Ramnik J. Xavier Center for Computational and Integrative Biology Massachusetts General Hospital, Harvard Medical School Biography Publications Institution JoVE Articles Ramnik J. Xavier has not added a biography. If you are Ramnik J. Xavier and would like to personalize this page please email our Author Liaison for assistance. Publications Genome-wide SiRNA Screen for Mediators of NF-κB Activation Proceedings of the National Academy of Sciences of the United States of America. Feb, 2012 | Pubmed ID: 22308454 Tribbles 2 (Trib2) is a Novel Regulator of Toll-like Receptor 5 Signaling Inflammatory Bowel Diseases. Jan, 2012 | Pubmed ID: 22271508 CARMA1 is Necessary for Optimal T Cell Responses in a Murine Model of Allergic Asthma Journal of Immunology (Baltimore, Md. : 1950). Dec, 2011 | Pubmed ID: 22075698 Image-based Genome-wide SiRNA Screen Identifies Selective Autophagy Factors Nature. Dec, 2011 | Pubmed ID: 22020285 Genome-wide Expression Profiling Implicates a MAST3-regulated Gene Set in Colonic Mucosal Inflammation of Ulcerative Colitis Patients Inflammatory Bowel Diseases. Oct, 2011 | Pubmed ID: 21994190 Deep Resequencing of GWAS Loci Identifies Independent Rare Variants Associated with Inflammatory Bowel Disease Nature Genetics. Nov, 2011 | Pubmed ID: 21983784 HCV Causes Chronic Endoplasmic Reticulum Stress Leading to Adaptation and Interference with the Unfolded Protein Response PloS One. 2011 | Pubmed ID: 21949742 Genetics and Pathogenesis of Inflammatory Bowel Disease Nature. Jun, 2011 | Pubmed ID: 21677747 A Francisella Tularensis Locus Required for Spermine Responsiveness is Necessary for Virulence Infection and Immunity. Sep, 2011 | Pubmed ID: 21670171 MyD88-dependent TLR1/2 Signals Educate Dendritic Cells with Gut-specific Imprinting Properties Journal of Immunology (Baltimore, Md. : 1950). Jul, 2011 | Pubmed ID: 21646294 Leucine-rich Repeat (LRR) Proteins: Integrators of Pattern Recognition and Signaling in Immunity Autophagy. Sep, 2011 | Pubmed ID: 21606681 Recurrent Chromosomal Copy Number Alterations in Sporadic Chordomas PloS One. 2011 | Pubmed ID: 21602918 Bacterial and Host Determinants of MAL Activation Upon EPEC Infection: the Roles of Tir, ABRA, and FLRT3 PLoS Pathogens. Apr, 2011 | Pubmed ID: 21490959 Meta-analysis Identifies 29 Additional Ulcerative Colitis Risk Loci, Increasing the Number of Confirmed Associations to 47 Nature Genetics. Mar, 2011 | Pubmed ID: 21297633 Proteins Encoded in Genomic Regions Associated with Immune-mediated Disease Physically Interact and Suggest Underlying Biology PLoS Genetics. 2011 | Pubmed ID: 21249183 NLRP3 Inflammasome Plays a Key Role in the Regulation of Intestinal Homeostasis Inflammatory Bowel Diseases. Jun, 2011 | Pubmed ID: 20872834 Crohn Disease: a Current Perspective on Genetics, Autophagy and Immunity Autophagy. Apr, 2011 | Pubmed ID: 20729636 Human Leucine-rich Repeat Proteins: a Genome-wide Bioinformatic Categorization and Functional Analysis in Innate Immunity Proceedings of the National Academy of Sciences of the United States of America. Mar, 2011 | Pubmed ID: 20616063 Control and Manipulation of Pathogens with an Optical Trap for Live Cell Imaging of Intercellular Interactions PloS One. 2010 | Pubmed ID: 21217821 Failure and Exploitation of Autophagy in Human Pathologies-cellular Integrity Between Inflammation, Infection, and Cell Survival Seminars in Immunopathology. Dec, 2010 | Pubmed ID: 21107575 Ubiquitin Accumulation in Autophagy-deficient Mice is Dependent on the Nrf2-mediated Stress Response Pathway: a Potential Role for Protein Aggregation in Autophagic Substrate Selection The Journal of Cell Biology. Nov, 2010 | Pubmed ID: 21041446 LRRK2 is Involved in the IFN-gamma Response and Host Response to Pathogens Journal of Immunology (Baltimore, Md. : 1950). Nov, 2010 | Pubmed ID: 20921534 Human IRGM Gene "to Be or Not to Be" Seminars in Immunopathology. Dec, 2010 | Pubmed ID: 20737271 Genome-wide Analysis Reveals Mechanisms Modulating Autophagy in Normal Brain Aging and in Alzheimer's Disease Proceedings of the National Academy of Sciences of the United States of America. Aug, 2010 | Pubmed ID: 20660724 Wnt Signaling Regulates Mitochondrial Physiology and Insulin Sensitivity Genes & Development. Jul, 2010 | Pubmed ID: 20634317 A Genome-wide SiRNA Screen Reveals Multiple MTORC1 Independent Signaling Pathways Regulating Autophagy Under Normal Nutritional Conditions Developmental Cell. Jun, 2010 | Pubmed ID: 20627085 A Systems Biology Viewpoint on Autophagy in Health and Disease Current Opinion in Gastroenterology. Jul, 2010 | Pubmed ID: 20571384 Characterization and Analysis of Human Chordoma Cell Lines Spine. Jun, 2010 | Pubmed ID: 20461036 Gene Enrichment Profiles Reveal T-cell Development, Differentiation, and Lineage-specific Transcription Factors Including ZBTB25 As a Novel NF-AT Repressor Blood. Jul, 2010 | Pubmed ID: 20410506 Genome-wide Association Identifies Multiple Ulcerative Colitis Susceptibility Loci Nature Genetics. Apr, 2010 | Pubmed ID: 20228799 Crohn's Disease-associated Adherent-invasive E. Coli Are Selectively Favoured by Impaired Autophagy to Replicate Intracellularly Cellular Microbiology. Jan, 2010 | Pubmed ID: 19747213 Autophagy at the Gut Interface: Mucosal Responses to Stress and the Consequences for Inflammatory Bowel Diseases Inflammatory Bowel Diseases. Jan, 2010 | Pubmed ID: 19575363 The IFITM Proteins Mediate Cellular Resistance to Influenza A H1N1 Virus, West Nile Virus, and Dengue Virus Cell. Dec, 2009 | Pubmed ID: 20064371 Common Variants at Five New Loci Associated with Early-onset Inflammatory Bowel Disease Nature Genetics. Dec, 2009 | Pubmed ID: 19915574 Regulation of Inflammatory Responses by Gut Microbiota and Chemoattractant Receptor GPR43 Nature. Oct, 2009 | Pubmed ID: 19865172 Autophagy, Immunity and Human Disease Current Opinion in Gastroenterology. Nov, 2009 | Pubmed ID: 19826372 A Genome-wide Genetic Screen for Host Factors Required for Hepatitis C Virus Propagation Proceedings of the National Academy of Sciences of the United States of America. Sep, 2009 | Pubmed ID: 19717417 Identifying Relationships Among Genomic Disease Regions: Predicting Genes at Pathogenic SNP Associations and Rare Deletions PLoS Genetics. Jun, 2009 | Pubmed ID: 19557189 An Integrative Genomics Approach Identifies Hypoxia Inducible Factor-1 (HIF-1)-target Genes That Form the Core Response to Hypoxia Nucleic Acids Research. Aug, 2009 | Pubmed ID: 19491311 The Cytoskeletal Scaffold Shank3 is Recruited to Pathogen-induced Actin Rearrangements Experimental Cell Research. Jul, 2009 | Pubmed ID: 19371741 A Novel Hybrid Yeast-human Network Analysis Reveals an Essential Role for FNBP1L in Antibacterial Autophagy Journal of Immunology (Baltimore, Md. : 1950). Apr, 2009 | Pubmed ID: 19342671 A Functional Genomic Screen Identifies Cellular Cofactors of Hepatitis C Virus Replication Cell Host & Microbe. Mar, 2009 | Pubmed ID: 19286138 Differential Requirement for CARMA1 in Agonist-selected T-cell Development European Journal of Immunology. Jan, 2009 | Pubmed ID: 19130560 HIF-1alpha and HIF-2alpha Have Divergent Roles in Colon Cancer International Journal of Cancer. Journal International Du Cancer. Feb, 2009 | Pubmed ID: 19030186 On the Level: IRGM Gene Function is All About Expression Autophagy. Jan, 2009 | Pubmed ID: 19029815 CARMA3 Mediates Lysophosphatidic Acid-stimulated Cytokine Secretion by Bronchial Epithelial Cells American Journal of Respiratory Cell and Molecular Biology. Mar, 2009 | Pubmed ID: 18757306 Deletion Polymorphism Upstream of IRGM Associated with Altered IRGM Expression and Crohn's Disease Nature Genetics. Sep, 2008 | Pubmed ID: 19165925 Identification of a Molecular Signaling Network That Regulates a Cellular Necrotic Cell Death Pathway Cell. Dec, 2008 | Pubmed ID: 19109899 Role for Beta-catenin and HOX Transcription Factors in Caenorhabditis Elegans and Mammalian Host Epithelial-pathogen Interactions Proceedings of the National Academy of Sciences of the United States of America. Nov, 2008 | Pubmed ID: 18981407 Impaired Autophagy of an Intracellular Pathogen Induced by a Crohn's Disease Associated ATG16L1 Variant PloS One. 2008 | Pubmed ID: 18852889 A Key Role for Autophagy and the Autophagy Gene Atg16l1 in Mouse and Human Intestinal Paneth Cells Nature. Nov, 2008 | Pubmed ID: 18849966 RNA Interference Screen for Human Genes Associated with West Nile Virus Infection Nature. Sep, 2008 | Pubmed ID: 18690214 Hoxc6 is Overexpressed in Gastrointestinal Carcinoids and Interacts with JunD to Regulate Tumor Growth Gastroenterology. Sep, 2008 | Pubmed ID: 18655788 Genome-wide Association Studies: a New Window into Immune-mediated Diseases Nature Reviews. Immunology. Aug, 2008 | Pubmed ID: 18654571 Genome-wide Association Defines More Than 30 Distinct Susceptibility Loci for Crohn's Disease Nature Genetics. Aug, 2008 | Pubmed ID: 18587394 Neither Hide nor Hair: the Difficulty of Identifying Useful Disease Biomarkers Gastroenterology. Jun, 2008 | Pubmed ID: 18486617 SPTLC1 Binds ABCA1 to Negatively Regulate Trafficking and Cholesterol Efflux Activity of the Transporter Biochemistry. Jun, 2008 | Pubmed ID: 18484747 Defining Molecular Classifications and Targets in Gastroenteropancreatic Neuroendocrine Tumors Through DNA Microarray Analysis Endocrine-related Cancer. Mar, 2008 | Pubmed ID: 18310291 Autophagy As an Important Process in Gut Homeostasis and Crohn's Disease Pathogenesis Gut. Jun, 2008 | Pubmed ID: 18272545 Defective Signal Transduction in B Lymphocytes Lacking Presenilin Proteins Proceedings of the National Academy of Sciences of the United States of America. Jan, 2008 | Pubmed ID: 18195359 Identification of Host Proteins Required for HIV Infection Through a Functional Genomic Screen Science (New York, N.Y.). Feb, 2008 | Pubmed ID: 18187620 IL-22 Ameliorates Intestinal Inflammation in a Mouse Model of Ulcerative Colitis The Journal of Clinical Investigation. Feb, 2008 | Pubmed ID: 18172556 DLG1 is an Anchor for the E3 Ligase MARCH2 at Sites of Cell-cell Contact Cellular Signalling. Jan, 2008 | Pubmed ID: 17980554 AKAP13, a RhoA GTPase-specific Guanine Exchange Factor, is a Novel Regulator of TLR2 Signaling The Journal of Biological Chemistry. Nov, 2007 | Pubmed ID: 17878165 Molecular Pathogenesis of Inflammatory Bowel Disease: Genotypes, Phenotypes and Personalized Medicine Annals of Medicine. 2007 | Pubmed ID: 17457716 Genome-wide Association Study Identifies New Susceptibility Loci for Crohn Disease and Implicates Autophagy in Disease Pathogenesis Nature Genetics. May, 2007 | Pubmed ID: 17435756 Discs-large Homolog 1 Regulates Smooth Muscle Orientation in the Mouse Ureter Proceedings of the National Academy of Sciences of the United States of America. Dec, 2006 | Pubmed ID: 17172448 Ca2+/calmodulin-dependent Protein Kinase II is a Modulator of CARMA1-mediated NF-kappaB Activation Molecular and Cellular Biology. Jul, 2006 | Pubmed ID: 16809782 Bioluminescence Resonance Energy Transfer Identify Scaffold Protein CNK1 Interactions in Intact Cells FEBS Letters. Jan, 2005 | Pubmed ID: 15670823 The Scaffold Protein CNK1 Interacts with the Tumor Suppressor RASSF1A and Augments RASSF1A-induced Cell Death The Journal of Biological Chemistry. Jul, 2004 | Pubmed ID: 15075335 Colonic Epithelial Functional Phenotype Varies with Type and Phase of Experimental Colitis Gastroenterology. Jul, 2003 | Pubmed ID: 12851880 Transforming Growth Factor-beta Mediates Intestinal Healing and Susceptibility to Injury in Vitro and in Vivo Through Epithelial Cells The American Journal of Pathology. Feb, 2003 | Pubmed ID: 12547717 Decreased Bone Density in Splenectomized Gaucher Patients Receiving Enzyme Replacement Therapy Blood Cells, Molecules & Diseases. Mar-Apr, 2002 | Pubmed ID: 12064924 Role of Tumor Necrosis Factor Receptor 2 (TNFR2) in Colonic Epithelial Hyperplasia and Chronic Intestinal Inflammation in Mice Gastroenterology. Jan, 2002 | Pubmed ID: 11781288 Use of an Optical Trap for Study of Host-Pathogen Interactions for Dynamic Live Cell Imaging Jenny M. Tam1, Carlos E. Castro2, Robert J. W. Heath3, Michael K. Mansour1, Michael L. Cardenas1, Ramnik J. Xavier3, Matthew J. Lang4, Jatin M. Vyas1 1Department of Medicine, Division of Infectious Diseases, Massachusetts General Hospital, Harvard Medical School, 2Department of Mechanical and Aerospace Engineering, The Ohio State University, 3Center for Computational and Integrative Biology, Massachusetts General Hospital, Harvard Medical School, 4Dept. of Chemical and Biomolecular Engineering, Vanderbilt University JoVE 3123 Immunology and Infection
Use of an Optical Trap for Study of Host-Pathogen Interactions for Dynamic Live Cell Imaging Jenny M. Tam1, Carlos E. Castro2, Robert J. W. Heath3, Michael K. Mansour1, Michael L. Cardenas1, Ramnik J. Xavier3, Matthew J. Lang4, Jatin M. Vyas1 1Department of Medicine, Division of Infectious Diseases, Massachusetts General Hospital, Harvard Medical School, 2Department of Mechanical and Aerospace Engineering, The Ohio State University, 3Center for Computational and Integrative Biology, Massachusetts General Hospital, Harvard Medical School, 4Dept. of Chemical and Biomolecular Engineering, Vanderbilt University JoVE 3123 Immunology and Infection