Interactome3D: adding structural details to protein networks

Sequential Application of Anticancer Drugs Enhances Cell Death by Rewiring Apoptotic Signaling Networks

(2012) Michael J. Lee et al.   CELL

Constructing structural networks of signaling pathways on the proteome scale

(2012) Guray Kuzu et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

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

(2012) Xiujuan Wang et al.   NATURE BIOTECHNOLOGY

Protein interaction data curation: the International Molecular Exchange (IMEx) consortium

(2012) Sandra Orchard et al.   NATURE METHODS

Putting the Pieces Together: Integrative Modeling Platform Software for Structure Determination of Macromolecular Assemblies

(2012) Daniel Russel et al.   PLOS BIOLOGY

Three-dimensional modeling of protein interactions and complexes is going ‘omics

(2011) Amelie Stein et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

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

(2011) Alessia David et al.   HUMAN MUTATION

Structural and functional protein network analyses predict novel signaling functions for rhodopsin

(2011) C. Kiel et al.   Molecular Systems Biology

Interaction databases on the same page

(2011) Andrei L Turinsky et al.   NATURE BIOTECHNOLOGY

Reorganizing the protein space at the Universal Protein Resource (UniProt)

(2011)   NUCLEIC ACIDS RESEARCH

MINT, the molecular interaction database: 2012 update

(2011) Luana Licata et al.   NUCLEIC ACIDS RESEARCH

The IntAct molecular interaction database in 2012

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

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

The Biomolecular Interaction Network Database in PSI-MI 2.5

(2011) Ruth Isserlin et al.   Database-The Journal of Biological Databases and Curation

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Preferential use of protein domain pairs as interaction mediators: order and transitivity

(2010) Zohar Itzhaki et al.   BIOINFORMATICS

Cytoscape Web: an interactive web-based network browser

(2010) Christian T. Lopes et al.   BIOINFORMATICS

ModBase, a database of annotated comparative protein structure models, and associated resources

(2010) U. Pieper et al.   NUCLEIC ACIDS RESEARCH

3did: identification and classification of domain-based interactions of known three-dimensional structure

(2010) A. Stein et al.   NUCLEIC ACIDS RESEARCH

MatrixDB, the extracellular matrix interaction database

(2010) E. Chautard et al.   NUCLEIC ACIDS RESEARCH

The BioGRID Interaction Database: 2011 update

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

Novel Peptide-Mediated Interactions Derived from High-Resolution 3-Dimensional Structures

(2010) Amelie Stein et al.   PLoS Computational Biology

A Physical and Regulatory Map of Host-Influenza Interactions Reveals Pathways in H1N1 Infection

(2009) Sagi D. Shapira et al.   CELL

Edgetic perturbation models of human inherited disorders

(2009) Quan Zhong et al.   Molecular Systems Biology

'Edgetic' perturbation of a C. elegans BCL2 ortholog

(2009) Matija Dreze et al.   NATURE METHODS

MINT, the molecular interaction database: 2009 update

(2009) Arnaud Ceol et al.   NUCLEIC ACIDS RESEARCH

Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima

(2009) Y. Zhang et al.   SCIENCE

Global Functional Atlas of Escherichia coli Encompassing Previously Uncharacterized Proteins

(2009) Pingzhao Hu et al.   PLOS BIOLOGY

Pushing Structural Information into the Yeast Interactome by High-Throughput Protein Docking Experiments

(2009) Roberto Mosca et al.   PLoS Computational Biology

MPIDB: the microbial protein interaction database

(2008) Johannes Goll et al.   BIOINFORMATICS

InnateDB: facilitating systems-level analyses of the mammalian innate immune response

(2008) David J Lynn et al.   Molecular Systems Biology

Targeting and tinkering with interaction networks

(2008) Robert B Russell et al.   Nature Chemical Biology

An empirical framework for binary interactome mapping

(2008) Kavitha Venkatesan et al.   NATURE METHODS

Human Protein Reference Database--2009 update

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

Reactome knowledgebase of human biological pathways and processes

(2008) L. Matthews et al.   NUCLEIC ACIDS RESEARCH

Stability and structural recovery of the tetramerization domain of p53-R337H mutant induced by a designed templating ligand

(2008) S. Gordo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Incorporating high-throughput proteomics experiments into structural biology pipelines: Identification of the low-hanging fruits

(2008) Roland A. Pache et al.   PROTEOMICS