute.

[62]  J. Wolchok,et al.  Induction of tumoricidal function in CD4+ T cells is associated with concomitant memory and terminally differentiated phenotype , 2012, The Journal of experimental medicine.

[63]  Charlotte E. Egan,et al.  Toll-like Receptor 4 Is Expressed on Intestinal Stem Cells and Regulates Their Proliferation and Apoptosis via the p53 Up-regulated Modulator of Apoptosis* , 2012, The Journal of Biological Chemistry.

[64]  Hans Clevers,et al.  Lineage Tracing Reveals Lgr5+ Stem Cell Activity in Mouse Intestinal Adenomas , 2012, Science.

[65]  A. Macpherson,et al.  Interactions Between the Microbiota and the Immune System , 2012, Science.

[66]  Dudley Lamming,et al.  mTORC1 in the Paneth cell niche couples intestinal stem cell function to calorie intake , 2012, Nature.

[67]  G. Dranoff,et al.  Combining immunotherapy and targeted therapies in cancer treatment , 2012, Nature Reviews Cancer.

[68]  Steven L Salzberg,et al.  Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.

[69]  Erin M. Coffee,et al.  The Dual PI3K/mTOR Inhibitor NVP-BEZ235 Induces Tumor Regression in a Genetically Engineered Mouse Model of PIK3CA Wild-Type Colorectal Cancer , 2011, PloS one.

[70]  P. J. van den Elsen.  Expression Regulation of Major Histocompatibility Complex Class I and Class II Encoding Genes , 2011, Frontiers in immunology.

[71]  Colin N. Dewey,et al.  RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome , 2011, BMC Bioinformatics.

[72]  K. Basen-Engquist,et al.  Obesity and Cancer Risk: Recent Review and Evidence , 2011, Current oncology reports.

[73]  B. Druker,et al.  CYT387, a novel JAK2 inhibitor, induces hematologic responses and normalizes inflammatory cytokines in murine myeloproliferative neoplasms. , 2010, Blood.

[74]  P. Muranski,et al.  Naive tumor-specific CD4+ T cells differentiated in vivo eradicate established melanoma , 2010, The Journal of experimental medicine.

[75]  W. Huber,et al.  which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets , 2011 .

[76]  Maria T. Abreu,et al.  Toll-like receptor signalling in the intestinal epithelium: how bacterial recognition shapes intestinal function , 2010, Nature Reviews Immunology.

[77]  S. Zhang,et al.  The role of CD4 T cell help for CD8 CTL activation. , 2009, Biochemical and biophysical research communications.

[78]  H. Clevers,et al.  Single Lgr5 stem cells build crypt–villus structures in vitro without a mesenchymal niche , 2009, Nature.

[79]  S. Mazmanian,et al.  The gut microbiota shapes intestinal immune responses during health and disease , 2009, Nature Reviews Immunology.

[80]  Lior Pachter,et al.  Sequence Analysis , 2020, Definitions.

[81]  Hans Clevers,et al.  Crypt stem cells as the cells-of-origin of intestinal cancer , 2009, Nature.

[82]  A. Gruber,et al.  CD4+Foxp3+ regulatory T cell expansion induced by antigen-driven interaction with intestinal epithelial cells independent of local dendritic cells , 2008, Gut.

[83]  G. Corner,et al.  Dietary induction of colonic tumors in a mouse model of sporadic colon cancer. , 2008, Cancer research.

[84]  H. Clevers,et al.  Identification of stem cells in small intestine and colon by marker gene Lgr5 , 2007, Nature.

[85]  S. Dahan,et al.  Epithelia: lymphocyte interactions in the gut , 2007, Immunological reviews.

[86]  F. Bäckhed,et al.  Obesity alters gut microbial ecology. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[87]  M. Giovannini,et al.  Colorectal cancers in a new mouse model of familial adenomatous polyposis: influence of genetic and environmental modifiers , 2004, Laboratory Investigation.

[88]  A. Cocchiarella,et al.  Intact Gram-Negative Helicobacter pylori, Helicobacter felis, and Helicobacter hepaticus Bacteria Activate Innate Immunity via Toll-Like Receptor 2 but Not Toll-Like Receptor 4 , 2004, Infection and Immunity.

[89]  Ruslan Medzhitov,et al.  Recognition of Commensal Microflora by Toll-Like Receptors Is Required for Intestinal Homeostasis , 2004, Cell.

[90]  L. Staudt,et al.  Loss of MHC class II gene and protein expression in diffuse large B-cell lymphoma is related to decreased tumor immunosurveillance and poor patient survival regardless of other prognostic factors: a follow-up study from the Leukemia and Lymphoma Molecular Profiling Project. , 2004, Blood.

[91]  A. Kettunen,et al.  Intestinal immune responses in wild-type and Apcmin/+ mouse, a model for colon cancer. , 2003, Cancer research.

[92]  Michael J Thun,et al.  Overweight, obesity, and mortality from cancer in a prospectively studied cohort of U.S. adults. , 2003, The New England journal of medicine.

[93]  R. Lothe,et al.  Strong HLA-DR expression in microsatellite stable carcinomas of the large bowel is associated with good prognosis , 2002, British Journal of Cancer.

[94]  Rong Wang,et al.  The role of MHC class II-restricted tumor antigens and CD4+ T cells in antitumor immunity. , 2001, Trends in immunology.

[95]  J. Allison,et al.  ICOS co-stimulatory receptor is essential for T-cell activation and function , 2001, Nature.

[96]  S. Carding,et al.  Uptake and presentation of antigen to T cells by primary colonic epithelial cells in normal and diseased states. , 2000, Gastroenterology.

[97]  C. Lowenstein,et al.  The Central Role of CD4+ T Cells in the Antitumor Immune Response , 1998, The Journal of experimental medicine.

[98]  R. Hershberg,et al.  Intestinal epithelial cells use two distinct pathways for HLA class II antigen processing. , 1997, The Journal of clinical investigation.

[99]  W. Fiers,et al.  Immune interferon activates multiple class II major histocompatibility complex genes and the associated invariant chain gene in human endothelial cells and dermal fibroblasts. , 1984, Proceedings of the National Academy of Sciences of the United States of America.

[100]  A. Quaroni,et al.  Intraepithelial lymphocytes modulate Ia expression by intestinal epithelial cells. , 1984, Journal of immunology.

[101]  D. Coleman.  Obese and diabetes: Two mutant genes causing diabetes-obesity syndromes in mice , 1978, Diabetologia.

[102]  K. Ozato,et al.  Regulation of major histocompatibility complex class I genes. , 1989, The Year in immunology.

[103]  G. Wong,et al.  Inducible expression of H–2 and Ia antigens on brain cells , 1984, Nature.