Is a gene-centric human proteome project the best way for proteomics to serve biology?

A Gene-centric Human Proteome Project

(2010)   MOLECULAR & CELLULAR PROTEOMICS

Counterpoint: Data first

(2010) Todd Golub   NATURE

Point: Hypotheses first

(2010) Robert Weinberg   NATURE

The human genome at ten

(2010)   NATURE

Multiple personal genomes await

(2010) J. Craig Venter   NATURE

O-linked β-N-acetylglucosamine (O-GlcNAc): Extensive crosstalk with phosphorylation to regulate signaling and transcription in response to nutrients and stress

(2009) Chutikarn Butkinaree et al.   BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS

Full Dynamic Range Proteome Analysis of S. cerevisiae by Targeted Proteomics

(2009) Paola Picotti et al.   CELL

Complete sequencing and oxidative modification of manganese superoxide dismutase in medulloblastoma cells

(2009) Julius Paul Pradeep John et al.   ELECTROPHORESIS

Comparison of Extensive Protein Fractionation and Repetitive LC-MS/MS Analyses on Depth of Analysis for Complex Proteomes

(2009) Huan Wang et al.   JOURNAL OF PROTEOME RESEARCH

A Human Proteome Detection and Quantitation Project

(2009) N. Leigh Anderson et al.   MOLECULAR & CELLULAR PROTEOMICS

An Automated and Multiplexed Method for High Throughput Peptide Immunoaffinity Enrichment and Multiple Reaction Monitoring Mass Spectrometry-based Quantification of Protein Biomarkers

(2009) Jeffrey R. Whiteaker et al.   MOLECULAR & CELLULAR PROTEOMICS

Prediction of high-responding peptides for targeted protein assays by mass spectrometry

(2009) Vincent A Fusaro et al.   NATURE BIOTECHNOLOGY

Multi-site assessment of the precision and reproducibility of multiple reaction monitoring–based measurements of proteins in plasma

(2009) Terri A Addona et al.   NATURE BIOTECHNOLOGY

High-throughput generation of selected reaction-monitoring assays for proteins and proteomes

(2009) Paola Picotti et al.   NATURE METHODS

A sensitive mass spectrometric method for hypothesis-driven detection of peptide post-translational modifications: multiple reaction monitoring-initiated detection and sequencing (MIDAS)

(2009) Richard D Unwin et al.   Nature Protocols

ExoCarta: A compendium of exosomal proteins and RNA

(2009) Suresh Mathivanan et al.   PROTEOMICS

PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows

(2008) Eric W Deutsch et al.   EMBO REPORTS

Identifying specific protein interaction partners using quantitative mass spectrometry and bead proteomes

(2008) Laura Trinkle-Mulcahy et al.   JOURNAL OF CELL BIOLOGY

Should the Human Proteome Project Be Gene- or Protein-centric?

(2008) Denis Hochstrasser   JOURNAL OF PROTEOME RESEARCH

Strategy for Comprehensive Identification of Post-translational Modifications in Cellular Proteins, Including Low Abundant Modifications: Application to Glyceraldehyde-3-phosphate Dehydrogenase

(2008) Jawon Seo et al.   JOURNAL OF PROTEOME RESEARCH

Molecular Characterization of Propionyllysines in Non-histone Proteins

(2008) Zhongyi Cheng et al.   MOLECULAR & CELLULAR PROTEOMICS

A Genecentric Human Protein Atlas for Expression Profiles Based on Antibodies

(2008) Lisa Berglund et al.   MOLECULAR & CELLULAR PROTEOMICS

Selected reaction monitoring for quantitative proteomics: a tutorial

(2008) Vinzenz Lange et al.   Molecular Systems Biology

Biologists initiate plan to map human proteome

(2008) Helen Pearson   NATURE

PROTEOMICS: Proteomics Ponders Prime Time

(2008) R. F. Service   SCIENCE