DriverML: a machine learning algorithm for identifying driver genes in cancer sequencing studies

Discovering personalized driver mutation profiles of single samples in cancer by network control strategy

(2018) Wei-Feng Guo et al.   BIOINFORMATICS

Molecular Determinants of Response to Anti–Programmed Cell Death (PD)-1 and Anti–Programmed Death-Ligand 1 (PD-L1) Blockade in Patients With Non–Small-Cell Lung Cancer Profiled With Targeted Next-Generation Sequencing

(2018) Hira Rizvi et al.   JOURNAL OF CLINICAL ONCOLOGY

Cancer driver mutation prediction through Bayesian integration of multi-omic data

(2018) Zixing Wang et al.   PLoS One

Discovery of Cancer Driver Long Noncoding RNAs across 1112 Tumour Genomes: New Candidates and Distinguishing Features

(2017) Andrés Lanzós et al.   Scientific Reports

Transcriptional repression of SOCS3 mediated by IL-6/STAT3 signaling via DNMT1 promotes pancreatic cancer growth and metastasis

(2016) Li Huang et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

Unsupervised detection of cancer driver mutations with parsimony-guided learning

(2016) Runjun D Kumar et al.   NATURE GENETICS

Functional interaction of histone deacetylase 5 (HDAC5) and lysine-specific demethylase 1 (LSD1) promotes breast cancer progression

(2016) C Cao et al.   ONCOGENE

Evaluating the evaluation of cancer driver genes

(2016) Collin J. Tokheim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Systematic analysis of mutation distribution in three dimensional protein structures identifies cancer driver genes

(2016) Akihiro Fujimoto et al.   Scientific Reports

MADGiC: a model-based approach for identifying driver genes in cancer

(2015) Keegan D. Korthauer et al.   BIOINFORMATICS

DriverDBv2: a database for human cancer driver gene research

(2015) I-Fang Chung et al.   NUCLEIC ACIDS RESEARCH

Deacetylation of HSPA5 by HDAC6 leads to GP78-mediated HSPA5 ubiquitination at K447 and suppresses metastasis of breast cancer

(2015) Y-W Chang et al.   ONCOGENE

e-Driver: a novel method to identify protein regions driving cancer

(2014) Eduard Porta-Pardo et al.   BIOINFORMATICS

Discovery of co-occurring driver pathways in cancer

(2014) Junhua Zhang et al.   BMC BIOINFORMATICS

Discovery and saturation analysis of cancer genes across 21 tumour types

(2014) Michael S. Lawrence et al.   NATURE

DawnRank: discovering personalized driver genes in cancer

(2014) Jack P Hou et al.   Genome Medicine

DrGaP: A Powerful Tool for Identifying Driver Genes and Pathways in Cancer Sequencing Studies

(2013) Xing Hua et al.   AMERICAN JOURNAL OF HUMAN GENETICS

OncodriveCLUST: exploiting the positional clustering of somatic mutations to identify cancer genes

(2013) David Tamborero et al.   BIOINFORMATICS

Utilizing protein structure to identify non-random somatic mutations

(2013) Gregory A Ryslik et al.   BMC BIOINFORMATICS

Cumulative Haploinsufficiency and Triplosensitivity Drive Aneuploidy Patterns and Shape the Cancer Genome

(2013) Teresa Davoli et al.   CELL

Activation of mammalian target of rapamycin complex 1 (mTORC1) and Raf/Pyk2 by growth factor-mediated Eph receptor 2 (EphA2) is required for cholangiocarcinoma growth and metastasis

(2013) Xiang-Dan Cui et al.   HEPATOLOGY

Systematic analysis of somatic mutations in phosphorylation signaling predicts novel cancer drivers

(2013) J. Reimand et al.   Molecular Systems Biology

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

(2013) Michael S. Lawrence et al.   NATURE

IntOGen-mutations identifies cancer drivers across tumor types

(2013) Abel Gonzalez-Perez et al.   NATURE METHODS

Emerging patterns of somatic mutations in cancer

(2013) Ian R. Watson et al.   NATURE REVIEWS GENETICS

DriverDB: an exome sequencing database for cancer driver gene identification

(2013) Wei-Chung Cheng et al.   NUCLEIC ACIDS RESEARCH

Cancer Genome Landscapes

(2013) B. Vogelstein et al.   SCIENCE

Comprehensive identification of mutational cancer driver genes across 12 tumor types

(2013) David Tamborero et al.   Scientific Reports

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

(2013) Ali Bashashati et al.   GENOME BIOLOGY

Efficient methods for identifying mutated driver pathways in cancer

(2012) Junfei Zhao et al.   BIOINFORMATICS

Predicting sample size required for classification performance

(2012) Rosa L Figueroa et al.   BMC Medical Informatics and Decision Making

Functional impact bias reveals cancer drivers

(2012) Abel Gonzalez-Perez et al.   NUCLEIC ACIDS RESEARCH

Exome sequencing reveals germline NPAT mutation as a candidate risk factor for Hodgkin lymphoma

(2011) S. Saarinen et al.   BLOOD

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

Identifying cancer driver genes in tumor genome sequencing studies

(2010) Ahrim Youn et al.   BIOINFORMATICS

Advances in understanding cancer genomes through second-generation sequencing

(2010) Matthew Meyerson et al.   NATURE REVIEWS GENETICS

Induced G1 cell-cycle arrest controls replication-dependent histone mRNA 3′ end processing through p21, NPAT and CDK9

(2010) J Pirngruber et al.   ONCOGENE

Automated Network Analysis Identifies Core Pathways in Glioblastoma

(2010) Ethan Cerami et al.   PLoS One

Cancer-Specific High-Throughput Annotation of Somatic Mutations: Computational Prediction of Driver Missense Mutations

(2009) H. Carter et al.   CANCER RESEARCH

The cancer genome

(2009) Michael R. Stratton et al.   NATURE

Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt

(2009) Steffen Durinck et al.   Nature Protocols