Published in Microbiology on August 01, 2007
A Bayesian networks approach for predicting protein-protein interactions from genomic data. Science (2003) 12.07
Exploration of the function and organization of the yeast early secretory pathway through an epistatic miniarray profile. Cell (2005) 10.41
Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map. Nature (2007) 9.25
Toward a comprehensive atlas of the physical interactome of Saccharomyces cerevisiae. Mol Cell Proteomics (2007) 7.93
Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex. Cell (2005) 7.21
Exploration of essential gene functions via titratable promoter alleles. Cell (2004) 5.21
The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II. Nature (2004) 4.65
Bre1, an E3 ubiquitin ligase required for recruitment and substrate selection of Rad6 at a promoter. Mol Cell (2003) 4.49
A strategy for extracting and analyzing large-scale quantitative epistatic interaction data. Genome Biol (2006) 4.49
Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast. Science (2008) 4.36
A phosphatase complex that dephosphorylates gammaH2AX regulates DNA damage checkpoint recovery. Nature (2005) 4.33
Host cell factors in HIV replication: meta-analysis of genome-wide studies. PLoS Pathog (2009) 4.24
INO80 and gamma-H2AX interaction links ATP-dependent chromatin remodeling to DNA damage repair. Cell (2004) 4.20
Rewiring of genetic networks in response to DNA damage. Science (2010) 4.03
A comprehensive strategy enabling high-resolution functional analysis of the yeast genome. Nat Methods (2008) 3.79
Differential network biology. Mol Syst Biol (2012) 3.74
Global landscape of HIV-human protein complexes. Nature (2011) 3.70
Phenotypic landscape of a bacterial cell. Cell (2010) 3.50
Transitions in RNA polymerase II elongation complexes at the 3' ends of genes. EMBO J (2004) 3.50
Learning a prior on regulatory potential from eQTL data. PLoS Genet (2009) 3.31
High-throughput genetic interaction mapping in the fission yeast Schizosaccharomyces pombe. Nat Methods (2007) 3.24
Histone H2B ubiquitylation is associated with elongating RNA polymerase II. Mol Cell Biol (2005) 3.20
High-throughput, quantitative analyses of genetic interactions in E. coli. Nat Methods (2008) 3.17
Functional organization of the S. cerevisiae phosphorylation network. Cell (2009) 3.15
A panoramic view of yeast noncoding RNA processing. Cell (2003) 3.11
Functional targeting of DNA damage to a nuclear pore-associated SUMO-dependent ubiquitin ligase. Science (2008) 3.09
A genetic interaction map of RNA-processing factors reveals links between Sem1/Dss1-containing complexes and mRNA export and splicing. Mol Cell (2008) 2.96
A gene ontology inferred from molecular networks. Nat Biotechnol (2013) 2.95
SNX27 mediates retromer tubule entry and endosome-to-plasma membrane trafficking of signalling receptors. Nat Cell Biol (2011) 2.92
HIV-1 Tat and host AFF4 recruit two transcription elongation factors into a bifunctional complex for coordinated activation of HIV-1 transcription. Mol Cell (2010) 2.91
Systematic functional prioritization of protein posttranslational modifications. Cell (2012) 2.78
Vif hijacks CBF-β to degrade APOBEC3G and promote HIV-1 infection. Nature (2011) 2.71
A genome-wide screen identifies the evolutionarily conserved KEOPS complex as a telomere regulator. Cell (2006) 2.71
IFI16 DNA sensor is required for death of lymphoid CD4 T cells abortively infected with HIV. Science (2013) 2.68
Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species. PLoS Biol (2009) 2.67
HIV Nef is secreted in exosomes and triggers apoptosis in bystander CD4+ T cells. Traffic (2010) 2.47
Functional maps of protein complexes from quantitative genetic interaction data. PLoS Comput Biol (2008) 2.46
The Saccharomyces cerevisiae histone H2A variant Htz1 is acetylated by NuA4. Genes Dev (2006) 2.42
BUR kinase selectively regulates H3 K4 trimethylation and H2B ubiquitylation through recruitment of the PAF elongation complex. Curr Biol (2005) 2.32
H2B ubiquitylation acts as a barrier to Ctk1 nucleosomal recruitment prior to removal by Ubp8 within a SAGA-related complex. Mol Cell (2007) 2.32
Functional overlap and regulatory links shape genetic interactions between signaling pathways. Cell (2010) 2.29
Co-translational mRNA decay in Saccharomyces cerevisiae. Nature (2009) 2.29
Chaperone control of the activity and specificity of the histone H3 acetyltransferase Rtt109. Mol Cell Biol (2008) 2.05
Hierarchical modularity and the evolution of genetic interactomes across species. Mol Cell (2012) 1.88
From structure to systems: high-resolution, quantitative genetic analysis of RNA polymerase II. Cell (2013) 1.87
The ctf13-30/CTF13 genomic haploinsufficiency modifier screen identifies the yeast chromatin remodeling complex RSC, which is required for the establishment of sister chromatid cohesion. Mol Cell Biol (2004) 1.87
H2B ubiquitin protease Ubp8 and Sgf11 constitute a discrete functional module within the Saccharomyces cerevisiae SAGA complex. Mol Cell Biol (2005) 1.82
GammaH2AX and its role in DNA double-strand break repair. Biochem Cell Biol (2006) 1.81
Ubiquitination screen using protein microarrays for comprehensive identification of Rsp5 substrates in yeast. Mol Syst Biol (2007) 1.79
Dissection of DNA damage responses using multiconditional genetic interaction maps. Mol Cell (2012) 1.78
Polycomb-like 2 associates with PRC2 and regulates transcriptional networks during mouse embryonic stem cell self-renewal and differentiation. Cell Stem Cell (2010) 1.74
Quantitative genetic-interaction mapping in mammalian cells. Nat Methods (2013) 1.68
Backup without redundancy: genetic interactions reveal the cost of duplicate gene loss. Mol Syst Biol (2007) 1.67
Chromatin Central: towards the comparative proteome by accurate mapping of the yeast proteomic environment. Genome Biol (2008) 1.65
Quantitative genetic interactions reveal biological modularity. Cell (2010) 1.64
Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation. Nat Methods (2013) 1.60
Decapping of long noncoding RNAs regulates inducible genes. Mol Cell (2012) 1.57
Maintenance of low histone ubiquitylation by Ubp10 correlates with telomere-proximal Sir2 association and gene silencing. Mol Cell (2005) 1.51
A plasma-membrane E-MAP reveals links of the eisosome with sphingolipid metabolism and endosomal trafficking. Nat Struct Mol Biol (2010) 1.44
A complex-based reconstruction of the Saccharomyces cerevisiae interactome. Mol Cell Proteomics (2009) 1.42
Mec1/Tel1 phosphorylation of the INO80 chromatin remodeling complex influences DNA damage checkpoint responses. Cell (2007) 1.41
A single SR-like protein, Npl3, promotes pre-mRNA splicing in budding yeast. Mol Cell (2008) 1.36
Microtubule disruption stimulates P-body formation. RNA (2007) 1.35
Quantitative genetic interaction mapping using the E-MAP approach. Methods Enzymol (2010) 1.35
Inhibition of RNA lariat debranching enzyme suppresses TDP-43 toxicity in ALS disease models. Nat Genet (2012) 1.31
Evolution and functional cross-talk of protein post-translational modifications. Mol Syst Biol (2013) 1.30
CCR4/NOT complex associates with the proteasome and regulates histone methylation. Proc Natl Acad Sci U S A (2007) 1.30
Cross-species chemogenomic profiling reveals evolutionarily conserved drug mode of action. Mol Syst Biol (2010) 1.30
First-in-class small molecule inhibitors of the single-strand DNA cytosine deaminase APOBEC3G. ACS Chem Biol (2012) 1.28
Host cell interactome of HIV-1 Rev includes RNA helicases involved in multiple facets of virus production. Mol Cell Proteomics (2011) 1.28
An acetylated form of histone H2A.Z regulates chromosome architecture in Schizosaccharomyces pombe. Nat Struct Mol Biol (2009) 1.27
Purification and characterization of HIV-human protein complexes. Methods (2010) 1.26
Eisosome proteins assemble into a membrane scaffold. J Cell Biol (2011) 1.24
CBFβ stabilizes HIV Vif to counteract APOBEC3 at the expense of RUNX1 target gene expression. Mol Cell (2013) 1.23
Genome-wide association data reveal a global map of genetic interactions among protein complexes. PLoS Genet (2009) 1.23
The RNA polymerase II kinase Ctk1 regulates positioning of a 5' histone methylation boundary along genes. Mol Cell Biol (2006) 1.19
Crystal structure of the tetrameric cytidine deaminase from Bacillus subtilis at 2.0 A resolution. Biochemistry (2002) 1.15
Nonsense-mediated mRNA decay in yeast does not require PAB1 or a poly(A) tail. Mol Cell (2008) 1.14
Systems-level analyses identify extensive coupling among gene expression machines. Mol Syst Biol (2006) 1.12
Yeast SREBP cleavage activation requires the Golgi Dsc E3 ligase complex. Mol Cell (2011) 1.11
HIV-1 Tat recruits transcription elongation factors dispersed along a flexible AFF4 scaffold. Proc Natl Acad Sci U S A (2012) 1.08
The AFF4 scaffold binds human P-TEFb adjacent to HIV Tat. Elife (2013) 1.08
From information to knowledge: new technologies for defining gene function. Nat Methods (2009) 1.06
Epistatic relationships reveal the functional organization of yeast transcription factors. Mol Syst Biol (2010) 1.05
AFF1 is a ubiquitous P-TEFb partner to enable Tat extraction of P-TEFb from 7SK snRNP and formation of SECs for HIV transactivation. Proc Natl Acad Sci U S A (2013) 1.04
Nonsense-mediated mRNA decapping occurs on polyribosomes in Saccharomyces cerevisiae. Nat Struct Mol Biol (2010) 1.04
GPS-Prot: a web-based visualization platform for integrating host-pathogen interaction data. BMC Bioinformatics (2011) 1.03
Inhibition of a NEDD8 Cascade Restores Restriction of HIV by APOBEC3G. PLoS Pathog (2012) 1.02
A lipid E-MAP identifies Ubx2 as a critical regulator of lipid saturation and lipid bilayer stress. Mol Cell (2013) 1.02
Identification and characterization of Elf1, a conserved transcription elongation factor in Saccharomyces cerevisiae. Mol Cell Biol (2005) 1.02
The yeast SR-like protein Npl3 links chromatin modification to mRNA processing. PLoS Genet (2012) 1.01
Systematic characterization of the protein interaction network and protein complexes in Saccharomyces cerevisiae using tandem affinity purification and mass spectrometry. Methods Mol Biol (2009) 1.00
High-resolution network biology: connecting sequence with function. Nat Rev Genet (2013) 0.99
RNA polymerase II carboxyl-terminal domain phosphorylation regulates protein stability of the Set2 methyltransferase and histone H3 di- and trimethylation at lysine 36. J Biol Chem (2011) 0.96
A systematic characterization of Cwc21, the yeast ortholog of the human spliceosomal protein SRm300. RNA (2009) 0.94
Interaction of Fcp1 phosphatase with elongating RNA polymerase II holoenzyme, enzymatic mechanism of action, and genetic interaction with elongator. J Biol Chem (2004) 0.94
The next frontier of systems biology: higher-order and interspecies interactions. Genome Biol (2010) 0.93
An rtt109-independent role for vps75 in transcription-associated nucleosome dynamics. Mol Cell Biol (2009) 0.93
Towards accurate imputation of quantitative genetic interactions. Genome Biol (2009) 0.93
Crystal structure of StaL, a glycopeptide antibiotic sulfotransferase from Streptomyces toyocaensis. J Biol Chem (2007) 0.93