Published in J Proteome Res on October 11, 2004
MyriMatch: highly accurate tandem mass spectral peptide identification by multivariate hypergeometric analysis. J Proteome Res (2007) 5.85
Novel gene and gene model detection using a whole genome open reading frame analysis in proteomics. Genome Biol (2006) 1.98
Mapping the human plasma proteome by SCX-LC-IMS-MS. J Am Soc Mass Spectrom (2007) 1.94
False discovery rates of protein identifications: a strike against the two-peptide rule. J Proteome Res (2009) 1.85
A two-step database search method improves sensitivity in peptide sequence matches for metaproteomics and proteogenomics studies. Proteomics (2013) 1.78
Interpretation of data underlying the link between colony collapse disorder (CCD) and an invertebrate iridescent virus. Mol Cell Proteomics (2011) 1.74
Prediction of error associated with false-positive rate determination for peptide identification in large-scale proteomics experiments using a combined reverse and forward peptide sequence database strategy. J Proteome Res (2007) 1.60
Proteomics of photoreceptor outer segments identifies a subset of SNARE and Rab proteins implicated in membrane vesicle trafficking and fusion. Mol Cell Proteomics (2008) 1.56
Evaluation of strong cation exchange versus isoelectric focusing of peptides for multidimensional liquid chromatography-tandem mass spectrometry. J Proteome Res (2008) 1.55
A nutrient uptake role for bacterial cell envelope extensions. Proc Natl Acad Sci U S A (2006) 1.49
Control of protein function by reversible Nɛ-lysine acetylation in bacteria. Curr Opin Microbiol (2011) 1.30
Informatics strategies for large-scale novel cross-linking analysis. J Proteome Res (2007) 1.26
GlycReSoft: a software package for automated recognition of glycans from LC/MS data. PLoS One (2012) 1.24
Immobilized pH gradient isoelectric focusing as a first-dimension separation in shotgun proteomics. J Biomol Tech (2005) 1.16
Verification of automated peptide identifications from proteomic tandem mass spectra. Nat Protoc (2006) 1.14
Comparison of Mascot and X!Tandem performance for low and high accuracy mass spectrometry and the development of an adjusted Mascot threshold. Mol Cell Proteomics (2008) 1.10
Unique ion signature mass spectrometry, a deterministic method to assign peptide identity. Mol Cell Proteomics (2009) 1.08
Deep metaproteomic analysis of human salivary supernatant. Proteomics (2012) 1.04
Improved proteome coverage by using iTRAQ labelling and peptide OFFGEL fractionation. Proteome Sci (2008) 1.02
Decoy methods for assessing false positives and false discovery rates in shotgun proteomics. Anal Chem (2009) 1.02
Minimizing back exchange in 18O/16O quantitative proteomics experiments by incorporation of immobilized trypsin into the initial digestion step. Anal Chem (2007) 1.01
Comprehensive proteomic analysis of membrane proteins in Toxoplasma gondii. Mol Cell Proteomics (2010) 1.00
Multi-dimensional liquid chromatography in proteomics--a review. Anal Chim Acta (2010) 1.00
Introduction to computational proteomics. PLoS Comput Biol (2007) 0.94
Evaluation and optimization of mass spectrometric settings during data-dependent acquisition mode: focus on LTQ-Orbitrap mass analyzers. J Proteome Res (2013) 0.93
An insight into high-resolution mass-spectrometry data. Biostatistics (2009) 0.92
Vaccinia peptides eluted from HLA-DR1 isolated from virus-infected cells are recognized by CD4+ T cells from a vaccinated donor. J Proteome Res (2008) 0.92
Detection of co-eluted peptides using database search methods. Biol Direct (2008) 0.86
High-throughput molecular analysis in lung cancer: insights into biology and potential clinical applications. Eur Respir J (2009) 0.84
In-depth proteomic analysis of Varroa destructor: Detection of DWV-complex, ABPV, VdMLV and honeybee proteins in the mite. Sci Rep (2015) 0.84
Identification of outer membrane proteins from an Antarctic bacterium Pseudomonas syringae Lz4W. Mol Cell Proteomics (2011) 0.83
Tandem mass spectrometry data quality assessment by self-convolution. BMC Bioinformatics (2007) 0.82
Tandem mass spectrometry for the detection of plant pathogenic fungi and the effects of database composition on protein inferences. Proteomics (2007) 0.81
Use of composite protein database including search result sequences for mass spectrometric analysis of cell secretome. PLoS One (2015) 0.78
Comprehensive analysis of proteins of pH fractionated samples using monolithic LC/MS/MS, intact MW measurement and MALDI-QIT-TOF MS. J Mass Spectrom (2007) 0.78
Coherent pipeline for biomarker discovery using mass spectrometry and bioinformatics. BMC Bioinformatics (2010) 0.77
Creation of a federated database of blood proteins: a powerful new tool for finding and characterizing biomarkers in serum. Clin Proteomics (2014) 0.76
Identification of Candidate Serum Biomarkers for Schistosoma mansoni Infected Mice Using Multiple Proteomic Platforms. PLoS One (2016) 0.75
RT-SVR+q: a strategy for post-Mascot analysis using retention time and q value metric to improve peptide and protein identifications. J Proteomics (2011) 0.75
A sampling framework for incorporating quantitative mass spectrometry data in protein interaction analysis. BMC Bioinformatics (2013) 0.75
Systematic comparison of the human saliva and plasma proteomes. Proteomics Clin Appl (2009) 1.51
Automated proteomics of E. coli via top-down electron-transfer dissociation mass spectrometry. Anal Chem (2008) 1.35
A comparison of immobilized pH gradient isoelectric focusing and strong-cation-exchange chromatography as a first dimension in shotgun proteomics. Proteomics (2005) 1.28
Oligonucleotide mixture analysis via electrospray and ion/ion reactions in a quadrupole ion trap. Anal Chem (2002) 1.19
Gel based isoelectric focusing of peptides and the utility of isoelectric point in protein identification. J Proteome Res (2004) 1.18
Immobilized pH gradients as a first dimension in shotgun proteomics and analysis of the accuracy of pI predictability of peptides. Electrophoresis (2004) 1.18
Immobilized pH gradient isoelectric focusing as a first-dimension separation in shotgun proteomics. J Biomol Tech (2005) 1.16
Synthesis/degradation ratio mass spectrometry for measuring relative dynamic protein turnover. Anal Chem (2004) 1.14
Integrating 'top-down" and "bottom-up" mass spectrometric approaches for proteomic analysis of Shewanella oneidensis. J Proteome Res (2003) 1.12
Tandem mass spectrometry of ribonuclease A and B: N-linked glycosylation site analysis of whole protein ions. Anal Chem (2002) 1.08
Genetic determinants of immune-response to a polysaccharide vaccine for typhoid. Hugo J (2010) 1.04
Minimizing back exchange in 18O/16O quantitative proteomics experiments by incorporation of immobilized trypsin into the initial digestion step. Anal Chem (2007) 1.01
Detection and validation of non-synonymous coding SNPs from orthogonal analysis of shotgun proteomics data. J Proteome Res (2007) 0.98
An alternative to tandem mass spectrometry: isoelectric point and accurate mass for the identification of peptides. Anal Chem (2004) 0.97
Whole genome searching with shotgun proteomic data: applications for genome annotation. J Proteome Res (2007) 0.97
Proteomics of Pyrococcus furiosus, a hyperthermophilic archaeon refractory to traditional methods. J Proteome Res (2009) 0.89
Ion/ion chemistry as a top-down approach for protein analysis. Curr Opin Biotechnol (2002) 0.88
Proteomic analysis reveals virus-specific Hsp25 modulation in cardiac myocytes. J Proteome Res (2010) 0.86
Development of a bead immunoassay to measure Vi polysaccharide-specific serum IgG after vaccination with the Salmonella enterica serovar Typhi Vi polysaccharide. Clin Vaccine Immunol (2010) 0.84
Comprehensive defensin assay for saliva. Anal Chem (2009) 0.81
Calculation of the isoelectric point of tryptic peptides in the pH 3.5-4.5 range based on adjacent amino acid effects. Electrophoresis (2008) 0.79
Intact protein analysis for site-directed mutagenesis overexpression products: plasmid-encoded R67 dihydrofolate reductase. Anal Biochem (2002) 0.77