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BioGRID: a general repository for interaction datasets. Nucleic Acids Res (2006) 22.41

STRING 8--a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res (2008) 20.62

The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res (2010) 18.73

STRING v9.1: protein-protein interaction networks, with increased coverage and integration. Nucleic Acids Res (2012) 18.26

IntAct--open source resource for molecular interaction data. Nucleic Acids Res (2006) 13.82

The Biomolecular Interaction Network Database and related tools 2005 update. Nucleic Acids Res (2005) 12.94

STRING 7--recent developments in the integration and prediction of protein interactions. Nucleic Acids Res (2006) 12.16

MINT: the Molecular INTeraction database. Nucleic Acids Res (2006) 11.90

The BioGRID Interaction Database: 2008 update. Nucleic Acids Res (2007) 11.83

STRING v10: protein-protein interaction networks, integrated over the tree of life. Nucleic Acids Res (2014) 10.79

STRING: known and predicted protein-protein associations, integrated and transferred across organisms. Nucleic Acids Res (2005) 10.44

The IntAct molecular interaction database in 2010. Nucleic Acids Res (2009) 9.85

The BioPAX community standard for pathway data sharing. Nat Biotechnol (2010) 9.19

Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions. BMC Biol (2007) 8.03

MPact: the MIPS protein interaction resource on yeast. Nucleic Acids Res (2006) 7.75

PATRIC, the bacterial bioinformatics database and analysis resource. Nucleic Acids Res (2013) 7.63

MINT, the molecular interaction database: 2009 update. Nucleic Acids Res (2009) 7.19

Walking the interactome for prioritization of candidate disease genes. Am J Hum Genet (2008) 7.03

iRefIndex: a consolidated protein interaction database with provenance. BMC Bioinformatics (2008) 5.77

An experimentally derived confidence score for binary protein-protein interactions. Nat Methods (2008) 5.27

MINT, the molecular interaction database: 2012 update. Nucleic Acids Res (2011) 5.25

GeneTrail--advanced gene set enrichment analysis. Nucleic Acids Res (2007) 5.10

The European Bioinformatics Institute's data resources: towards systems biology. Nucleic Acids Res (2005) 4.90

BioInfer: a corpus for information extraction in the biomedical domain. BMC Bioinformatics (2007) 4.89

InnateDB: facilitating systems-level analyses of the mammalian innate immune response. Mol Syst Biol (2008) 4.61

Visualization of omics data for systems biology. Nat Methods (2010) 4.59

GPS 2.0, a tool to predict kinase-specific phosphorylation sites in hierarchy. Mol Cell Proteomics (2008) 4.33

Literature-curated protein interaction datasets. Nat Methods (2009) 4.21

Global topological features of cancer proteins in the human interactome. Bioinformatics (2006) 4.17

Predicting disease genes using protein-protein interactions. J Med Genet (2006) 4.10

A proteome-scale map of the human interactome network. Cell (2014) 3.91

FatiGO +: a functional profiling tool for genomic data. Integration of functional annotation, regulatory motifs and interaction data with microarray experiments. Nucleic Acids Res (2007) 3.68

Human immunodeficiency virus type 1, human protein interaction database at NCBI. Nucleic Acids Res (2008) 3.54

'Conserved hypothetical' proteins: prioritization of targets for experimental study. Nucleic Acids Res (2004) 3.50

An evaluation of human protein-protein interaction data in the public domain. BMC Bioinformatics (2006) 3.33

cPath: open source software for collecting, storing, and querying biological pathways. BMC Bioinformatics (2006) 3.24

PathBLAST: a tool for alignment of protein interaction networks. Nucleic Acids Res (2004) 3.20

The landscape of human proteins interacting with viruses and other pathogens. PLoS Pathog (2008) 3.11

Combinatorial drug therapy for cancer in the post-genomic era. Nat Biotechnol (2012) 3.10

APID: Agile Protein Interaction DataAnalyzer. Nucleic Acids Res (2006) 2.91

Deciphering protein-protein interactions. Part I. Experimental techniques and databases. PLoS Comput Biol (2007) 2.84

ConsensusPathDB: toward a more complete picture of cell biology. Nucleic Acids Res (2010) 2.79

ConsensusPathDB--a database for integrating human functional interaction networks. Nucleic Acids Res (2008) 2.77

BNDB - the Biochemical Network Database. BMC Bioinformatics (2007) 2.75

Using biological networks to search for interacting loci in genome-wide association studies. Eur J Hum Genet (2009) 2.68

Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review. Pharmacol Ther (2013) 2.64

Integrated network analysis platform for protein-protein interactions. Nat Methods (2008) 2.63

Integrated biclustering of heterogeneous genome-wide datasets for the inference of global regulatory networks. BMC Bioinformatics (2006) 2.57

Atlas - a data warehouse for integrative bioinformatics. BMC Bioinformatics (2005) 2.51

iRefWeb: interactive analysis of consolidated protein interaction data and their supporting evidence. Database (Oxford) (2010) 2.47

UniHI: an entry gate to the human protein interactome. Nucleic Acids Res (2006) 2.45

Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network. Genome Biol (2009) 2.43

MPIDB: the microbial protein interaction database. Bioinformatics (2008) 2.42

ENDEAVOUR update: a web resource for gene prioritization in multiple species. Nucleic Acids Res (2008) 2.31

What properties characterize the hub proteins of the protein-protein interaction network of Saccharomyces cerevisiae? Genome Biol (2006) 2.27

A genomewide functional network for the laboratory mouse. PLoS Comput Biol (2008) 2.25

PINA v2.0: mining interactome modules. Nucleic Acids Res (2011) 2.23

Protein function annotation by homology-based inference. Genome Biol (2009) 2.20

HIPPIE: Integrating protein interaction networks with experiment based quality scores. PLoS One (2012) 2.17

Discover protein sequence signatures from protein-protein interaction data. BMC Bioinformatics (2005) 2.10

Evolution of biomolecular networks: lessons from metabolic and protein interactions. Nat Rev Mol Cell Biol (2009) 2.09

Large-scale identification of yeast integral membrane protein interactions. Proc Natl Acad Sci U S A (2005) 2.03

The topological relationship between the large-scale attributes and local interaction patterns of complex networks. Proc Natl Acad Sci U S A (2004) 2.02

Inferring protein domain interactions from databases of interacting proteins. Genome Biol (2005) 1.97

Filtering high-throughput protein-protein interaction data using a combination of genomic features. BMC Bioinformatics (2005) 1.96

MatrixDB, a database focused on extracellular protein-protein and protein-carbohydrate interactions. Bioinformatics (2009) 1.96

Functional partitioning of yeast co-expression networks after genome duplication. PLoS Biol (2006) 1.92

PIPs: human protein-protein interaction prediction database. Nucleic Acids Res (2008) 1.91

DroID: the Drosophila Interactions Database, a comprehensive resource for annotated gene and protein interactions. BMC Genomics (2008) 1.89

Interactome3D: adding structural details to protein networks. Nat Methods (2012) 1.89

Structural polymorphism in F-actin. Nat Struct Mol Biol (2010) 1.89

Where have all the interactions gone? Estimating the coverage of two-hybrid protein interaction maps. PLoS Comput Biol (2007) 1.81

MatrixDB, the extracellular matrix interaction database. Nucleic Acids Res (2010) 1.79

Exploration of biological network centralities with CentiBiN. BMC Bioinformatics (2006) 1.78

AtPID: Arabidopsis thaliana protein interactome database--an integrative platform for plant systems biology. Nucleic Acids Res (2007) 1.76

ProtoNet 4.0: a hierarchical classification of one million protein sequences. Nucleic Acids Res (2005) 1.74

HINT: High-quality protein interactomes and their applications in understanding human disease. BMC Syst Biol (2012) 1.73

Exploiting the proteome to improve the genome-wide genetic analysis of epistasis in common human diseases. Hum Genet (2008) 1.72

Systems pharmacology of arrhythmias. Sci Signal (2010) 1.72

VirHostNet: a knowledge base for the management and the analysis of proteome-wide virus-host interaction networks. Nucleic Acids Res (2008) 1.71

PIPE: a protein-protein interaction prediction engine based on the re-occurring short polypeptide sequences between known interacting protein pairs. BMC Bioinformatics (2006) 1.71

BisoGenet: a new tool for gene network building, visualization and analysis. BMC Bioinformatics (2010) 1.69

Computational modeling of the Plasmodium falciparum interactome reveals protein function on a genome-wide scale. Genome Res (2006) 1.68

A pooling-deconvolution strategy for biological network elucidation. Nat Methods (2006) 1.68

Protein-protein interactions essentials: key concepts to building and analyzing interactome networks. PLoS Comput Biol (2010) 1.67

Gene3D: a domain-based resource for comparative genomics, functional annotation and protein network analysis. Nucleic Acids Res (2011) 1.65

MedlineRanker: flexible ranking of biomedical literature. Nucleic Acids Res (2009) 1.64

DASMI: exchanging, annotating and assessing molecular interaction data. Bioinformatics (2009) 1.64

DOMINO: a database of domain-peptide interactions. Nucleic Acids Res (2006) 1.63

HAPPI: an online database of comprehensive human annotated and predicted protein interactions. BMC Genomics (2009) 1.61

Protein-protein interactions more conserved within species than across species. PLoS Comput Biol (2006) 1.61

Co-evolutionary analysis of domains in interacting proteins reveals insights into domain-domain interactions mediating protein-protein interactions. J Mol Biol (2006) 1.60

PrePPI: a structure-informed database of protein-protein interactions. Nucleic Acids Res (2012) 1.59

Cluster analysis of networks generated through homology: automatic identification of important protein communities involved in cancer metastasis. BMC Bioinformatics (2006) 1.57

An integrated approach to the prediction of domain-domain interactions. BMC Bioinformatics (2006) 1.52

HitPredict: a database of quality assessed protein-protein interactions in nine species. Nucleic Acids Res (2010) 1.50

Biomedical discovery acceleration, with applications to craniofacial development. PLoS Comput Biol (2009) 1.49

BBP: Brucella genome annotation with literature mining and curation. BMC Bioinformatics (2006) 1.48

Predicting domain-domain interactions using a parsimony approach. Genome Biol (2006) 1.47

'Unknown' proteins and 'orphan' enzymes: the missing half of the engineering parts list--and how to find it. Biochem J (2009) 1.47

A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature (2000) 47.15

Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature (2002) 45.19

Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature (2002) 37.66

A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc Natl Acad Sci U S A (2001) 33.71

Comparative assessment of large-scale data sets of protein-protein interactions. Nature (2002) 24.25

BIND: the Biomolecular Interaction Network Database. Nucleic Acids Res (2003) 18.75

MINT: a Molecular INTeraction database. FEBS Lett (2002) 17.21

The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data. Nat Biotechnol (2004) 16.08

DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions. Nucleic Acids Res (2002) 15.70

Global analysis of protein activities using proteome chips. Science (2001) 13.74

The Protein Data Bank: unifying the archive. Nucleic Acids Res (2002) 12.37

DIP: the database of interacting proteins. Nucleic Acids Res (2000) 10.06

Protein interactions: two methods for assessment of the reliability of high throughput observations. Mol Cell Proteomics (2002) 8.11

Inferring domain-domain interactions from protein-protein interactions. Genome Res (2002) 4.36

Is there a bias in proteome research? Genome Res (2001) 3.41

Computational methods of analysis of protein-protein interactions. Curr Opin Struct Biol (2003) 2.80

Describing biological protein interactions in terms of protein states and state transitions: the LiveDIP database. Mol Cell Proteomics (2002) 2.76

Toll-like receptor triggering of a vitamin D-mediated human antimicrobial response. Science (2006) 18.74

The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data. Nat Biotechnol (2004) 16.08

DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions. Nucleic Acids Res (2002) 15.70

The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families. PLoS Biol (2007) 13.99

Structure of the cross-beta spine of amyloid-like fibrils. Nature (2005) 11.56

Atomic structures of amyloid cross-beta spines reveal varied steric zippers. Nature (2007) 10.02

The minimum information required for reporting a molecular interaction experiment (MIMIx). Nat Biotechnol (2007) 8.24

Protein interactions: two methods for assessment of the reliability of high throughput observations. Mol Cell Proteomics (2002) 8.11

Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions. BMC Biol (2007) 8.03

Toward the structural genomics of complexes: crystal structure of a PE/PPE protein complex from Mycobacterium tuberculosis. Proc Natl Acad Sci U S A (2006) 7.29

Cell-free formation of RNA granules: low complexity sequence domains form dynamic fibers within hydrogels. Cell (2012) 6.83

The primary mechanism of attenuation of bacillus Calmette-Guerin is a loss of secreted lytic function required for invasion of lung interstitial tissue. Proc Natl Acad Sci U S A (2003) 5.83

PSICQUIC and PSISCORE: accessing and scoring molecular interactions. Nat Methods (2011) 5.01

3D domain swapping: as domains continue to swap. Protein Sci (2002) 4.35

Prolinks: a database of protein functional linkages derived from coevolution. Genome Biol (2004) 4.07

Functional amyloids as natural storage of peptide hormones in pituitary secretory granules. Science (2009) 3.78

Identifying the amylome, proteins capable of forming amyloid-like fibrils. Proc Natl Acad Sci U S A (2010) 3.50

Fermentation, hydrogen, and sulfur metabolism in multiple uncultivated bacterial phyla. Science (2012) 3.39

The origin of protein interactions and allostery in colocalization. Nature (2007) 3.34

Atomic view of a toxic amyloid small oligomer. Science (2012) 3.13

Bicelle crystallization: a new method for crystallizing membrane proteins yields a monomeric bacteriorhodopsin structure. J Mol Biol (2002) 3.11

Continuation and satisfaction of reversible contraception. Obstet Gynecol (2011) 3.03

Amyloid-like fibrils of ribonuclease A with three-dimensional domain-swapped and native-like structure. Nature (2005) 2.99

An architectural framework that may lie at the core of the postsynaptic density. Science (2006) 2.91

The Sorcerer II Global Ocean Sampling Expedition: metagenomic characterization of viruses within aquatic microbial samples. PLoS One (2008) 2.91

Inference of protein function from protein structure. Structure (2005) 2.90

The 3D profile method for identifying fibril-forming segments of proteins. Proc Natl Acad Sci U S A (2006) 2.88

The many faces of SAM. Sci STKE (2005) 2.87

Computational methods of analysis of protein-protein interactions. Curr Opin Struct Biol (2003) 2.80

Describing biological protein interactions in terms of protein states and state transitions: the LiveDIP database. Mol Cell Proteomics (2002) 2.76

Toward rational protein crystallization: A Web server for the design of crystallizable protein variants. Protein Sci (2007) 2.57

Structure-based design of non-natural amino-acid inhibitors of amyloid fibril formation. Nature (2011) 2.46

Pivotal role of the glycine-rich TM3 helix in gating the MscS mechanosensitive channel. Nat Struct Mol Biol (2005) 2.38

Unique transcriptome signature of Mycobacterium tuberculosis in pulmonary tuberculosis. Infect Immun (2006) 2.27

Sharing publication-related data and materials: responsibilities of authorship in the life sciences. Plant Physiol (2003) 2.25

The evolution of transmembrane helix kinks and the structural diversity of G protein-coupled receptors. Proc Natl Acad Sci U S A (2004) 2.19

Side-chain contributions to membrane protein structure and stability. J Mol Biol (2004) 2.13

Recent atomic models of amyloid fibril structure. Curr Opin Struct Biol (2006) 2.05

Inference of protein function and protein linkages in Mycobacterium tuberculosis based on prokaryotic genome organization: a combined computational approach. Genome Biol (2003) 2.04

Modest stabilization by most hydrogen-bonded side-chain interactions in membrane proteins. Nature (2008) 2.03

Ethical considerations of complementary and alternative medical therapies in conventional medical settings. Ann Intern Med (2002) 2.02

Inferring protein domain interactions from databases of interacting proteins. Genome Biol (2005) 1.97

A specific secretion system mediates PPE41 transport in pathogenic mycobacteria. Mol Microbiol (2006) 1.97

Crystal structures of truncated alphaA and alphaB crystallins reveal structural mechanisms of polydispersity important for eye lens function. Protein Sci (2010) 1.95

SAM domains: uniform structure, diversity of function. Trends Biochem Sci (2003) 1.94

Molecular mechanisms for protein-encoded inheritance. Nat Struct Mol Biol (2009) 1.94

Transmembrane glycine zippers: physiological and pathological roles in membrane proteins. Proc Natl Acad Sci U S A (2005) 1.90

Atomic structure of the cross-beta spine of islet amyloid polypeptide (amylin). Protein Sci (2008) 1.89

Deposition diseases and 3D domain swapping. Structure (2006) 1.88

Use of logic relationships to decipher protein network organization. Science (2004) 1.86

An amyloid-forming segment of beta2-microglobulin suggests a molecular model for the fibril. Proc Natl Acad Sci U S A (2004) 1.85

Transmembrane domain helix packing stabilizes integrin alphaIIbbeta3 in the low affinity state. J Biol Chem (2004) 1.84

GXXXG and AXXXA: common alpha-helical interaction motifs in proteins, particularly in extremophiles. Biochemistry (2002) 1.82

Genomic evidence that the intracellular proteins of archaeal microbes contain disulfide bonds. Proc Natl Acad Sci U S A (2002) 1.81

Molecular basis for amyloid-beta polymorphism. Proc Natl Acad Sci U S A (2011) 1.76

In silico simulation of biological network dynamics. Nat Biotechnol (2004) 1.74

GXXXG and GXXXA motifs stabilize FAD and NAD(P)-binding Rossmann folds through C(alpha)-H... O hydrogen bonds and van der waals interactions. J Mol Biol (2002) 1.74

The SAM domain of polyhomeotic forms a helical polymer. Nat Struct Biol (2002) 1.73

Use of genetic profiling in leprosy to discriminate clinical forms of the disease. Science (2003) 1.73

Bacterial inclusion bodies contain amyloid-like structure. PLoS Biol (2008) 1.63

A novel cytoplasmic tail MXXXL motif mediates the internalization of prostate-specific membrane antigen. Mol Biol Cell (2003) 1.60

Cross-beta order and diversity in nanocrystals of an amyloid-forming peptide. J Mol Biol (2003) 1.59

Derepression by depolymerization; structural insights into the regulation of Yan by Mae. Cell (2004) 1.59

Towards a pharmacophore for amyloid. PLoS Biol (2011) 1.58

Probing membrane protein unfolding with pulse proteolysis. J Mol Biol (2010) 1.58

The molecular basis of the Caskin1 and Mint1 interaction with CASK. J Mol Biol (2011) 1.56

Host-derived oxidized phospholipids and HDL regulate innate immunity in human leprosy. J Clin Invest (2008) 1.54

Toxic fibrillar oligomers of amyloid-β have cross-β structure. Proc Natl Acad Sci U S A (2012) 1.53

Crystallization of bacteriorhodopsin from bicelle formulations at room temperature. Protein Sci (2005) 1.52

Structure and proposed activity of a member of the VapBC family of toxin-antitoxin systems. VapBC-5 from Mycobacterium tuberculosis. J Biol Chem (2008) 1.49

A systematic screen of beta(2)-microglobulin and insulin for amyloid-like segments. Proc Natl Acad Sci U S A (2006) 1.49

Structural models of amyloid-like fibrils. Adv Protein Chem (2006) 1.49

The MiSink Plugin: Cytoscape as a graphical interface to the Database of Interacting Proteins. Bioinformatics (2007) 1.49

A double S shape provides the structural basis for the extraordinary binding specificity of Dscam isoforms. Cell (2008) 1.48

Molecular basis for insulin fibril assembly. Proc Natl Acad Sci U S A (2009) 1.47

Atomic structures of IAPP (amylin) fusions suggest a mechanism for fibrillation and the role of insulin in the process. Protein Sci (2009) 1.46

Seeded conversion of recombinant prion protein to a disulfide-bonded oligomer by a reduction-oxidation process. Nat Struct Biol (2003) 1.46

Microbes in the neonatal intensive care unit resemble those found in the gut of premature infants. Microbiome (2014) 1.45

Recurated protein interaction datasets. Nat Methods (2009) 1.43

A limited universe of membrane protein families and folds. Protein Sci (2006) 1.41

Out-of-register β-sheets suggest a pathway to toxic amyloid aggregates. Proc Natl Acad Sci U S A (2012) 1.39

Cooperative hydrogen bonding in amyloid formation. Protein Sci (2007) 1.33

HotPatch: a statistical approach to finding biologically relevant features on protein surfaces. J Mol Biol (2007) 1.32

Short protein segments can drive a non-fibrillizing protein into the amyloid state. Protein Eng Des Sel (2009) 1.31

Visualization and interpretation of protein networks in Mycobacterium tuberculosis based on hierarchical clustering of genome-wide functional linkage maps. Nucleic Acids Res (2003) 1.31

Granulysin crystal structure and a structure-derived lytic mechanism. J Mol Biol (2003) 1.30

Methods for measuring the thermodynamic stability of membrane proteins. Methods Enzymol (2009) 1.29

Snorkeling preferences foster an amino acid composition bias in transmembrane helices. J Mol Biol (2004) 1.29

The TB structural genomics consortium: providing a structural foundation for drug discovery. Curr Drug Targets Infect Disord (2002) 1.28

Post-translational modifications of integral membrane proteins resolved by top-down Fourier transform mass spectrometry with collisionally activated dissociation. Mol Cell Proteomics (2010) 1.28

Regulation of enzyme localization by polymerization: polymer formation by the SAM domain of diacylglycerol kinase delta1. Structure (2008) 1.28

Characteristics of amyloid-related oligomers revealed by crystal structures of macrocyclic β-sheet mimics. J Am Chem Soc (2011) 1.27

Multicopy crystallographic refinement of a relaxed glutamine synthetase from Mycobacterium tuberculosis highlights flexible loops in the enzymatic mechanism and its regulation. Biochemistry (2002) 1.27

Proline substitutions are not easily accommodated in a membrane protein. J Mol Biol (2004) 1.27

Structural organization of a Sex-comb-on-midleg/polyhomeotic copolymer. J Biol Chem (2005) 1.26

Glycoside hydrolase activities of thermophilic bacterial consortia adapted to switchgrass. Appl Environ Microbiol (2011) 1.26

Structures of the two 3D domain-swapped RNase A trimers. Protein Sci (2002) 1.24

β₂-microglobulin forms three-dimensional domain-swapped amyloid fibrils with disulfide linkages. Nat Struct Mol Biol (2010) 1.22