How do oncoprotein mutations rewire protein–protein interaction networks?

Differential Reprogramming of Isogenic Colorectal Cancer Cells by Distinct Activating KRAS Mutations

(2015) Dean E. Hammond et al.   JOURNAL OF PROTEOME RESEARCH

A Proteome-Scale Map of the Human Interactome Network

(2014) Thomas Rolland et al.   CELL

Proteogenomic characterization of human colon and rectal cancer

(2014) Bing Zhang et al.   NATURE

A multiscale statistical mechanical framework integrates biophysical and genomic data to assemble cancer networks

(2014) Mohammed AlQuraishi et al.   NATURE GENETICS

The yeast two-hybrid assay: still finding connections after 25 years

(2014) Marc Vidal et al.   NATURE METHODS

The mammalian-membrane two-hybrid assay (MaMTH) for probing membrane-protein interactions in human cells

(2014) Julia Petschnigg et al.   NATURE METHODS

Gain of Interaction with IRS1 by p110α-Helical Domain Mutants Is Crucial for Their Oncogenic Functions

(2013) Yujun Hao et al.   CANCER CELL

Protein–protein interaction networks studies and importance of 3D structure knowledge

(2013) Hui-Chun Lu et al.   Expert Review of Proteomics

Exploring mechanisms of human disease through structurally resolved protein interactome networks

(2013) Jishnu Das et al.   Molecular BioSystems

Structure and dynamics of molecular networks: A novel paradigm of drug discovery

(2013) Peter Csermely et al.   PHARMACOLOGY & THERAPEUTICS

Cancer Missense Mutations Alter Binding Properties of Proteins and Their Interaction Networks

(2013) Hafumi Nishi et al.   PLoS One

Cancer networks and beyond: Interpreting mutations using the human interactome and protein structure

(2013) Sakshi Gulati et al.   SEMINARS IN CANCER BIOLOGY

Tandem Affinity Purification in Transgenic Mouse Embryonic Stem Cells Identifies DDOST as a Novel PPP1CC2 Interacting Protein

(2012) Graham MacLeod et al.   BIOCHEMISTRY

In silico identification of oncogenic potential of fyn-related kinase in hepatocellular carcinoma

(2012) Jia-Shing Chen et al.   BIOINFORMATICS

The many faces and functions of β-catenin

(2012) Tomas Valenta et al.   EMBO JOURNAL

Mutant p53 interactome identifies nardilysin as a p53R273H-specific binding partner that promotes invasion

(2012) Cynthia R Coffill et al.   EMBO REPORTS

A Strategy Based on Protein–Protein Interface Motifs May Help in Identifying Drug Off-Targets

(2012) H. Billur Engin et al.   Journal of Chemical Information and Modeling

Differential network biology

(2012) Trey Ideker et al.   Molecular Systems Biology

Structure-based prediction of protein–protein interactions on a genome-wide scale

(2012) Qiangfeng Cliff Zhang et al.   NATURE

Three-dimensional reconstruction of protein networks provides insight into human genetic disease

(2012) Xiujuan Wang et al.   NATURE BIOTECHNOLOGY

p53 mutations in cancer

(2012) Patricia A. J. Muller et al.   NATURE CELL BIOLOGY

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

(2012) Andrea Franceschini et al.   NUCLEIC ACIDS RESEARCH

Affinity-purification coupled to mass spectrometry: Basic principles and strategies

(2012) Wade H. Dunham et al.   PROTEOMICS

Protein-protein interaction sites are hot spots for disease-associated nonsynonymous SNPs

(2011) Alessia David et al.   HUMAN MUTATION

Proteomic Consequences of a Single Gene Mutation in a Colorectal Cancer Model

(2011) Patrick J. Halvey et al.   JOURNAL OF PROTEOME RESEARCH

The IntAct molecular interaction database in 2012

(2011) S. Kerrien et al.   NUCLEIC ACIDS RESEARCH

Protein-protein interactions: Making sense of networks via graph-theoretic modeling

(2010) Nataša Pržulj   BIOESSAYS

A human MAP kinase interactome

(2010) Sourav Bandyopadhyay et al.   NATURE METHODS

COSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer

(2010) S. A. Forbes et al.   NUCLEIC ACIDS RESEARCH

Subtle Alterations in PCNA-Partner Interactions Severely Impair DNA Replication and Repair

(2010) Yearit Fridman et al.   PLOS BIOLOGY

RAS Mutations Affect Tumor Necrosis Factor-Induced Apoptosis in Colon Carcinoma Cells via ERK-Modulatory Negative and Positive Feedback Circuits Along with Non-ERK Pathway Effects

(2009) P. K. Kreeger et al.   CANCER RESEARCH

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

(2009) H. Carter et al.   CANCER RESEARCH

Cancer systems biology: a network modeling perspective

(2009) P. K. Kreeger et al.   CARCINOGENESIS

Wnt/β-Catenin Signaling: Components, Mechanisms, and Diseases

(2009) Bryan T. MacDonald et al.   DEVELOPMENTAL CELL

Protein Ionizable Groups: pKValues and Their Contribution to Protein Stability and Solubility

(2009) C. Nick Pace et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The cancer genome

(2009) Michael R. Stratton et al.   NATURE

Glioma-Derived Mutations in IDH1 Dominantly Inhibit IDH1 Catalytic Activity and Induce HIF-1 

(2009) S. Zhao et al.   SCIENCE

Mammalian two-hybrids come of age

(2009) Sam Lievens et al.   TRENDS IN BIOCHEMICAL SCIENCES

Algorithmic and analytical methods in network biology

(2009) Mehmet Koyutürk   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

A PP2A Phosphatase High Density Interaction Network Identifies a Novel Striatin-interacting Phosphatase and Kinase Complex Linked to the Cerebral Cavernous Malformation 3 (CCM3) Protein

(2008) Marilyn Goudreault et al.   MOLECULAR & CELLULAR PROTEOMICS

Epitope tagging of endogenous proteins for genome-wide ChIP-chip studies

(2008) Xiaodong Zhang et al.   NATURE METHODS

BAC TransgeneOmics: a high-throughput method for exploration of protein function in mammals

(2008) Ina Poser et al.   NATURE METHODS

Low duplicability and network fragility of cancer genes

(2008) Davide Rambaldi et al.   TRENDS IN GENETICS