Lamina Propria Phagocyte Profiling Reveals Targetable Signaling Pathways in Refractory Inflammatory Bowel Disease

[1]  A. Gutiérrez,et al.  Bacterial Translocation as Inflammatory Driver in Crohn’s Disease , 2021, Frontiers in Cell and Developmental Biology.

[2]  D. Rubin,et al.  Clinical and Translational Considerations for Understanding Depression and Anxiety in Patients with Inflammatory Bowel Disease , 2021, Gastroenterology research and practice.

[3]  M. Verdier,et al.  Neurotensin pathway in digestive cancers and clinical applications: an overview , 2020, Cell Death & Disease.

[4]  Matthew C L Phillips,et al.  Epithelial TLR4 signaling activates DUOX2 to induce microbiota-driven tumorigenesis. , 2020, Gastroenterology.

[5]  D. Rubin,et al.  Relationship Between Combined Histologic and Endoscopic Endpoints and Efficacy of Ustekinumab Treatment in Patients With Ulcerative Colitis. , 2020, Gastroenterology.

[6]  D. Tang,et al.  ACOD1 in immunometabolism and disease , 2020, Cellular & Molecular Immunology.

[7]  F. Vandenhende,et al.  Nangibotide in patients with septic shock: a Phase 2a randomized controlled clinical trial , 2020, Intensive Care Medicine.

[8]  G. Tseng,et al.  Single-Cell Analyses of Colon and Blood Reveal Distinct Immune Cell Signatures of Ulcerative Colitis and Crohn's Disease. , 2020, Gastroenterology.

[9]  Miaozun Zhang,et al.  INHBA is a prognostic predictor for patients with colon adenocarcinoma , 2020, BMC Cancer.

[10]  S. Vermeire,et al.  JAK–STAT pathway targeting for the treatment of inflammatory bowel disease , 2020, Nature Reviews Gastroenterology & Hepatology.

[11]  Mark S. Sundrud,et al.  The Xenobiotic Transporter Mdr1 Enforces T Cell Homeostasis in the Presence of Intestinal Bile Acids. , 2020, Immunity.

[12]  J. Leighton,et al.  Development of Gut-Selective Pan-Janus Kinase Inhibitor TD-1473 for Ulcerative Colitis: A Translational Medicine Programme , 2020, Journal of Crohn's & colitis.

[13]  Weiwei Xue,et al.  Molecular Simulation of Oncostatin M and Receptor (OSM–OSMR) Interaction as a Potential Therapeutic Target for Inflammatory Bowel Disease , 2020, Frontiers in Molecular Biosciences.

[14]  D. Foell,et al.  Tofacitinib Reprograms Human Monocytes of IBD Patients and Healthy Controls Toward a More Regulatory Phenotype. , 2020, Inflammatory bowel diseases.

[15]  Matthew C L Phillips,et al.  Microbial Signatures and Innate Immune Gene Expression in Lamina Propria Phagocytes of Inflammatory Bowel Disease Patients , 2019, Cellular and molecular gastroenterology and hepatology.

[16]  Xiaotong Zhao,et al.  High expression of FABP4 and FABP6 in patients with colorectal cancer , 2019, World Journal of Surgical Oncology.

[17]  G. Matteoli,et al.  Macrophages in intestinal inflammation and resolution: a potential therapeutic target in IBD , 2019, Nature Reviews Gastroenterology & Hepatology.

[18]  C. Amos,et al.  Transcriptomic differences between primary colorectal adenocarcinomas and distant metastases reveal metastatic colorectal cancer subtypes. , 2019, Cancer research.

[19]  M. Neurath.  Targeting immune cell circuits and trafficking in inflammatory bowel disease , 2019, Nature Immunology.

[20]  A. Heck,et al.  TREM-1 multimerization is essential for its activation on monocytes and neutrophils , 2019, Cellular & Molecular Immunology.

[21]  Alireza Hadj Khodabakhshi,et al.  Metascape provides a biologist-oriented resource for the analysis of systems-level datasets , 2019, Nature Communications.

[22]  Brian E. Cade,et al.  Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program , 2019, Nature.

[23]  O. Silvennoinen,et al.  Selective JAKinibs: Prospects in Inflammatory and Autoimmune Diseases , 2019, BioDrugs.

[24]  Ryan L. Collins,et al.  The mutational constraint spectrum quantified from variation in 141,456 humans , 2020, Nature.

[25]  S. Vermeire,et al.  Low TREM1 expression in whole blood predicts anti-TNF response in inflammatory bowel disease , 2019, EBioMedicine.

[26]  Judy H. Cho,et al.  Single-Cell Analysis of Crohn’s Disease Lesions Identifies a Pathogenic Cellular Module Associated with Resistance to Anti-TNF Therapy , 2019, Cell.

[27]  M. Mikuła,et al.  Redefining the Practical Utility of Blood Transcriptome Biomarkers in Inflammatory Bowel Diseases , 2018, Journal of Crohn's & colitis.

[28]  F. Pociot,et al.  The emerging role of lncRNAs in inflammatory bowel disease , 2018, Experimental & Molecular Medicine.

[29]  S. Shen-Orr,et al.  Cell-centred meta-analysis reveals baseline predictors of anti-TNFα non-response in biopsy and blood of patients with IBD , 2018, Gut.

[30]  A. Dembińska-kieć,et al.  Preview : Published ahead of advance online publication Pro-inflammatory gene expression profile in obese adults with high plasma GIP levels , 2017 .

[31]  P. Lepage,et al.  TREM-1 Inhibition Restores Impaired Autophagy Activity and Reduces Colitis in Mice , 2018, Journal of Crohn's & colitis.

[32]  Mark S. Sundrud,et al.  The Xenobiotic Transporter Mdr1 Enforces T Cell Homeostasis in the Presence of Intestinal Bile Acids , 2017, Immunity.

[33]  Hyojin Kim,et al.  TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions , 2017, Nucleic Acids Res..

[34]  I. Ordás,et al.  Usefulness of Transcriptional Blood Biomarkers as a Non-invasive Surrogate Marker of Mucosal Healing and Endoscopic Response in Ulcerative Colitis , 2017, Journal of Crohn's & colitis.

[35]  Hailiang Huang,et al.  Fine-mapping inflammatory bowel disease loci to single variant resolution , 2017, Nature.

[36]  C. Seoighe,et al.  Inflammation-associated DNA methylation patterns in epithelium of ulcerative colitis , 2017, Epigenetics.

[37]  A. Palacio,et al.  Inflammatory bowel disease is presenting sooner after immigration in more recent US immigrants from Cuba , 2017, Alimentary pharmacology & therapeutics.

[38]  S. Vermeire,et al.  Tofacitinib as Induction and Maintenance Therapy for Ulcerative Colitis , 2017, The New England journal of medicine.

[39]  G. Kaplan,et al.  Systematic review with meta‐analysis: comparative efficacy of biologics for induction and maintenance of mucosal healing in Crohn's disease and ulcerative colitis controlled trials , 2017, Alimentary pharmacology & therapeutics.

[40]  Yuka Kanno,et al.  Mechanisms and consequences of Jak–STAT signaling in the immune system , 2017, Nature Immunology.

[41]  A. Butte,et al.  xCell: digitally portraying the tissue cellular heterogeneity landscape , 2017, bioRxiv.

[42]  R. Owens,et al.  Oncostatin M drives intestinal inflammation in mice and its abundance predicts response to tumor necrosis factor-neutralizing therapy in patients with inflammatory bowel disease , 2017, Nature Medicine.

[43]  David C. Wilson,et al.  Genome-wide association study implicates immune activation of multiple integrin genes in inflammatory bowel disease , 2016, Nature Genetics.

[44]  O. Melander,et al.  An obligatory role for neurotensin in high fat diet-induced obesity , 2016, Nature.

[45]  B. Sands.  Biomarkers of Inflammation in Inflammatory Bowel Disease. , 2015, Gastroenterology.

[46]  D. Rubin,et al.  Therapeutic Drug Monitoring of Anti-tumor Necrosis Factor Agents in Patients with Inflammatory Bowel Diseases , 2015, Inflammatory bowel diseases.

[47]  W. Huber,et al.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.

[48]  Markus F. Neurath,et al.  Cytokines in inflammatory bowel disease , 2014, Nature Reviews Immunology.

[49]  S. Plevy,et al.  The Role of Macrophages and Dendritic Cells in the Initiation of Inflammation in IBD , 2014, Inflammatory bowel diseases.

[50]  Andreas Krämer,et al.  Causal analysis approaches in Ingenuity Pathway Analysis , 2013, Bioinform..

[51]  K. Mimori,et al.  Significance of INHBA expression in human colorectal cancer. , 2013, Oncology reports.

[52]  Mauricio O. Carneiro,et al.  From FastQ Data to High‐Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline , 2013, Current protocols in bioinformatics.

[53]  Wei Shi,et al.  featureCounts: an efficient general purpose program for assigning sequence reads to genomic features , 2013, Bioinform..

[54]  Sean R. Davis,et al.  NCBI GEO: archive for functional genomics data sets—update , 2012, Nucleic Acids Res..

[55]  I. Ordás,et al.  Transcriptional analysis of the intestinal mucosa of patients with ulcerative colitis in remission reveals lasting epithelial cell alterations , 2012, Gut.

[56]  R. Appelberg,et al.  Macrophages from IBD patients exhibit defective tumour necrosis factor-α secretion but otherwise normal or augmented pro-inflammatory responses to infection. , 2011, Immunobiology.

[57]  A. Scorilas,et al.  Expression analysis and clinical evaluation of kallikrein-related peptidase 10 (KLK10) in colorectal cancer , 2011, Tumor Biology.

[58]  John J. O’Shea,et al.  Modulation of Innate and Adaptive Immune Responses by Tofacitinib (CP-690,550) , 2011, The Journal of Immunology.

[59]  Jack Satsangi,et al.  Characterization of intestinal gene expression profiles in Crohn's disease by genome‐wide microarray analysis , 2010, Inflammatory bowel diseases.

[60]  A. Scheffold,et al.  Exaggerated inflammatory response of primary human myeloid dendritic cells to lipopolysaccharide in patients with inflammatory bowel disease , 2009, Clinical and experimental immunology.

[61]  R. Sundberg,et al.  Multigene analysis can discriminate between ulcerative colitis, Crohn's disease, and irritable bowel syndrome. , 2008, Gastroenterology.

[62]  Chen Dong,et al.  STAT3 Regulates Cytokine-mediated Generation of Inflammatory Helper T Cells* , 2007, Journal of Biological Chemistry.

[63]  B. Evers,et al.  Curcumin Inhibits Neurotensin-Mediated Interleukin-8 Production and Migration of HCT116 Human Colon Cancer Cells , 2006, Clinical Cancer Research.

[64]  D. Speiser,et al.  The Activatory Receptor 2B4 Is Expressed In Vivo by Human CD8+ Effector αβ T Cells1 , 2001, The Journal of Immunology.

[65]  Thomas R. Gingeras,et al.  STAR: ultrafast universal RNA-seq aligner , 2013, Bioinform..

[66]  D. Speiser,et al.  The activatory receptor 2B4 is expressed in vivo by human CD8+ effector alpha beta T cells. , 2001, Journal of immunology.