Published in J Proteome Res on March 19, 2008
Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol. Genome Res (2008) 1.36
The proteogenomic mapping tool. BMC Bioinformatics (2011) 1.01
Proteogenomic analysis of Bradyrhizobium japonicum USDA110 using GenoSuite, an automated multi-algorithmic pipeline. Mol Cell Proteomics (2013) 0.94
Proteomics progresses in microbial physiology and clinical antimicrobial therapy. Eur J Clin Microbiol Infect Dis (2016) 0.75
Proteogenomics: Integrating Next-Generation Sequencing and Mass Spectrometry to Characterize Human Proteomic Variation. Annu Rev Anal Chem (Palo Alto Calif) (2016) 0.75
PGx: Putting Peptides to BED. J Proteome Res (2015) 0.75
GAPP: A Proteogenomic Software for Genome Annotation and Global Profiling of Post-translational Modifications in Prokaryotes. Mol Cell Proteomics (2016) 0.75
Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding. Nucleic Acids Res (2006) 5.31
Genome expansion and gene loss in powdery mildew fungi reveal tradeoffs in extreme parasitism. Science (2010) 3.35
Comparative genomics of Brassica oleracea and Arabidopsis thaliana reveal gene loss, fragmentation, and dispersal after polyploidy. Plant Cell (2006) 3.10
Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources? BMC Genomics (2009) 3.08
Pandoraviruses: amoeba viruses with genomes up to 2.5 Mb reaching that of parasitic eukaryotes. Science (2013) 2.98
Isotope-labeled protein standards: toward absolute quantitative proteomics. Mol Cell Proteomics (2007) 2.63
An accurate and interpretable model for siRNA efficacy prediction. BMC Bioinformatics (2006) 2.46
UniPathway: a resource for the exploration and annotation of metabolic pathways. Nucleic Acids Res (2011) 2.45
AT_CHLORO, a comprehensive chloroplast proteome database with subplastidial localization and curated information on envelope proteins. Mol Cell Proteomics (2010) 2.39
Proteomics of the chloroplast envelope membranes from Arabidopsis thaliana. Mol Cell Proteomics (2003) 2.06
A proteomics dissection of Arabidopsis thaliana vacuoles isolated from cell culture. Mol Cell Proteomics (2006) 2.01
Parallel changes in global protein profiles during long-term experimental evolution in Escherichia coli. Genetics (2006) 2.00
Pericentric heterochromatin reprogramming by new histone variants during mouse spermiogenesis. J Cell Biol (2007) 1.96
Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology. Proc Natl Acad Sci U S A (2014) 1.95
Histone-modifying complexes regulate gene expression pertinent to the differentiation of the protozoan parasite Toxoplasma gondii. Mol Cell Biol (2005) 1.72
Guidelines for reporting the use of mass spectrometry informatics in proteomics. Nat Biotechnol (2008) 1.60
A toolbox for validation of mass spectrometry peptides identification and generation of database: IRMa. Bioinformatics (2009) 1.59
MASCP Gator: an aggregation portal for the visualization of Arabidopsis proteomics data. Plant Physiol (2010) 1.59
Integral membrane proteins of the chloroplast envelope: identification and subcellular localization of new transporters. Proc Natl Acad Sci U S A (2002) 1.58
Arabidopsis cell wall proteome defined using multidimensional protein identification technology. Proteomics (2006) 1.55
Isotope dilution strategies for absolute quantitative proteomics. J Proteomics (2009) 1.54
New subunits NDH-M, -N, and -O, encoded by nuclear genes, are essential for plastid Ndh complex functioning in higher plants. Plant Cell (2004) 1.50
Characterization of a novel RNA-binding region of eIF4GI critical for ribosomal scanning. EMBO J (2003) 1.43
A proteomic survey of Chlamydomonas reinhardtii mitochondria sheds new light on the metabolic plasticity of the organelle and on the nature of the alpha-proteobacterial mitochondrial ancestor. Mol Biol Evol (2009) 1.41
Proteomic profiling of oil bodies isolated from the unicellular green microalga Chlamydomonas reinhardtii: with focus on proteins involved in lipid metabolism. Proteomics (2011) 1.37
Non-canonical transit peptide for import into the chloroplast. J Biol Chem (2002) 1.36
Dendritic cell derived-exosomes: biology and clinical implementations. J Leukoc Biol (2006) 1.34
Chloroplast proteomics highlights the subcellular compartmentation of lipid metabolism. Prog Lipid Res (2009) 1.33
ecoPrimers: inference of new DNA barcode markers from whole genome sequence analysis. Nucleic Acids Res (2011) 1.33
PredAlgo: a new subcellular localization prediction tool dedicated to green algae. Mol Biol Evol (2012) 1.33
Repseek, a tool to retrieve approximate repeats from large DNA sequences. Bioinformatics (2006) 1.31
Syntons, metabolons and interactons: an exact graph-theoretical approach for exploring neighbourhood between genomic and functional data. Bioinformatics (2005) 1.30
Chloroplast proteomics and the compartmentation of plastidial isoprenoid biosynthetic pathways. Mol Plant (2009) 1.29
A complex small RNA repertoire is generated by a plant/fungal-like machinery and effected by a metazoan-like Argonaute in the single-cell human parasite Toxoplasma gondii. PLoS Pathog (2010) 1.27
A high content in lipid-modified peripheral proteins and integral receptor kinases features in the arabidopsis plasma membrane proteome. Mol Cell Proteomics (2007) 1.27
Comparative genomic analysis of three strains of Ehrlichia ruminantium reveals an active process of genome size plasticity. J Bacteriol (2006) 1.23
Pyruvate formate-lyase and a novel route of eukaryotic ATP synthesis in Chlamydomonas mitochondria. J Biol Chem (2006) 1.22
A survey of the plant mitochondrial proteome in relation to development. Proteomics (2002) 1.21
The early responses of Arabidopsis thaliana cells to cadmium exposure explored by protein and metabolite profiling analyses. Proteomics (2006) 1.19
SET8-mediated methylations of histone H4 lysine 20 mark silent heterochromatic domains in apicomplexan genomes. Mol Cell Biol (2007) 1.17
Identification of a novel BET bromodomain inhibitor-sensitive, gene regulatory circuit that controls Rituximab response and tumour growth in aggressive lymphoid cancers. EMBO Mol Med (2013) 1.16
Analysis of the dynamic Bacillus subtilis Ser/Thr/Tyr phosphoproteome implicated in a wide variety of cellular processes. Proteomics (2006) 1.16
Protein Standard Absolute Quantification (PSAQ) for improved investigation of staphylococcal food poisoning outbreaks. Proteomics (2008) 1.15
Coevolution between a family of parasite virulence effectors and a class of LINE-1 retrotransposons. PLoS One (2009) 1.15
An extended proteome map of the lysosomal membrane reveals novel potential transporters. Mol Cell Proteomics (2013) 1.13
Dynamic of H5N1 virus in Cambodia and emergence of a novel endemic sub-clade. Infect Genet Evol (2012) 1.13
Plant seed peroxygenase is an original heme-oxygenase with an EF-hand calcium binding motif. J Biol Chem (2006) 1.13
Comprehensive human urine standards for comparability and standardization in clinical proteome analysis. Proteomics Clin Appl (2010) 1.12
Involvement of superoxide dismutases in the response of Escherichia coli to selenium oxides. J Bacteriol (2002) 1.09
Integration of data and methods for genome analysis. Curr Opin Drug Discov Devel (2003) 1.09
The zinc- and calcium-binding S100B interacts and co-localizes with IQGAP1 during dynamic rearrangement of cell membranes. J Biol Chem (2002) 1.09
The Crl-RpoS regulon of Escherichia coli. Mol Cell Proteomics (2007) 1.08
Proteomic analysis of human lysosomes: application to monocytic and breast cancer cells. Proteomics (2002) 1.05
In vitro cleavage of eIF4GI but not eIF4GII by HIV-1 protease and its effects on translation in the rabbit reticulocyte lysate system. J Mol Biol (2002) 1.04
Tip60 acetyltransferase activity is controlled by phosphorylation. J Biol Chem (2002) 1.04
Accurate quantification of cardiovascular biomarkers in serum using Protein Standard Absolute Quantification (PSAQ™) and selected reaction monitoring. Mol Cell Proteomics (2011) 1.04
Post-meiotic shifts in HSPA2/HSP70.2 chaperone activity during mouse spermatogenesis. J Biol Chem (2006) 1.02
The hydrophobic proteome of mitochondrial membranes from Arabidopsis cell suspensions. Phytochemistry (2004) 1.01
The small ubiquitin-like modifier (SUMO)-conjugating system of Toxoplasma gondii. Int J Parasitol (2008) 1.01
Syntaxin 7, syntaxin 8, Vti1 and VAMP7 (vesicle-associated membrane protein 7) form an active SNARE complex for early macropinocytic compartment fusion in Dictyostelium discoideum. Biochem J (2002) 1.00
The CanOE strategy: integrating genomic and metabolic contexts across multiple prokaryote genomes to find candidate genes for orphan enzymes. PLoS Comput Biol (2012) 0.99
A newly identified isoform of Slp2a associates with Rab27a in cytotoxic T cells and participates to cytotoxic granule secretion. Blood (2008) 0.98
Proteomic analysis of S-acylated proteins in human B cells reveals palmitoylation of the immune regulators CD20 and CD23. PLoS One (2012) 0.95
Proteomics of chloroplast envelope membranes. Photosynth Res (2003) 0.95
Proteomic analysis of the eukaryotic parasite Encephalitozoon cuniculi (microsporidia): a reference map for proteins expressed in late sporogonial stages. Proteomics (2006) 0.94
Discovering new bioactive neuropeptides in the striatum secretome using in vivo microdialysis and versatile proteomics. Mol Cell Proteomics (2009) 0.94
Development of narrow immobilized pH gradients covering one pH unit for human seminal plasma proteomic analysis. Proteomics (2003) 0.92
Purification of Toxoplasma dense granule proteins reveals that they are in complexes throughout the secretory pathway. Mol Biochem Parasitol (2007) 0.91
Identification of cellular targets in human intrahepatic cholangiocarcinoma using laser microdissection and accurate mass and time tag proteomics. Mol Cell Proteomics (2010) 0.90
Ab initio reconstruction of metabolic pathways. Bioinformatics (2003) 0.89
15N-metabolic labeling for comparative plasma membrane proteomics in Arabidopsis cells. Proteomics (2007) 0.89
Identification of proteins binding the native tubulin dimer. Biochem Biophys Res Commun (2005) 0.88
Complex dynamic of dengue virus serotypes 2 and 3 in Cambodia following series of climate disasters. Infect Genet Evol (2012) 0.88
Proteomic characterization of Pseudomonas aeruginosa PAO1 inner membrane. Proteomics (2013) 0.87
Investigating the macropinocytic proteome of Dictyostelium amoebae by high-resolution mass spectrometry. Proteomics (2011) 0.87
PSAQ™ standards for accurate MS-based quantification of proteins: from the concept to biomedical applications. J Mass Spectrom (2012) 0.87
Regulation of phagocyte NADPH oxidase activity: identification of two cytochrome b558 activation states. FASEB J (2007) 0.87
Peptide storage: are you getting the best return on your investment? Defining optimal storage conditions for proteomics samples. J Proteome Res (2009) 0.86
Characterization of chloroplastic fructose 1,6-bisphosphate aldolases as lysine-methylated proteins in plants. J Biol Chem (2012) 0.86
DSIR: assessing the design of highly potent siRNA by testing a set of cancer-relevant target genes. PLoS One (2012) 0.85
An optimized strategy for ICAT quantification of membrane proteins. Mol Cell Proteomics (2005) 0.85
Protocadherin 12 deficiency alters morphogenesis and transcriptional profile of the placenta. Physiol Genomics (2008) 0.84
Bacterial syntenies: an exact approach with gene quorum. BMC Bioinformatics (2011) 0.84
Investigating the plant response to cadmium exposure by proteomic and metabolomic approaches. Proteomics (2011) 0.84
Ehrlichia ruminantium: genomic and evolutionary features. Trends Parasitol (2007) 0.84
Innovative approach for transcriptomic analysis of obligate intracellular pathogen: selective capture of transcribed sequences of Ehrlichia ruminantium. BMC Mol Biol (2009) 0.83
Genetic diversity and lineage dynamic of dengue virus serotype 1 (DENV-1) in Cambodia. Infect Genet Evol (2011) 0.83
Biochemical characterization and lysosomal localization of the mannose-6-phosphate protein p76 (hypothetical protein LOC196463). Biochem J (2007) 0.83