Mass spectrometry at the interface of proteomics and genomics

One-Dimensional Capillary Liquid Chromatographic Separation Coupled with Tandem Mass Spectrometry Unveils theEscherichia coliProteome on a Microarray Scale

(2010) Mio Iwasaki et al.   ANALYTICAL CHEMISTRY

Proteomics-based confirmation of protein expression and correction of annotation errors in the Brucella abortus genome

(2010) Julie Lamontagne et al.   BMC GENOMICS

Proteogenomics of Pristionchus pacificus reveals distinct proteome structure of nematode models

(2010) N. Borchert et al.   GENOME RESEARCH

Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC) Applied to Quantitative Proteomics ofBacillus subtilis

(2010) Boumediene Soufi et al.   JOURNAL OF PROTEOME RESEARCH

Proteogenomics to discover the full coding content of genomes: A computational perspective

(2010) Natalie Castellana et al.   Journal of Proteomics

Sub-part-per-million Precursor and Product Mass Accuracy for High-throughput Proteomics on an Electron Transfer Dissociation-enabled Orbitrap Mass Spectrometer

(2010) Craig D. Wenger et al.   MOLECULAR & CELLULAR PROTEOMICS

mGene: Accurate SVM-based gene finding with an application to nematode genomes

(2009) G. Schweikert et al.   GENOME RESEARCH

A Dual Pressure Linear Ion Trap Orbitrap Instrument with Very High Sequencing Speed

(2009) Jesper V. Olsen et al.   MOLECULAR & CELLULAR PROTEOMICS

Universal sample preparation method for proteome analysis

(2009) Jacek R Wiśniewski et al.   NATURE METHODS

mGene.web: a web service for accurate computational gene finding

(2009) G. Schweikert et al.   NUCLEIC ACIDS RESEARCH

A Proteomic View of an Important Human Pathogen – Towards the Quantification of the Entire Staphylococcus aureus Proteome

(2009) Dörte Becher et al.   PLoS One

Validating divergent ORF annotation of the Mycobacterium leprae genome through a full translation data set and peptide identification by tandem mass spectrometry

(2009) Gustavo A. de Souza et al.   PROTEOMICS

High accuracy mass spectrometry analysis as a tool to verify and improve gene annotation using Mycobacterium tuberculosis as an example

(2008) Gustavo A de Souza et al.   BMC GENOMICS

Utility of mass spectrometry for proteome ana lysis: part I. Conceptual and experimental approaches

(2008) Farid E Ahmed   Expert Review of Proteomics

Use of shotgun proteomics for the identification, confirmation, and correction of C. elegans gene annotations

(2008) G. E. Merrihew et al.   GENOME RESEARCH

Ortho-proteogenomics: Multiple proteomes investigation through orthology and a new MS-based protocol

(2008) S. Gallien et al.   GENOME RESEARCH

Comparative proteogenomics: Combining mass spectrometry and comparative genomics to analyze multiple genomes

(2008) N. Gupta et al.   GENOME RESEARCH

A Novel Chromatographic Method Allows On-line Reanalysis of the Proteome

(2008) Leonie F. Waanders et al.   MOLECULAR & CELLULAR PROTEOMICS

Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast

(2008) Lyris M. F. de Godoy et al.   NATURE

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

(2008) Jürgen Cox et al.   NATURE BIOTECHNOLOGY

Discovery and revision of Arabidopsis genes by proteogenomics

(2008) N. E. Castellana et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Precision proteomics: The case for high resolution and high mass accuracy

(2008) M. Mann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Scale Proteomics Reveals Arabidopsis thaliana Gene Models and Proteome Dynamics

(2008) K. Baerenfaller et al.   SCIENCE

Whole Genome Searching with Shotgun Proteomic Data: Applications for Genome Annotation

(2007) Joel R. Sevinsky et al.   JOURNAL OF PROTEOME RESEARCH