An integrated approach to identify causal network modules of complex diseases with application to colorectal cancer

Oestrogen receptor-β CA repeat polymorphism is associated with incidence of colorectal cancer among females

(2015) Naoko Honma et al.   HISTOPATHOLOGY

The “HER2–PI3K/Akt–FASN Axis” Regulated Malignant Phenotype of Colorectal Cancer Cells

(2012) Nan Li et al.   LIPIDS

Identifying Responsive Modules by Mathematical Programming: An Application to Budding Yeast Cell Cycle

(2012) Zhenshu Wen et al.   PLoS One

Rewiring drug-activated p53-regulatory network from suppressing to promoting tumorigenesis

(2012) Wei Song et al.   Journal of Molecular Cell Biology

Coexpression network analysis in chronic hepatitis B and C hepatic lesions reveals distinct patterns of disease progression to hepatocellular carcinoma

(2012) Danning He et al.   Journal of Molecular Cell Biology

Detecting early-warning signals for sudden deterioration of complex diseases by dynamical network biomarkers

(2012) Luonan Chen et al.   Scientific Reports

Epidermal Growth Factor Receptor Pathway Mutations and Colorectal Cancer Therapy

(2011) Allie H Grossmann et al.   ARCHIVES OF PATHOLOGY & LABORATORY MEDICINE

2011: the immune hallmarks of cancer

(2011) Federica Cavallo et al.   CANCER IMMUNOLOGY IMMUNOTHERAPY

Hallmarks of Cancer: The Next Generation

(2011) Douglas Hanahan et al.   CELL

Inflammasome-mediated suppression of inflammation-induced colorectal cancer progression is mediated by direct regulation of epithelial cell proliferation

(2011) Bo Hu et al.   CELL CYCLE

Genome-scale analysis of aberrant DNA methylation in colorectal cancer

(2011) T. Hinoue et al.   GENOME RESEARCH

DNA methylation of colon mucosa in ulcerative colitis patients: Correlation with inflammatory status

(2011) Shunsuke Saito et al.   INFLAMMATORY BOWEL DISEASES

DNA methylation patterns in blood of patients with colorectal cancer and adenomatous colorectal polyps

(2011) Elisa Cassinotti et al.   INTERNATIONAL JOURNAL OF CANCER

Candidate driver genes in microsatellite-unstable colorectal cancer

(2011) Pia Alhopuro et al.   INTERNATIONAL JOURNAL OF CANCER

Identification and validation of highly frequent CpG island hypermethylation in colorectal adenomas and carcinomas

(2011) Bodil Øster et al.   INTERNATIONAL JOURNAL OF CANCER

Identifying disease genes and module biomarkers by differential interactions

(2011) Xiaoping Liu et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

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(2011) Shuchen Gu et al.   MOLECULAR MEDICINE

Identifying Causal Genes and Dysregulated Pathways in Complex Diseases

(2011) Yoo-Ah Kim et al.   PLoS Computational Biology

Exploring multilocus associations of inflammation genes and colorectal cancer risk using hapConstructor

(2010) Karen Curtin et al.   BMC Medical Genetics

Reversal of gene expression changes in the colorectal normal-adenoma pathway by NS398 selective COX2 inhibitor

(2010) O Galamb et al.   BRITISH JOURNAL OF CANCER

General Transcription Factor Binding at CpG Islands in Normal Cells Correlates with Resistance to De novo DNA Methylation in Cancer Cells

(2010) C. Gebhard et al.   CANCER RESEARCH

Genetic variation in a metabolic signaling pathway and colon and rectal cancer risk: mTOR , PTEN , STK11 , RPKAA1 , PRKAG2 , TSC1 , TSC2 , PI3K and Akt1

(2010) Martha L. Slattery et al.   CARCINOGENESIS

An Integrated Approach to Uncover Drivers of Cancer

(2010) Uri David Akavia et al.   CELL

A ‘metastasis-prone’ signature for early-stage mismatch-repair proficient sporadic colorectal cancer patients and its implications for possible therapeutics

(2010) Yi Hong et al.   CLINICAL & EXPERIMENTAL METASTASIS

Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana

(2010) Jelle Van Leene et al.   Molecular Systems Biology

Identification of high-quality cancer prognostic markers and metastasis network modules

(2010) Jie Li et al.   Nature Communications

Network Modeling Identifies Molecular Functions Targeted by miR-204 to Suppress Head and Neck Tumor Metastasis

(2010) Younghee Lee et al.   PLoS Computational Biology

Investigation of innate immunity genes CARD4, CARD8 and CARD15 as germline susceptibility factors for colorectal cancer

(2009) Nikolaus Möckelmann et al.   BMC GASTROENTEROLOGY

Explorative study to identify novel candidate genes related to oxaliplatin efficacy and toxicity using a DNA repair array

(2009) D M Kweekel et al.   BRITISH JOURNAL OF CANCER

Genetic Variants of Methyl Metabolizing Enzymes and Epigenetic Regulators: Associations with Promoter CpG Island Hypermethylation in Colorectal Cancer

(2009) S. de Vogel et al.   CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION

Inflammation and colorectal cancer

(2009) Sarah Kraus et al.   CURRENT OPINION IN PHARMACOLOGY

Genetic variation in adipokine genes and risk of colorectal cancer

(2009) Sonali Pechlivanis et al.   EUROPEAN JOURNAL OF ENDOCRINOLOGY

Molecular networks as sensors and drivers of common human diseases

(2009) Eric E. Schadt   NATURE

MINT, the molecular interaction database: 2009 update

(2009) Arnaud Ceol et al.   NUCLEIC ACIDS RESEARCH

Inactivating germ-line and somatic mutations in polypeptide N-acetylgalactosaminyltransferase 12 in human colon cancers

(2009) K. Guda et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide DNA methylation profiling using Infinium®assay

(2009) Marina Bibikova et al.   Epigenomics

Screening of 214 Single Nucleotide Polymorphisms in 44 Candidate Cancer Susceptibility Genes: A Case–Control Study on Gastric and Colorectal Cancers in the Japanese Population

(2008) Shinobu Ikeda et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Uncovering signal transduction networks from high-throughput data by integer linear programming

(2008) Xing-Ming Zhao et al.   NUCLEIC ACIDS RESEARCH

Reactome knowledgebase of human biological pathways and processes

(2008) L. Matthews et al.   NUCLEIC ACIDS RESEARCH