Integrative approaches for predicting protein function and prioritizing genes for complex phenotypes using protein interaction networks

Computational tools for prioritizing candidate genes: boosting disease gene discovery

(2012) Yves Moreau et al.   NATURE REVIEWS GENETICS

An experimental investigation of kernels on graphs for collaborative recommendation and semisupervised classification

(2012) François Fouss et al.   NEURAL NETWORKS

Google Goes Cancer: Improving Outcome Prediction for Cancer Patients by Network-Based Ranking of Marker Genes

(2012) Christof Winter et al.   PLoS Computational Biology

Contextual analysis of RNAi-based functional screens using interaction networks

(2011) Orland Gonzalez et al.   BIOINFORMATICS

A protein network-guided screen for cell cycle regulators in Drosophila

(2011) Stephen T Guest et al.   BMC Systems Biology

Candidate gene prioritization by network analysis of differential expression using machine learning approaches

(2010) Daniela Nitsch et al.   BMC BIOINFORMATICS

DroID 2011: a comprehensive, integrated resource for protein, transcription factor, RNA and gene interactions for Drosophila

(2010) Thilakam Murali et al.   NUCLEIC ACIDS RESEARCH

The BioGRID Interaction Database: 2011 update

(2010) C. Stark et al.   NUCLEIC ACIDS RESEARCH

The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored

(2010) D. Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Bayesian Markov Random Field Analysis for Protein Function Prediction Based on Network Data

(2010) Yiannis A. I. Kourmpetis et al.   PLoS One

The Genetic Landscape of a Cell

(2010) M. Costanzo et al.   SCIENCE

A network-based integrative approach to prioritize reliable hits from multiple genome-wide RNAi screens in Drosophila

(2009) Li Wang et al.   BMC GENOMICS

Integrating siRNA and protein-protein interaction data to identify an expanded insulin signaling network

(2009) Z. Tu et al.   GENOME RESEARCH

RNAiCut: automated detection of significant genes from functional genomic screens

(2009) Irene M Kaplow et al.   NATURE METHODS

Potential etiologic and functional implications of genome-wide association loci for human diseases and traits

(2009) L. A. Hindorff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Proteome Organization in a Genome-Reduced Bacterium

(2009) S. Kuhner et al.   SCIENCE

Walking the Interactome for Prioritization of Candidate Disease Genes

(2008) Sebastian Köhler et al.   AMERICAN JOURNAL OF HUMAN GENETICS

PID: the Pathway Interaction Database

(2008) Carl F. Schaefer et al.   NUCLEIC ACIDS RESEARCH

Human Protein Reference Database--2009 update

(2008) T. S. Keshava Prasad et al.   NUCLEIC ACIDS RESEARCH

High-Quality Binary Protein Interaction Map of the Yeast Interactome Network

(2008) H. Yu et al.   SCIENCE

Profiling Essential Genes in Human Mammary Cells by Multiplex RNAi Screening

(2008) J. M. Silva et al.   SCIENCE