Published in Nat Methods on December 07, 2008
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Evidence for network evolution in an Arabidopsis interactome map. Science (2011) 5.57
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Independently evolved virulence effectors converge onto hubs in a plant immune system network. Science (2011) 3.72
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Next-generation sequencing to generate interactome datasets. Nat Methods (2011) 2.06
Protein interactome reveals converging molecular pathways among autism disorders. Sci Transl Med (2011) 2.04
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Improving the yeast two-hybrid system with permutated fusions proteins: the Varicella Zoster Virus interactome. Proteome Sci (2010) 1.58
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Kinase Substrate Sensor (KISS), a mammalian in situ protein interaction sensor. Mol Cell Proteomics (2014) 1.46
Benchmarking a luciferase complementation assay for detecting protein complexes. Nat Methods (2011) 1.44
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Enhanced yeast one-hybrid assays for high-throughput gene-centered regulatory network mapping. Nat Methods (2011) 1.41
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Building and analyzing protein interactome networks by cross-species comparisons. BMC Syst Biol (2010) 1.27
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Computational and informatics strategies for identification of specific protein interaction partners in affinity purification mass spectrometry experiments. Proteomics (2012) 1.21
Automated protein-DNA interaction screening of Drosophila regulatory elements. Nat Methods (2011) 1.21
Host-pathogen interactome mapping for HTLV-1 and -2 retroviruses. Retrovirology (2012) 1.16
Protein interaction network of alternatively spliced isoforms from brain links genetic risk factors for autism. Nat Commun (2014) 1.16
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Yeast one-hybrid assays for gene-centered human gene regulatory network mapping. Nat Methods (2011) 1.12
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Diversity in genetic in vivo methods for protein-protein interaction studies: from the yeast two-hybrid system to the mammalian split-luciferase system. Microbiol Mol Biol Rev (2012) 1.11
The evolutionary dynamics of protein-protein interaction networks inferred from the reconstruction of ancient networks. PLoS One (2013) 1.11
Enhanced Y1H assays for Arabidopsis. Nat Methods (2011) 1.10
Proteome-scale Binary Interactomics in Human Cells. Mol Cell Proteomics (2016) 1.07
In vivo analysis of proteomes and interactomes using Parallel Affinity Capture (iPAC) coupled to mass spectrometry. Mol Cell Proteomics (2011) 1.05
A benchmarked protein microarray-based platform for the identification of novel low-affinity extracellular protein interactions. Anal Biochem (2012) 1.04
Diverse protein kinase interactions identified by protein microarrays reveal novel connections between cellular processes. Genes Dev (2011) 1.03
A physical interaction network of dengue virus and human proteins. Mol Cell Proteomics (2011) 1.03
Widespread evidence of cooperative DNA binding by transcription factors in Drosophila development. Nucleic Acids Res (2013) 1.02
Intrinsic tethering activity of endosomal Rab proteins. Nat Struct Mol Biol (2011) 1.02
Proteome-wide protein interaction measurements of bacterial proteins of unknown function. Proc Natl Acad Sci U S A (2012) 1.02
In silico models of cancer. Wiley Interdiscip Rev Syst Biol Med (2010) 1.01
Identification of new protein interactions between dengue fever virus and its hosts, human and mosquito. PLoS One (2013) 1.01
Mammalian two-hybrids come of age. Trends Biochem Sci (2009) 1.01
Systems biology: Untangling the protein web. Nature (2009) 1.00
A genome-wide gene function prediction resource for Drosophila melanogaster. PLoS One (2010) 1.00
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iRefR: an R package to manipulate the iRefIndex consolidated protein interaction database. BMC Bioinformatics (2011) 0.99
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A systematic analysis of host factors reveals a Med23-interferon-λ regulatory axis against herpes simplex virus type 1 replication. PLoS Pathog (2013) 0.98
Screening for in planta protein-protein interactions combining bimolecular fluorescence complementation with flow cytometry. Plant Methods (2012) 0.97
In silico prediction of physical protein interactions and characterization of interactome orphans. Nat Methods (2014) 0.96
Phospho-tyrosine dependent protein-protein interaction network. Mol Syst Biol (2015) 0.96
Application of an integrated physical and functional screening approach to identify inhibitors of the Wnt pathway. Mol Syst Biol (2009) 0.94
SH3 interactome conserves general function over specific form. Mol Syst Biol (2013) 0.94
Proteomic approaches to the study of papillomavirus-host interactions. Virology (2013) 0.94
Fundamentals of protein interaction network mapping. Mol Syst Biol (2015) 0.93
Comparative analysis of virus-host interactomes with a mammalian high-throughput protein complementation assay based on Gaussia princeps luciferase. Methods (2012) 0.93
Structural bioinformatics of the interactome. Annu Rev Biophys (2014) 0.93
Interactome mapping of the phosphatidylinositol 3-kinase-mammalian target of rapamycin pathway identifies deformed epidermal autoregulatory factor-1 as a new glycogen synthase kinase-3 interactor. Mol Cell Proteomics (2010) 0.92
New insights into protein-protein interaction data lead to increased estimates of the S. cerevisiae interactome size. BMC Bioinformatics (2010) 0.92
Protein networks reveal detection bias and species consistency when analysed by information-theoretic methods. PLoS One (2010) 0.92
Building protein-protein interaction networks with proteomics and informatics tools. J Biol Chem (2011) 0.92
Global approaches to study protein-protein interactions among viruses and hosts. Future Microbiol (2010) 0.92
A computational framework for boosting confidence in high-throughput protein-protein interaction datasets. Genome Biol (2012) 0.92
Popular computational methods to assess multiprotein complexes derived from label-free affinity purification and mass spectrometry (AP-MS) experiments. Mol Cell Proteomics (2012) 0.92
Systematic prediction of human membrane receptor interactions. Proteomics (2009) 0.90
Merging and scoring molecular interactions utilising existing community standards: tools, use-cases and a case study. Database (Oxford) (2015) 0.88
Cross-species protein interactome mapping reveals species-specific wiring of stress response pathways. Sci Signal (2013) 0.88
SPOC1 modulates DNA repair by regulating key determinants of chromatin compaction and DNA damage response. Nucleic Acids Res (2012) 0.88
Quantitative maps of genetic interactions in yeast - comparative evaluation and integrative analysis. BMC Syst Biol (2011) 0.87
Predicting the fission yeast protein interaction network. G3 (Bethesda) (2012) 0.87
Dynamic circadian protein-protein interaction networks predict temporal organization of cellular functions. PLoS Genet (2013) 0.87
A yeast one-hybrid and microfluidics-based pipeline to map mammalian gene regulatory networks. Mol Syst Biol (2013) 0.86
A second-generation protein-protein interaction network of Helicobacter pylori. Mol Cell Proteomics (2014) 0.86
Beyond hairballs: The use of quantitative mass spectrometry data to understand protein-protein interactions. FEBS Lett (2012) 0.86
Exploration of binary virus-host interactions using an infectious protein complementation assay. Mol Cell Proteomics (2013) 0.86
AMPylation of Rho GTPases subverts multiple host signaling processes. J Biol Chem (2014) 0.85
Inter-Protein Sequence Co-Evolution Predicts Known Physical Interactions in Bacterial Ribosomes and the Trp Operon. PLoS One (2016) 0.85
An evolutionarily conserved innate immunity protein interaction network. J Biol Chem (2012) 0.85
Integrative computational biology for cancer research. Hum Genet (2011) 0.85
Diverse mechanisms of metaeffector activity in an intracellular bacterial pathogen, Legionella pneumophila. Mol Syst Biol (2016) 0.85
The functional landscape of Hsp27 reveals new cellular processes such as DNA repair and alternative splicing and proposes novel anticancer targets. Mol Cell Proteomics (2014) 0.84
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Towards a proteome-scale map of the human protein-protein interaction network. Nature (2005) 24.76
Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature (2006) 24.29
Comparative assessment of large-scale data sets of protein-protein interactions. Nature (2002) 24.25
The Database of Interacting Proteins: 2004 update. Nucleic Acids Res (2004) 23.67
Proteome survey reveals modularity of the yeast cell machinery. Nature (2006) 20.77
A human protein-protein interaction network: a resource for annotating the proteome. Cell (2005) 18.97
BIND: the Biomolecular Interaction Network Database. Nucleic Acids Res (2003) 18.75
A map of the interactome network of the metazoan C. elegans. Science (2004) 15.60
Human protein reference database--2006 update. Nucleic Acids Res (2006) 12.16
MINT: the Molecular INTeraction database. Nucleic Acids Res (2006) 11.90
High-quality binary protein interaction map of the yeast interactome network. Science (2008) 10.65
Protein interactions: two methods for assessment of the reliability of high throughput observations. Mol Cell Proteomics (2002) 8.11
High-throughput mapping of a dynamic signaling network in mammalian cells. Science (2005) 5.21
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The MIPS mammalian protein-protein interaction database. Bioinformatics (2004) 4.66
Literature-curated protein interaction datasets. Nat Methods (2009) 4.21
Consolidating the set of known human protein-protein interactions in preparation for large-scale mapping of the human interactome. Genome Biol (2005) 3.79
Evaluation of different biological data and computational classification methods for use in protein interaction prediction. Proteins (2006) 3.78
Human ORFeome version 1.1: a platform for reverse proteomics. Genome Res (2004) 3.36
High-throughput yeast two-hybrid assays for large-scale protein interaction mapping. Methods (2001) 3.09
Next-generation high-density self-assembling functional protein arrays. Nat Methods (2008) 2.46
Choosing negative examples for the prediction of protein-protein interactions. BMC Bioinformatics (2006) 2.36
Design and application of a cytokine-receptor-based interaction trap. Nat Cell Biol (2001) 2.17
A large-scale protein protein interaction analysis in Synechocystis sp. PCC6803. DNA Res (2007) 1.93
Increasing specificity in high-throughput yeast two-hybrid experiments. Methods (2004) 1.93
Capturing protein interactions in the secretory pathway of living cells. Proc Natl Acad Sci U S A (2005) 1.88
A map of human protein interactions derived from co-expression of human mRNAs and their orthologs. Mol Syst Biol (2008) 1.53
Coverage and error models of protein-protein interaction data by directed graph analysis. Genome Biol (2007) 1.15
Reverse MAPPIT detects disruptors of protein-protein interactions in human cells. Nat Protoc (2006) 1.13
Heteromeric MAPPIT: a novel strategy to study modification-dependent protein-protein interactions in mammalian cells. Nucleic Acids Res (2003) 0.97
Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature (2002) 37.66
The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature (2012) 31.78
Towards a proteome-scale map of the human protein-protein interaction network. Nature (2005) 24.76
Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature (2006) 24.29
Global mapping of the yeast genetic interaction network. Science (2004) 21.34
The human disease network. Proc Natl Acad Sci U S A (2007) 19.58
The genetic landscape of a cell. Science (2010) 16.52
The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data. Nat Biotechnol (2004) 16.08
A map of the interactome network of the metazoan C. elegans. Science (2004) 15.60
COT drives resistance to RAF inhibition through MAP kinase pathway reactivation. Nature (2010) 14.62
Characterizing gene sets with FuncAssociate. Bioinformatics (2003) 14.10
A mitochondrial protein compendium elucidates complex I disease biology. Cell (2008) 13.51
Evidence for dynamically organized modularity in the yeast protein-protein interaction network. Nature (2004) 13.27
A Bayesian networks approach for predicting protein-protein interactions from genomic data. Science (2003) 12.07
Drug-target network. Nat Biotechnol (2007) 11.15
High-quality binary protein interaction map of the yeast interactome network. Science (2008) 10.65
Genomic analysis of regulatory network dynamics reveals large topological changes. Nature (2004) 9.32
A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. Cell (2006) 8.61
The minimum information required for reporting a molecular interaction experiment (MIMIx). Nat Biotechnol (2007) 8.24
Beta-catenin and TCF mediate cell positioning in the intestinal epithelium by controlling the expression of EphB/ephrinB. Cell (2002) 8.08
Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions. BMC Biol (2007) 8.03
Distinct endocytic pathways regulate TGF-beta receptor signalling and turnover. Nat Cell Biol (2003) 7.74
Integrative genomic approaches identify IKBKE as a breast cancer oncogene. Cell (2007) 7.60
Functional genomics reveals a BMP-driven mesenchymal-to-epithelial transition in the initiation of somatic cell reprogramming. Cell Stem Cell (2010) 7.51
C. elegans ORFeome version 1.1: experimental verification of the genome annotation and resource for proteome-scale protein expression. Nat Genet (2003) 7.25
Interactome networks and human disease. Cell (2011) 7.16
Divergence of transcription factor binding sites across related yeast species. Science (2007) 7.10
Systematic discovery of in vivo phosphorylation networks. Cell (2007) 6.94
An empirical framework for binary interactome mapping. Nat Methods (2008) 6.59
PreBIND and Textomy--mining the biomedical literature for protein-protein interactions using a support vector machine. BMC Bioinformatics (2003) 6.31
Biochemical and genetic analysis of the yeast proteome with a movable ORF collection. Genes Dev (2005) 6.14
A global protein kinase and phosphatase interaction network in yeast. Science (2010) 5.95
Toward improving Caenorhabditis elegans phenome mapping with an ORFeome-based RNAi library. Genome Res (2004) 5.81
Signal transduction by the TGF-beta superfamily. Science (2002) 5.61
Dynamic modularity in protein interaction networks predicts breast cancer outcome. Nat Biotechnol (2009) 5.41
Dissecting virulence: systematic and functional analyses of a pathogenicity island. Proc Natl Acad Sci U S A (2004) 5.34
Annotation transfer between genomes: protein-protein interologs and protein-DNA regulogs. Genome Res (2004) 5.26
High-throughput mapping of a dynamic signaling network in mammalian cells. Science (2005) 5.21
Regulation of cell polarity and protrusion formation by targeting RhoA for degradation. Science (2003) 5.19
Histone recognition and large-scale structural analysis of the human bromodomain family. Cell (2012) 5.15
Quantitative phenotyping via deep barcode sequencing. Genome Res (2009) 5.13
A public genome-scale lentiviral expression library of human ORFs. Nat Methods (2011) 4.98
A physical and regulatory map of host-influenza interactions reveals pathways in H1N1 infection. Cell (2009) 4.98
BTB proteins are substrate-specific adaptors in an SCF-like modular ubiquitin ligase containing CUL-3. Nature (2003) 4.79
A critical assessment of Mus musculus gene function prediction using integrated genomic evidence. Genome Biol (2008) 4.78
Early lineage segregation between epiblast and primitive endoderm in mouse blastocysts through the Grb2-MAPK pathway. Dev Cell (2006) 4.77
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