Prioritization of cancer driver gene with prize-collecting steiner tree by introducing an edge weighted strategy in the personalized gene interaction network

Propedia: a database for protein–peptide identification based on a hybrid clustering algorithm

(2021) Pedro M. Martins et al.   BMC BIOINFORMATICS

Identifying driver genes for individual patients through inductive matrix completion

(2021) Tong Zhang et al.   BIOINFORMATICS

Individualized genetic network analysis reveals new therapeutic vulnerabilities in 6,700 cancer genomes

(2020) Chuang Liu et al.   PLoS Computational Biology

EGFR activity addiction facilitates anti-ERBB based combination treatment of squamous bladder cancer

(2020) Michael Rose et al.   ONCOGENE

deepDriver: Predicting Cancer Driver Genes Based on Somatic Mutations Using Deep Convolutional Neural Networks

(2019) Ping Luo et al.   Frontiers in Genetics

GEPIA2: an enhanced web server for large-scale expression profiling and interactive analysis

(2019) Zefang Tang et al.   NUCLEIC ACIDS RESEARCH

A random walk-based method to identify driver genes by integrating the subcellular localization and variation frequency into bipartite graph

(2019) Junrong Song et al.   BMC BIOINFORMATICS

A novel network control model for identifying personalized driver genes in cancer

(2019) Wei-Feng Guo et al.   PLoS Computational Biology

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

(2018) Wei-Feng Guo et al.   BIOINFORMATICS

HIT'nDRIVE: patient-specific multidriver gene prioritization for precision oncology

(2017) Raunak Shrestha et al.   GENOME RESEARCH

LNDriver: identifying driver genes by integrating mutation and expression data based on gene-gene interaction network

(2016) Pi-Jing Wei et al.   BMC BIOINFORMATICS

A comprehensive transcriptional map of primate brain development

(2016) Trygve E. Bakken et al.   NATURE

Personalized characterization of diseases using sample-specific networks

(2016) Xiaoping Liu et al.   NUCLEIC ACIDS RESEARCH

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

Patient-specific driver gene prediction and risk assessment through integrated network analysis of cancer omics profiles

(2015) Denis Bertrand et al.   NUCLEIC ACIDS RESEARCH

VEGF Signaling in Cancer Treatment

(2014) Daniela Sia et al.   CURRENT PHARMACEUTICAL DESIGN

Discovery and saturation analysis of cancer genes across 21 tumour types

(2014) Michael S. Lawrence et al.   NATURE

STRING v10: protein–protein interaction networks, integrated over the tree of life

(2014) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

DawnRank: discovering personalized driver genes in cancer

(2014) Jack P Hou et al.   Genome Medicine

Pathview: an R/Bioconductor package for pathway-based data integration and visualization

(2013) Weijun Luo et al.   BIOINFORMATICS

Cancer Genome Landscapes

(2013) B. Vogelstein et al.   SCIENCE

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

(2013) Ali Bashashati et al.   GENOME BIOLOGY

A Landscape of Driver Mutations in Melanoma

(2012) Eran Hodis et al.   CELL

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Finding undetected protein associations in cell signaling by belief propagation

(2010) M. Bailly-Bechet et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA