Using neighborhood cohesiveness to infer interactions between protein domains

Revealing Missing Parts of the Interactome via Link Prediction

(2014) Yuriy Hulovatyy et al.   PLoS One

Insights into polypharmacology from drug-domain associations

(2013) Aurelio A. Moya-García et al.   BIOINFORMATICS

Negatome 2.0: a database of non-interacting proteins derived by literature mining, manual annotation and protein structure analysis

(2013) Philipp Blohm et al.   NUCLEIC ACIDS RESEARCH

3did: a catalog of domain-based interactions of known three-dimensional structure

(2013) Roberto Mosca et al.   NUCLEIC ACIDS RESEARCH

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Data, information, knowledge and principle: back to metabolism in KEGG

(2013) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

The Role of Structural Disorder in the Rewiring of Protein Interactions through Evolution

(2012) Roberto Mosca et al.   MOLECULAR & CELLULAR PROTEOMICS

Interactome3D: adding structural details to protein networks

(2012) Roberto Mosca et al.   NATURE METHODS

The RCSB Protein Data Bank: new resources for research and education

(2012) Peter W. Rose et al.   NUCLEIC ACIDS RESEARCH

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

(2012) Andrea Franceschini et al.   NUCLEIC ACIDS RESEARCH

Improving the prediction of protein binding sites by combining heterogeneous data and Voronoi diagrams

(2011) Joan Segura et al.   BMC BIOINFORMATICS

Network target for screening synergistic drug combinations with application to traditional Chinese medicine

(2011) Shao Li et al.   BMC Systems Biology

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

Hidden Markov model speed heuristic and iterative HMM search procedure

(2010) L Steven Johnson et al.   BMC BIOINFORMATICS

DOMINE: a comprehensive collection of known and predicted domain-domain interactions

(2010) Sailu Yellaboina et al.   NUCLEIC ACIDS RESEARCH

Knowledge-guided inference of domain–domain interactions from incomplete protein–protein interaction networks

(2009) Mei Liu et al.   BIOINFORMATICS

Protein co-evolution, co-adaptation and interactions

(2008) Florencio Pazos et al.   EMBO JOURNAL