Bioinformatics analysis reveals transcriptome and microRNA signatures and drug repositioning targets for IBD and other autoimmune diseases

Association of paediatric inflammatory bowel disease with other immune-mediated diseases

(2011) M. D. Kappelman et al.   ARCHIVES OF DISEASE IN CHILDHOOD

Identification of CXCL13 as a marker for rheumatoid arthritis outcome using an in silico model of the rheumatic joint

(2011) Cees M. Meeuwisse et al.   ARTHRITIS AND RHEUMATISM

Modulation of matrix metalloproteinase production by rheumatoid arthritis synovial fibroblasts after cadherin 11 engagement

(2011) Erika H. Noss et al.   ARTHRITIS AND RHEUMATISM

CXCL13 mediates prostate cancer cell proliferation through JNK signalling and invasion through ERK activation

(2011) C. P. El-Haibi et al.   CELL PROLIFERATION

The expanded human disease network combining protein–protein interaction information

(2011) Xuehong Zhang et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

Potential of CXCR4 antagonists for the treatment of metastatic lung cancer

(2011) Jan A Burger et al.   Expert Review of Anticancer Therapy

Molecular basis of hereditary C1q deficiency—revisited: identification of several novel disease-causing mutations

(2011) L Schejbel et al.   GENES AND IMMUNITY

Polymorphisms of matrix metalloproteinases in myocardial infarction: a meta-analysis

(2011) J. Wang et al.   HEART

miR-143 and miR-145 are downregulated in ulcerative colitis: Putative regulators of inflammation and protooncogenes

(2011) Joel R. Pekow et al.   INFLAMMATORY BOWEL DISEASES

miRWalk – Database: Prediction of possible miRNA binding sites by “walking” the genes of three genomes

(2011) Harsh Dweep et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Proteomic analysis of pancreatic juice for the identification of biomarkers of pancreatic cancer

(2011) Jeong Youp Park et al.   JOURNAL OF CANCER RESEARCH AND CLINICAL ONCOLOGY

Elevated production of serum B-cell-attracting chemokine-1 (BCA-1/CXCL13) is correlated with childhood-onset lupus disease activity, severity, and renal involvement

(2011) MHM Ezzat et al.   LUPUS

Crosstalk between B lymphocytes, microbiota and the intestinal epithelium governs immunity versus metabolism in the gut

(2011) Natalia Shulzhenko et al.   NATURE MEDICINE

ChEMBL: a large-scale bioactivity database for drug discovery

(2011) A. Gaulton et al.   NUCLEIC ACIDS RESEARCH

Regenerating gene Iα is a biomarker for diagnosis and monitoring of celiac disease: a preliminary study

(2011) Raquel Planas et al.   Translational Research

Intestinal microbiota in inflammatory bowel disease: Friend of foe?

(2011) Francesca Fava   WORLD JOURNAL OF GASTROENTEROLOGY

MicroRNAs in Human Diseases: From Autoimmune Diseases to Skin, Psychiatric and Neurodegenerative Diseases

(2011) Tai-You Ha   Immune Network

Regenerating gene I regulates interleukin-6 production in squamous esophageal cancer cells

(2010) Shuetsu Usami et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Systematic analysis, comparison, and integration of disease based human genetic association data and mouse genetic phenotypic information

(2010) Yonqing Zhang et al.   BMC Medical Genomics

A quantitative approach to study indirect effects among disease proteins in the human protein interaction network

(2010) Thanh-Phuong Nguyen et al.   BMC Systems Biology

From phenotype to gene: Detecting disease-specific gene functional modules via a text-based human disease phenotype network construction

(2010) Shi-Hua Zhang et al.   FEBS LETTERS

Genetics and Environmental Interactions Shape the Intestinal Microbiome to Promote Inflammatory Bowel Disease Versus Mucosal Homeostasis

(2010) R. Balfour Sartor   GASTROENTEROLOGY

The Role of Bacteria in the Pathogenesis of Inflammatory Bowel Disease

(2010) Melissa Friswell et al.   Gut and Liver

Circulating Reg1α Proteins and Autoantibodies to Reg1α Proteins as Biomarkers of β-Cell Regeneration and Damage in Type 1 Diabetes

(2010) E. Astorri et al.   HORMONE AND METABOLIC RESEARCH

Influences of Intestinal Bacteria in Human Inflammatory Bowel Disease

(2010) Rachel Vanderploeg et al.   INFECTIOUS DISEASE CLINICS OF NORTH AMERICA

Characterization of intestinal gene expression profiles in Crohnʼs disease by genome-wide microarray analysis

(2010) Colin L. Noble et al.   INFLAMMATORY BOWEL DISEASES

Identification of microRNAs associated with ileal and colonic Crohnʼs disease†

(2010) Feng Wu et al.   INFLAMMATORY BOWEL DISEASES

Disease phenotype and genotype are associated with shifts in intestinal-associated microbiota in inflammatory bowel diseases

(2010) Daniel N. Frank et al.   INFLAMMATORY BOWEL DISEASES

Large-scale integration of microarray data reveals genes and pathways common to multiple cancer types

(2010) Noor B. Dawany et al.   INTERNATIONAL JOURNAL OF CANCER

Increased expression of microRNA in the inflamed colonic mucosa of patients with active ulcerative colitis

(2010) Tomohisa Takagi et al.   JOURNAL OF GASTROENTEROLOGY AND HEPATOLOGY

Identification of Restricted Subsets of Mature microRNA Abnormally Expressed in Inactive Colonic Mucosa of Patients with Inflammatory Bowel Disease

(2010) Magali Fasseu et al.   PLoS One

A defunctioning polymorphism inFCGR2Bis associated with protection against malaria but susceptibility to systemic lupus erythematosus

(2010) Lisa C. Willcocks et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Large-Scale Analysis of Network Bistability for Human Cancers

(2010) Tetsuya Shiraishi et al.   PLoS Computational Biology

Network-Based Elucidation of Human Disease Similarities Reveals Common Functional Modules Enriched for Pluripotent Drug Targets

(2010) Silpa Suthram et al.   PLoS Computational Biology

A network medicine approach to human disease

(2009) Andreas Zanzoni et al.   FEBS LETTERS

Diagnosis of ulcerative colitis before onset of inflammation by multivariate modeling of genome-wide gene expression data

(2009) Jrgen Olsen et al.   INFLAMMATORY BOWEL DISEASES

Fecal Calprotectin and Lactoferrin as Noninvasive Markers of Pediatric Inflammatory Bowel Disease

(2009) Manohara Joishy et al.   JOURNAL OF PEDIATRIC GASTROENTEROLOGY AND NUTRITION

Enteric defensins are essential regulators of intestinal microbial ecology

(2009) Nita H Salzman et al.   NATURE IMMUNOLOGY

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Human Disease-Drug Network Based on Genomic Expression Profiles

(2009) Guanghui Hu et al.   PLoS One

Network Properties of Complex Human Disease Genes Identified through Genome-Wide Association Studies

(2009) Fredrik Barrenas et al.   PLoS One

Mucosal Gene Expression of Antimicrobial Peptides in Inflammatory Bowel Disease Before and After First Infliximab Treatment

(2009) Ingrid Arijs et al.   PLoS One

Rheumatic manifestations of inflammatory bowel disease

(2009) Tatiana Sofía Rodríguez-Reyna et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network

(2009) Bolan Linghu et al.   GENOME BIOLOGY

Bacterial-mucosal interactions in inflammatory bowel disease—an alliance gone bad

(2008) Maciej Chichlowski et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Oestrogens and Crohn’s disease: the missed link

(2008) A. M. El-Tawil   ANDROLOGIA

Genetics of inflammatory bowel disease: clues to pathogenesis

(2008) H. Zhang et al.   BRITISH MEDICAL BULLETIN

Glutathione peroxidase 2 and aquaporin 8 as new markers for colonic inflammation in experimental colitis and inflammatory bowel diseases: an important role for H2O2?

(2008) Anje A. te Velde et al.   EUROPEAN JOURNAL OF GASTROENTEROLOGY & HEPATOLOGY

Regional variation in gene expression in the healthy colon is dysregulated in ulcerative colitis

(2008) C L Noble et al.   GUT

Loci on 20q13 and 21q22 are associated with pediatric-onset inflammatory bowel disease

(2008) Subra Kugathasan et al.   NATURE GENETICS

The mechanism of micro-RNA-mediated translation repression is determined by the promoter of the target gene

(2008) Yi Wen Kong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Activation of an IL-6:STAT3-dependent transcriptome in pediatric-onset inflammatory bowel disease

(2007) Rebecca Carey et al.   INFLAMMATORY BOWEL DISEASES