Published in Anal Chem on August 01, 2009
A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas. Mol Cell Proteomics (2011) 3.37
Identification of neuronal RNA targets of TDP-43-containing ribonucleoprotein complexes. J Biol Chem (2010) 2.72
Linking H3K79 trimethylation to Wnt signaling through a novel Dot1-containing complex (DotCom). Genes Dev (2010) 2.53
Degradation of Cep68 and PCNT cleavage mediate Cep215 removal from the PCM to allow centriole separation, disengagement and licensing. Nat Cell Biol (2014) 1.55
Liquid chromatography-mass spectrometry-based quantitative proteomics. J Biol Chem (2011) 1.30
The plasma membrane of the cyanobacterium Gloeobacter violaceus contains segregated bioenergetic domains. Plant Cell (2011) 1.06
Assessment of resolution parameters for CID-based shotgun proteomic experiments on the LTQ-Orbitrap mass spectrometer. J Am Soc Mass Spectrom (2010) 1.05
Improving proteome coverage on a LTQ-Orbitrap using design of experiments. J Am Soc Mass Spectrom (2011) 1.04
Evaluation and optimization of mass spectrometric settings during data-dependent acquisition mode: focus on LTQ-Orbitrap mass analyzers. J Proteome Res (2013) 0.93
Glycoprotein profiles of human breast cells demonstrate a clear clustering of normal/benign versus malignant cell lines and basal versus luminal cell lines. J Proteome Res (2011) 0.93
Proteomic analysis of the extracellular matrix produced by mesenchymal stromal cells: implications for cell therapy mechanism. PLoS One (2013) 0.90
Liquid Chromatography Mass Spectrometry-Based Proteomics: Biological and Technological Aspects. Ann Appl Stat (2010) 0.90
Quantitative proteomics demonstrates that the RNA polymerase II subunits Rpb4 and Rpb7 dissociate during transcriptional elongation. Mol Cell Proteomics (2013) 0.90
Structural analyses of the chromatin remodelling enzymes INO80-C and SWR-C. Nat Commun (2015) 0.90
Comparative label-free LC-MS/MS analysis of colorectal adenocarcinoma and metastatic cells treated with 5-fluorouracil. Proteomics (2012) 0.87
Discontinuous pH gradient-mediated separation of TiO2-enriched phosphopeptides. Anal Biochem (2010) 0.86
Transphosphorylation of E. coli Proteins during Production of Recombinant Protein Kinases Provides a Robust System to Characterize Kinase Specificity. Front Plant Sci (2012) 0.85
A bayesian mixture model for comparative spectral count data in shotgun proteomics. Mol Cell Proteomics (2011) 0.84
A proteomics view of the molecular mechanisms and biomarkers of glaucomatous neurodegeneration. Prog Retin Eye Res (2013) 0.83
Cleaning up the masses: exclusion lists to reduce contamination with HPLC-MS/MS. J Proteomics (2013) 0.83
Cyclin-dependent kinase-mediated Sox2 phosphorylation enhances the ability of Sox2 to establish the pluripotent state. J Biol Chem (2015) 0.82
The spectra count label-free quantitation in cancer proteomics. Cancer Genomics Proteomics (2012) 0.81
Quantitative proteomics reveals the effect of protein glycosylation in soybean root under flooding stress. Front Plant Sci (2014) 0.80
Overcoming challenges and opening new opportunities in glycoproteomics. Biomolecules (2013) 0.80
Shotgun Proteomics of Tomato Fruits: Evaluation, Optimization and Validation of Sample Preparation Methods and Mass Spectrometric Parameters. Front Plant Sci (2016) 0.80
Proteomic profiling of the effect of metabolic acidosis on the apical membrane of the proximal convoluted tubule. Am J Physiol Renal Physiol (2012) 0.80
Optimization of data-dependent acquisition parameters for coupling high-speed separations with LC-MS/MS for protein identifications. J Biomol Tech (2013) 0.79
Using a cell line breast cancer progression system to identify biomarker candidates. J Proteomics (2013) 0.79
Gel-free proteomic analysis of soybean root proteins affected by calcium under flooding stress. Front Plant Sci (2014) 0.76
Conservation and divergence within the clathrin interactome of Trypanosoma cruzi. Sci Rep (2016) 0.76
Proteome Analysis of Ground State Pluripotency. Sci Rep (2015) 0.76
Binary stress induces an increase in indole alkaloid biosynthesis in Catharanthus roseus. Front Plant Sci (2015) 0.76
Fast MS/MS acquisition without dynamic exclusion enables precise and accurate quantification of proteome by MS/MS fragment intensity. Sci Rep (2016) 0.75
A multi-model statistical approach for proteomic spectral count quantitation. J Proteomics (2016) 0.75
Human Sirtuin 2 Localization, Transient Interactions, and Impact on the Proteome Point to Its Role in Intracellular Trafficking. Mol Cell Proteomics (2016) 0.75
Quantitative analysis of global phosphorylation changes with high-resolution tandem mass spectrometry and stable isotopic labeling. Methods (2013) 0.75
Global Proteome and Phospho-proteome Analysis of Merlin-deficient Meningioma and Schwannoma Identifies PDLIM2 as a Novel Therapeutic Target. EBioMedicine (2017) 0.75
Metabolic profiles of flooding-tolerant mechanism in early-stage soybean responding to initial stress. Plant Mol Biol (2017) 0.75
Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription. Cell (2005) 10.68
A proteomic view of the Plasmodium falciparum life cycle. Nature (2002) 10.65
Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii. Nature (2002) 8.92
Vpx relieves inhibition of HIV-1 infection of macrophages mediated by the SAMHD1 protein. Nature (2011) 7.92
Statistical analysis of membrane proteome expression changes in Saccharomyces cerevisiae. J Proteome Res (2006) 6.43
A comprehensive survey of the Plasmodium life cycle by genomic, transcriptomic, and proteomic analyses. Science (2005) 5.99
AFF4, a component of the ELL/P-TEFb elongation complex and a shared subunit of MLL chimeras, can link transcription elongation to leukemia. Mol Cell (2010) 4.99
Acetylation by Tip60 is required for selective histone variant exchange at DNA lesions. Science (2004) 4.97
Histone crosstalk between H2B monoubiquitination and H3 methylation mediated by COMPASS. Cell (2007) 4.49
Correlation of relative abundance ratios derived from peptide ion chromatograms and spectrum counting for quantitative proteomic analysis using stable isotope labeling. Anal Chem (2005) 4.16
Aneuploidy confers quantitative proteome changes and phenotypic variation in budding yeast. Nature (2010) 3.72
Quantitative proteomic analysis of distinct mammalian Mediator complexes using normalized spectral abundance factors. Proc Natl Acad Sci U S A (2006) 3.71
Nuclear membrane proteins with potential disease links found by subtractive proteomics. Science (2003) 3.64
Global analysis of transcript and protein levels across the Plasmodium falciparum life cycle. Genome Res (2004) 3.63
Analyzing chromatin remodeling complexes using shotgun proteomics and normalized spectral abundance factors. Methods (2006) 3.37
A set of consensus mammalian mediator subunits identified by multidimensional protein identification technology. Mol Cell (2004) 3.34
Lentiviral Vpx accessory factor targets VprBP/DCAF1 substrate adaptor for cullin 4 E3 ubiquitin ligase to enable macrophage infection. PLoS Pathog (2008) 3.27
Probabilistic assembly of human protein interaction networks from label-free quantitative proteomics. Proc Natl Acad Sci U S A (2008) 3.23
Proteasome recruitment and activation of the Uch37 deubiquitinating enzyme by Adrm1. Nat Cell Biol (2006) 3.14
Refinements to label free proteome quantitation: how to deal with peptides shared by multiple proteins. Anal Chem (2010) 3.07
Poly(ADP-ribosyl)ation directs recruitment and activation of an ATP-dependent chromatin remodeler. Proc Natl Acad Sci U S A (2009) 3.02
Molecular regulation of histone H3 trimethylation by COMPASS and the regulation of gene expression. Mol Cell (2005) 2.89
Scm3 is essential to recruit the histone h3 variant cse4 to centromeres and to maintain a functional kinetochore. Mol Cell (2007) 2.82
Evolutionarily conserved multisubunit RBL2/p130 and E2F4 protein complex represses human cell cycle-dependent genes in quiescence. Mol Cell (2007) 2.74
Proteomic analysis by multidimensional protein identification technology. Methods Mol Biol (2006) 2.69
Lentiviral Vpr usurps Cul4-DDB1[VprBP] E3 ubiquitin ligase to modulate cell cycle. Proc Natl Acad Sci U S A (2007) 2.64
Human mediator subunit MED26 functions as a docking site for transcription elongation factors. Cell (2011) 2.53
Linking H3K79 trimethylation to Wnt signaling through a novel Dot1-containing complex (DotCom). Genes Dev (2010) 2.53
Cytoskeletal components of an invasion machine--the apical complex of Toxoplasma gondii. PLoS Pathog (2006) 2.43
Identification of Plasmodium falciparum antigens by antigenic analysis of genomic and proteomic data. Proc Natl Acad Sci U S A (2003) 2.38
Chromatin remodelers Isw1 and Chd1 maintain chromatin structure during transcription by preventing histone exchange. Nat Struct Mol Biol (2012) 2.37
Molecular regulation of H3K4 trimethylation by Wdr82, a component of human Set1/COMPASS. Mol Cell Biol (2008) 2.34
Proteomic survey of metabolic pathways in rice. Proc Natl Acad Sci U S A (2002) 2.27
Subunit composition and substrate specificity of a MOF-containing histone acetyltransferase distinct from the male-specific lethal (MSL) complex. J Biol Chem (2009) 2.23
SCF(Cyclin F) controls centrosome homeostasis and mitotic fidelity through CP110 degradation. Nature (2010) 2.15
A mammalian chromatin remodeling complex with similarities to the yeast INO80 complex. J Biol Chem (2005) 2.10
Statistical similarities between transcriptomics and quantitative shotgun proteomics data. Mol Cell Proteomics (2007) 2.05
Cyclin F-mediated degradation of ribonucleotide reductase M2 controls genome integrity and DNA repair. Cell (2012) 1.98
The deubiquitylation activity of Ubp8 is dependent upon Sgf11 and its association with the SAGA complex. Mol Cell Biol (2005) 1.95
The mammalian YL1 protein is a shared subunit of the TRRAP/TIP60 histone acetyltransferase and SRCAP complexes. J Biol Chem (2005) 1.93
ATAC is a double histone acetyltransferase complex that stimulates nucleosome sliding. Nat Struct Mol Biol (2008) 1.90
Parallel identification of new genes in Saccharomyces cerevisiae. Genome Res (2002) 1.89
Characterization of Cullin-box sequences that direct recruitment of Cul2-Rbx1 and Cul5-Rbx2 modules to Elongin BC-based ubiquitin ligases. J Biol Chem (2008) 1.82
DYRK1A protein kinase promotes quiescence and senescence through DREAM complex assembly. Genes Dev (2011) 1.82
Purification of a human SRCAP complex that remodels chromatin by incorporating the histone variant H2A.Z into nucleosomes. Biochemistry (2006) 1.81
YY1 functions with INO80 to activate transcription. Nat Struct Mol Biol (2007) 1.79
Delayed correlation of mRNA and protein expression in rapamycin-treated cells and a role for Ggc1 in cellular sensitivity to rapamycin. Mol Cell Proteomics (2009) 1.76
Distinct modes of regulation of the Uch37 deubiquitinating enzyme in the proteasome and in the Ino80 chromatin-remodeling complex. Mol Cell (2008) 1.71
Rtr1 is a CTD phosphatase that regulates RNA polymerase II during the transition from serine 5 to serine 2 phosphorylation. Mol Cell (2009) 1.68
Stable incorporation of sequence specific repressors Ash1 and Ume6 into the Rpd3L complex. Biochim Biophys Acta (2005) 1.66
Psh1 is an E3 ubiquitin ligase that targets the centromeric histone variant Cse4. Mol Cell (2010) 1.62
Host cell factor and an uncharacterized SANT domain protein are stable components of ATAC, a novel dAda2A/dGcn5-containing histone acetyltransferase complex in Drosophila. Mol Cell Biol (2006) 1.60
The HIR corepressor complex binds to nucleosomes generating a distinct protein/DNA complex resistant to remodeling by SWI/SNF. Genes Dev (2005) 1.57
Protein sequencing by mass analysis of polypeptide ladders after controlled protein hydrolysis. Nat Biotechnol (2004) 1.56
Glial membranes at the node of Ranvier prevent neurite outgrowth. Science (2005) 1.55
The COMPASS family of H3K4 methylases in Drosophila. Mol Cell Biol (2011) 1.54
Ctk complex-mediated regulation of histone methylation by COMPASS. Mol Cell Biol (2006) 1.50
A Plasmodium gene family encoding Maurer's cleft membrane proteins: structural properties and expression profiling. Genome Res (2004) 1.49