Discovering potential cancer driver genes by an integrated network-based approach

MEMCover: integrated analysis of mutual exclusivity and functional network reveals dysregulated pathways across multiple cancer types

(2015) Yoo-Ah Kim et al.   BIOINFORMATICS

Identifying core gene modules in glioblastoma based on multilayer factor-mediated dysfunctional regulatory networks through integrating multi-dimensional genomic data

(2015) Yanyan Ping et al.   NUCLEIC ACIDS RESEARCH

Systematic analysis of somatic mutations impacting gene expression in 12 tumour types

(2015) Jiarui Ding et al.   Nature Communications

Evaluation and integration of cancer gene classifiers: identification and ranking of plausible drivers

(2015) Yang Liu et al.   Scientific Reports

Systematic identification of cancer driving signaling pathways based on mutual exclusivity of genomic alterations

(2015) Özgün Babur et al.   GENOME BIOLOGY

Abstract 4364: Copy number gain ofPTK2andPIK3CAmutations are common genetic alterations in ovarian clear cell carcinoma.

(2014) Heejei Yoon et al.   CANCER RESEARCH

Abstract B20: Identification of novel biomarkers for early detection of ovarian cancer

(2014) Linda A. Szabo et al.   CLINICAL CANCER RESEARCH

IndividualizedPath: identifying genetic alterations contributing to the dysfunctional pathways in glioblastoma individuals

(2014) Yanyan Ping et al.   Molecular BioSystems

NCG 4.0: the network of cancer genes in the era of massive mutational screenings of cancer genomes

(2014) Omer An et al.   Database-The Journal of Biological Databases and Curation

Uncovering the information core in recommender systems

(2014) Wei Zeng et al.   Scientific Reports

DawnRank: discovering personalized driver genes in cancer

(2014) Jack P Hou et al.   Genome Medicine

Mutational heterogeneity in cancer and the search for new cancer-associated genes

(2013) Michael S. Lawrence et al.   NATURE

Coordinate activation of Shh and PI3K signaling in PTEN-deficient glioblastoma: new therapeutic opportunities

(2013) Mariella Gruber Filbin et al.   NATURE MEDICINE

Network-based stratification of tumor mutations

(2013) Matan Hofree et al.   NATURE METHODS

CoCiter: An Efficient Tool to Infer Gene Function by Assessing the Significance of Literature Co-Citation

(2013) Nan Qiao et al.   PLoS One

Integrative analysis of copy number alteration and gene expression profiling in ovarian clear cell adenocarcinoma

(2013) Chang Ohk Sung et al.   Cancer Genetics

DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer

(2013) Ali Bashashati et al.   GENOME BIOLOGY

PARADIGM-SHIFT predicts the function of mutations in multiple cancers using pathway impact analysis

(2012) Sam Ng et al.   BIOINFORMATICS

Efficient methods for identifying mutated driver pathways in cancer

(2012) Junfei Zhao et al.   BIOINFORMATICS

Robust rank aggregation for gene list integration and meta-analysis

(2012) Raivo Kolde et al.   BIOINFORMATICS

MuSiC: Identifying mutational significance in cancer genomes

(2012) N. D. Dees et al.   GENOME RESEARCH

Sequence analysis of mutations and translocations across breast cancer subtypes

(2012) Shantanu Banerji et al.   NATURE

Comprehensive molecular characterization of human colon and rectal cancer

(2012)   NATURE

Recommender systems

(2012) Linyuan Lü et al.   PHYSICS REPORTS-REVIEW SECTION OF PHYSICS LETTERS

Correlation of Somatic Mutation and Expression Identifies Genes Important in Human Glioblastoma Progression and Survival

(2011) D. L. Masica et al.   CANCER RESEARCH

Activation of the Glucocorticoid Receptor Is Associated with Poor Prognosis in Estrogen Receptor-Negative Breast Cancer

(2011) D. Pan et al.   CANCER RESEARCH

De novo discovery of mutated driver pathways in cancer

(2011) F. Vandin et al.   GENOME RESEARCH

Mutual exclusivity analysis identifies oncogenic network modules

(2011) G. Ciriello et al.   GENOME RESEARCH

Integrated genomic analyses of ovarian carcinoma

(2011) D. Bell et al.   NATURE

Ovarian Cancer Development and Metastasis

(2010) Ernst Lengyel   AMERICAN JOURNAL OF PATHOLOGY

Identifying cancer driver genes in tumor genome sequencing studies

(2010) Ahrim Youn et al.   BIOINFORMATICS

Integrated Genomic Analysis Identifies Clinically Relevant Subtypes of Glioblastoma Characterized by Abnormalities in PDGFRA, IDH1, EGFR, and NF1

(2010) Roel G.W. Verhaak et al.   CANCER CELL

MGMT-Independent Temozolomide Resistance in Pediatric Glioblastoma Cells Associated with a PI3-Kinase-Mediated HOX/Stem Cell Gene Signature

(2010) N. Gaspar et al.   CANCER RESEARCH

International network of cancer genome projects

(2010) Thomas J. Hudson (Chairperson) et al.   NATURE

Integrative genome analysis reveals an oncomir/oncogene cluster regulating glioblastoma survivorship

(2010) H. Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

LRP6 overexpression defines a class of breast cancer subtype and is a target for therapy

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

A human functional protein interaction network and its application to cancer data analysis

(2010) Guanming Wu et al.   GENOME BIOLOGY

IMPROVED COLLABORATIVE FILTERING ALGORITHM VIA INFORMATION TRANSFORMATION

(2009) JIAN-GUO LIU et al.   INTERNATIONAL JOURNAL OF MODERN PHYSICS C

The cancer genome

(2009) Michael R. Stratton et al.   NATURE

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

(2009) Da Wei Huang et al.   Nature Protocols

Collaborative filtering with diffusion-based similarity on tripartite graphs

(2009) Ming-Sheng Shang et al.   PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS

Personalized recommendation via integrated diffusion on user–item–tag tripartite graphs

(2009) Zi-Ke Zhang et al.   PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS

The Side Population of Ovarian Cancer Cells Is a Primary Target of IFN-  Antitumor Effects

(2008) L. Moserle et al.   CANCER RESEARCH

Comprehensive genomic characterization defines human glioblastoma genes and core pathways

(2008) Roger McLendon et al.   NATURE

An Integrated Genomic Analysis of Human Glioblastoma Multiforme

(2008) D. W. Parsons et al.   SCIENCE