Published in Mol Cell Proteomics on December 26, 2003
Enhanced photosynthesis and redox energy production contribute to salinity tolerance in Dunaliella as revealed by homology-based proteomics. Plant Physiol (2004) 1.29
Behavioural manipulation in a grasshopper harbouring hairworm: a proteomics approach. Proc Biol Sci (2005) 1.25
An iterative workflow for mining the human intestinal metaproteome. BMC Genomics (2011) 1.25
De novo sequencing and homology searching. Mol Cell Proteomics (2011) 1.21
Metaproteomic analysis of Chesapeake Bay microbial communities. Saline Systems (2005) 1.13
A proteomic fingerprint of dissolved organic carbon and of soil particles. Oecologia (2004) 1.11
Comparative metaproteomic analysis on consecutively Rehmannia glutinosa-monocultured rhizosphere soil. PLoS One (2011) 1.11
Separating the wheat from the chaff: unbiased filtering of background tandem mass spectra improves protein identification. J Proteome Res (2008) 1.10
Computational methods for protein identification from mass spectrometry data. PLoS Comput Biol (2008) 1.10
Proteome profiling of Populus euphratica Oliv. upon heat stress. Ann Bot (2006) 1.05
Identification of glycosylated marker proteins of epithelial polarity in MDCK cells by homology driven proteomics. BMC Biochem (2006) 1.01
Advanced identification of proteins in uncharacterized proteomes by pulsed in vivo stable isotope labeling-based mass spectrometry. Mol Cell Proteomics (2010) 1.00
Ontogenetic variations in the venom proteome of the Amazonian snake Bothrops atrox. Proteome Sci (2006) 1.00
An ovary transcriptome for all maturational stages of the striped bass (Morone saxatilis), a highly advanced perciform fish. BMC Res Notes (2012) 0.98
Xenopus meiotic microtubule-associated interactome. PLoS One (2010) 0.97
Protein identification pipeline for the homology-driven proteomics. J Proteomics (2008) 0.96
Comparative proteomics using 2-D gel electrophoresis and mass spectrometry as tools to dissect stimulons and regulons in bacteria with sequenced or partially sequenced genomes. Biol Proced Online (2005) 0.95
Sialome of a generalist lepidopteran herbivore: identification of transcripts and proteins from Helicoverpa armigera labial salivary glands. PLoS One (2011) 0.92
Tools for exploring the proteomosphere. J Proteomics (2009) 0.90
Physiological and proteomic analyses of salt stress response in the halophyte Halogeton glomeratus. Plant Cell Environ (2014) 0.88
An empirical strategy for characterizing bacterial proteomes across species in the absence of genomic sequences. PLoS One (2010) 0.87
Homology-Driven Proteomics of Dinoflagellates with Unsequenced Genomes Using MALDI-TOF/TOF and Automated De Novo Sequencing. Evid Based Complement Alternat Med (2011) 0.86
Overcoming species boundaries in peptide identification with Bayesian information criterion-driven error-tolerant peptide search (BICEPS). Mol Cell Proteomics (2012) 0.84
Purification and mass spectrometry identification of microtubule-binding proteins from Xenopus egg extracts. Methods Mol Med (2007) 0.84
Proteomics with a pinch of salt: a cyanobacterial perspective. Saline Systems (2008) 0.84
Do distantly related parasites rely on the same proximate factors to alter the behaviour of their hosts? Proc Biol Sci (2006) 0.82
Morphology and histochemistry of the aesthetasc-associated epidermal glands in terrestrial hermit crabs of the genus Coenobita (Decapoda: Paguroidea). PLoS One (2014) 0.82
Biochemical Composition and Assembly of Biosilica-associated Insoluble Organic Matrices from the Diatom Thalassiosira pseudonana. J Biol Chem (2015) 0.78
Simplified validation of borderline hits of database searches. Proteomics (2008) 0.78
Charting the proteome of Cryptosporidium parvum sporozoites using sequence similarity-based BLAST searching. J Vet Sci (2009) 0.78
Proteome analysis of a recombinant Bacillus megaterium strain during heterologous production of a glucosyltransferase. Proteome Sci (2005) 0.78
Multi-species Identification of Polymorphic Peptide Variants via Propagation in Spectral Networks. Mol Cell Proteomics (2016) 0.77
Application of proteomics to the study of pollination drops. Appl Plant Sci (2013) 0.76
Effects of seasonal adiposity on ovarian activity of Vespertilionid bat, Scotophilus heathi: proteomics analysis. Mol Cell Endocrinol (2014) 0.75
Proteomic analysis of Chromobacterium violaceum and its adaptability to stress. BMC Microbiol (2015) 0.75
Functional Promiscuity of Two Divergent Paralogs of Type III Plant Polyketide Synthases. Plant Physiol (2016) 0.75
OpenKnowledge for peer-to-peer experimentation in protein identification by MS/MS. Autom Exp (2011) 0.75
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
Human non-synonymous SNPs: server and survey. Nucleic Acids Res (2002) 50.45
Evolution and functional impact of rare coding variation from deep sequencing of human exomes. Science (2012) 17.12
Patterns and rates of exonic de novo mutations in autism spectrum disorders. Nature (2012) 13.71
Medical sequencing at the extremes of human body mass. Am J Hum Genet (2007) 5.61
Global analysis of the yeast lipidome by quantitative shotgun mass spectrometry. Proc Natl Acad Sci U S A (2009) 4.13
Lipid extraction by methyl-tert-butyl ether for high-throughput lipidomics. J Lipid Res (2008) 3.96
Resistance of cell membranes to different detergents. Proc Natl Acad Sci U S A (2003) 3.57
A genome-scale RNAi screen for Oct4 modulators defines a role of the Paf1 complex for embryonic stem cell identity. Cell Stem Cell (2009) 3.55
Orm family proteins mediate sphingolipid homeostasis. Nature (2010) 3.29
KNL-1 directs assembly of the microtubule-binding interface of the kinetochore in C. elegans. Genes Dev (2003) 3.29
Dobzhansky-Muller incompatibilities in protein evolution. Proc Natl Acad Sci U S A (2002) 3.19
Automated identification and quantification of glycerophospholipid molecular species by multiple precursor ion scanning. Anal Chem (2006) 3.01
A universal trend of amino acid gain and loss in protein evolution. Nature (2005) 2.81
Adaptation of a DNA replication checkpoint response depends upon inactivation of Claspin by the Polo-like kinase. Cell (2004) 2.75
Widely distributed noncoding purifying selection in the human genome. Proc Natl Acad Sci U S A (2007) 2.71
Increase of functional diversity by alternative splicing. Trends Genet (2003) 2.59
Extremely low-coverage sequencing and imputation increases power for genome-wide association studies. Nat Genet (2012) 2.50
Segregation of sphingolipids and sterols during formation of secretory vesicles at the trans-Golgi network. J Cell Biol (2009) 2.38
Proteomics of early zebrafish embryos. BMC Dev Biol (2006) 2.36
Transcription control by E1A and MAP kinase pathway via Sur2 mediator subunit. Science (2002) 2.33
Fast-response proteomics by accelerated in-gel digestion of proteins. Anal Chem (2003) 2.32
Computational and statistical approaches to analyzing variants identified by exome sequencing. Genome Biol (2011) 2.32
Analysis of the adenovirus E1B-55K-anchored proteome reveals its link to ubiquitination machinery. J Virol (2002) 2.31
Polyene-lipids: a new tool to image lipids. Nat Methods (2004) 2.30
Sequencing studies in human genetics: design and interpretation. Nat Rev Genet (2013) 2.27
The histone 3 lysine 36 methyltransferase, SET2, is involved in transcriptional elongation. Nucleic Acids Res (2003) 2.20
Lipid profiling by multiple precursor and neutral loss scanning driven by the data-dependent acquisition. Anal Chem (2006) 2.14
Treslin collaborates with TopBP1 in triggering the initiation of DNA replication. Cell (2010) 2.06
A model for statistical significance of local similarities in structure. J Mol Biol (2003) 2.01
Analysis of sequence conservation at nucleotide resolution. PLoS Comput Biol (2007) 2.01
Progressive multifocal leukoencephalopathy (PML) development is associated with mutations in JC virus capsid protein VP1 that change its receptor specificity. J Infect Dis (2011) 1.96
Quantitative profiling of phospholipids by multiple precursor ion scanning on a hybrid quadrupole time-of-flight mass spectrometer. Anal Chem (2002) 1.96
Membrane lipidome of an epithelial cell line. Proc Natl Acad Sci U S A (2011) 1.87
Top-down lipidomic screens by multivariate analysis of high-resolution survey mass spectra. Anal Chem (2007) 1.85
Accumulation of raft lipids in T-cell plasma membrane domains engaged in TCR signalling. EMBO J (2009) 1.84
Charting molecular composition of phosphatidylcholines by fatty acid scanning and ion trap MS3 fragmentation. J Lipid Res (2003) 1.83
The CCT chaperonin promotes activation of the anaphase-promoting complex through the generation of functional Cdc20. Mol Cell (2003) 1.81
A genome-scale DNA repair RNAi screen identifies SPG48 as a novel gene associated with hereditary spastic paraplegia. PLoS Biol (2010) 1.77
Mcm2 is a direct substrate of ATM and ATR during DNA damage and DNA replication checkpoint responses. J Biol Chem (2004) 1.76
Uncoupling of unwinding from DNA synthesis implies regulation of MCM helicase by Tof1/Mrc1/Csm3 checkpoint complex. J Mol Biol (2005) 1.74
Small fitness effect of mutations in highly conserved non-coding regions. Hum Mol Genet (2005) 1.73
Top-down lipidomics reveals ether lipid deficiency in blood plasma of hypertensive patients. PLoS One (2009) 1.71
Protein interactions within the Set1 complex and their roles in the regulation of histone 3 lysine 4 methylation. J Biol Chem (2006) 1.67
Chromatin Central: towards the comparative proteome by accurate mapping of the yeast proteomic environment. Genome Biol (2008) 1.65
Dbf4-dependent CDC7 kinase links DNA replication to the segregation of homologous chromosomes in meiosis I. Cell (2008) 1.63
Ataxia-telangiectasia mutated (ATM)-dependent activation of ATR occurs through phosphorylation of TopBP1 by ATM. J Biol Chem (2007) 1.61
A novel informatics concept for high-throughput shotgun lipidomics based on the molecular fragmentation query language. Genome Biol (2011) 1.58
Hrp48, a Drosophila hnRNPA/B homolog, binds and regulates translation of oskar mRNA. Dev Cell (2004) 1.57
A systematic RNAi synthetic interaction screen reveals a link between p53 and snoRNP assembly. Nat Cell Biol (2011) 1.54
The interface of protein structure, protein biophysics, and molecular evolution. Protein Sci (2012) 1.54
Comparative profiling identifies C13orf3 as a component of the Ska complex required for mammalian cell division. EMBO J (2009) 1.51
A limited role for balancing selection. Trends Genet (2005) 1.51
Evolutionary constraints in conserved nongenic sequences of mammals. Genome Res (2005) 1.50
Metabolites: a helping hand for pathway evolution? Trends Biochem Sci (2003) 1.50
Indel-based evolutionary distance and mouse-human divergence. Genome Res (2004) 1.47
Adenovirus exploits the cellular aggresome response to accelerate inactivation of the MRN complex. J Virol (2005) 1.46
Activation of transcription factor NF-kappaB requires ELKS, an IkappaB kinase regulatory subunit. Science (2004) 1.46
Quantitative analysis of the lipidomes of the influenza virus envelope and MDCK cell apical membrane. J Cell Biol (2012) 1.44
High conservation of the Set1/Rad6 axis of histone 3 lysine 4 methylation in budding and fission yeasts. J Biol Chem (2002) 1.43
RNAi in murine hepatocytes: the agony of choice--a study of the influence of lipid-based transfection reagents on hepatocyte metabolism. Arch Toxicol (2015) 1.42
Effects of diet and development on the Drosophila lipidome. Mol Syst Biol (2012) 1.41
Positive selection at sites of multiple amino acid replacements since rat-mouse divergence. Nature (2004) 1.40
Evaluating empirical bounds on complex disease genetic architecture. Nat Genet (2013) 1.37
Direct regulation of Treslin by cyclin-dependent kinase is essential for the onset of DNA replication. J Cell Biol (2011) 1.37
Rare, low-frequency, and common variants in the protein-coding sequence of biological candidate genes from GWASs contribute to risk of rheumatoid arthritis. Am J Hum Genet (2012) 1.35
Motor-independent targeting of CLASPs to kinetochores by CENP-E promotes microtubule turnover and poleward flux. Curr Biol (2009) 1.34
Roles of replication fork-interacting and Chk1-activating domains from Claspin in a DNA replication checkpoint response. Mol Biol Cell (2005) 1.34
The Mre11-Rad50-Nbs1 complex mediates activation of TopBP1 by ATM. Mol Biol Cell (2009) 1.33
Lipoproteins in Drosophila melanogaster--assembly, function, and influence on tissue lipid composition. PLoS Genet (2012) 1.32
Shotgun lipidomics by tandem mass spectrometry under data-dependent acquisition control. Methods Enzymol (2007) 1.32
Enhanced photosynthesis and redox energy production contribute to salinity tolerance in Dunaliella as revealed by homology-based proteomics. Plant Physiol (2004) 1.29
Shotgun lipidomics on a LTQ Orbitrap mass spectrometer by successive switching between acquisition polarity modes. J Mass Spectrom (2012) 1.28
Sequence similarity-driven proteomics in organisms with unknown genomes by LC-MS/MS and automated de novo sequencing. Proteomics (2007) 1.28
The yeast APC/C subunit Mnd2 prevents premature sister chromatid separation triggered by the meiosis-specific APC/C-Ama1. Cell (2005) 1.28
Human lysophosphatidylcholine acyltransferases 1 and 2 are located in lipid droplets where they catalyze the formation of phosphatidylcholine. J Biol Chem (2011) 1.27
MultiTag: multiple error-tolerant sequence tag search for the sequence-similarity identification of proteins by mass spectrometry. Anal Chem (2003) 1.26
Flexibility of a eukaryotic lipidome--insights from yeast lipidomics. PLoS One (2012) 1.26
The lipidomes of vesicular stomatitis virus, semliki forest virus, and the host plasma membrane analyzed by quantitative shotgun mass spectrometry. J Virol (2009) 1.25
Shotgun lipidomics on high resolution mass spectrometers. Cold Spring Harb Perspect Biol (2011) 1.24
Collision-induced dissociation pathways of yeast sphingolipids and their molecular profiling in total lipid extracts: a study by quadrupole TOF and linear ion trap-orbitrap mass spectrometry. J Mass Spectrom (2006) 1.21
Homology-based functional proteomics by mass spectrometry: application to the Xenopus microtubule-associated proteome. Proteomics (2004) 1.19
Saccharomyces cerevisiae Bzz1p is implicated with type I myosins in actin patch polarization and is able to recruit actin-polymerizing machinery in vitro. Mol Cell Biol (2002) 1.18
Survival strategies of a sterol auxotroph. Development (2010) 1.16
Expanding the organismal scope of proteomics: cross-species protein identification by mass spectrometry and its implications. Proteomics (2003) 1.16
Cycling of the signaling protein phospholipase D through cilia requires the BBSome only for the export phase. J Cell Biol (2013) 1.16
LipidXplorer: a software for consensual cross-platform lipidomics. PLoS One (2012) 1.13
Deciphering protein complexes and protein interaction networks by tandem affinity purification and mass spectrometry: analytical perspective. Mol Cell Proteomics (2002) 1.13
A comparative analysis of an orthologous proteomic environment in the yeasts Saccharomyces cerevisiae and Schizosaccharomyces pombe. Mol Cell Proteomics (2003) 1.13
Nanoelectrospray tandem mass spectrometry and sequence similarity searching for identification of proteins from organisms with unknown genomes. Methods Mol Biol (2003) 1.13
Dried-droplet probe preparation on AnchorChip targets for navigating the acquisition of matrix-assisted laser desorption/ionization time-of-flight spectra by fluorescence of matrix/analyte crystals. Rapid Commun Mass Spectrom (2004) 1.11
A genomic toolkit to investigate kinesin and myosin motor function in cells. Nat Cell Biol (2013) 1.11
Yeast lipids can phase-separate into micrometer-scale membrane domains. J Biol Chem (2010) 1.11
Separating the wheat from the chaff: unbiased filtering of background tandem mass spectra improves protein identification. J Proteome Res (2008) 1.10
Swm1/Apc13 is an evolutionarily conserved subunit of the anaphase-promoting complex stabilizing the association of Cdc16 and Cdc27. Mol Cell Biol (2004) 1.10