PaxDb, a Database of Protein Abundance Averages Across All Three Domains of Life

Uberon, an integrative multi-species anatomy ontology

(2012) Christopher J Mungall et al.   GENOME BIOLOGY

Metazoan Operons Accelerate Recovery from Growth-Arrested States

(2011) Alon Zaslaver et al.   CELL

MOPED: Model Organism Protein Expression Database

(2011) Eugene Kolker et al.   NUCLEIC ACIDS RESEARCH

A Tissue-Specific Atlas of Mouse Protein Phosphorylation and Expression

(2010) Edward L. Huttlin et al.   CELL

An Evolutionarily Conserved Mechanism for Controlling the Efficiency of Protein Translation

(2010) Tamir Tuller et al.   CELL

Proteomic Analysis of Lung Tissues From Patients With Pulmonary Arterial Hypertension

(2010) Vahitha B. Abdul-Salam et al.   CIRCULATION

Proteomic Analysis of Proteins Involved in Spermiogenesis in Mouse

(2010) Xuejiang Guo et al.   JOURNAL OF PROTEOME RESEARCH

On the Development of Plasma Protein Biomarkers

(2010) Silvia Surinova 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

Proteomics data repositories: Providing a safe haven for your data and acting as a springboard for further research

(2010) Juan Antonio Vizcaíno et al.   Journal of Proteomics

Proteome-wide protein concentrations in the human heart

(2010) Thin Thin Aye et al.   Molecular BioSystems

Mass spectrometry at the interface of proteomics and genomics

(2010) Karsten Krug et al.   Molecular BioSystems

Mass spectrometry in high-throughput proteomics: ready for the big time

(2010) Tommy Nilsson et al.   NATURE METHODS

OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011

(2010) Robert M. Waterhouse et al.   NUCLEIC ACIDS RESEARCH

Ongoing and future developments at the Universal Protein Resource

(2010)   NUCLEIC ACIDS RESEARCH

The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored

(2010) D. Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Forces that influence the evolution of codon bias

(2010) P. M. Sharp et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Shotgun proteomics data from multiple organisms reveals remarkable quantitative conservation of the eukaryotic core proteome

(2010) Manuel Weiss et al.   PROTEOMICS

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

(2010) Y. Taniguchi et al.   SCIENCE

Single cell analysis: the new frontier in ‘omics’

(2010) Daojing Wang et al.   TRENDS IN BIOTECHNOLOGY

Deterministic protein inference for shotgun proteomics data provides new insights into Arabidopsis pollen development and function

(2009) M. A. Grobei et al.   GENOME RESEARCH

Environmental Proteomics: a Paradigm Shift in Characterizing Microbial Activities at the Molecular Level

(2009) M. Keller et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Proteome-wide cellular protein concentrations of the human pathogen Leptospira interrogans

(2009) Johan Malmström et al.   NATURE

Functional analysis of natural microbial consortia using community proteomics

(2009) Nathan C. VerBerkmoes et al.   NATURE REVIEWS MICROBIOLOGY

eggNOG v2.0: extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations

(2009) J. Muller et al.   NUCLEIC ACIDS RESEARCH

The Proteomics Identifications database: 2010 update

(2009) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

Quantitative proteomic analysis of single pancreatic islets

(2009) Leonie F. Waanders et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparison of two label-free global quantitation methods, APEX and 2D gel electrophoresis, applied to the Shigella dysenteriae proteome

(2009) Srilatha Kuntumalla et al.   Proteome Science

Modification-specific proteomics: Strategies for characterization of post-translational modifications using enrichment techniques

(2009) Yingming Zhao et al.   PROTEOMICS

Peptide and protein quantification: A map of the minefield

(2009) Marc Vaudel et al.   PROTEOMICS

Proteome Organization in a Genome-Reduced Bacterium

(2009) S. Kuhner et al.   SCIENCE

Comparative Functional Analysis of the Caenorhabditis elegans and Drosophila melanogaster Proteomes

(2009) Sabine P Schrimpf et al.   PLOS BIOLOGY

The APEX Quantitative Proteomics Tool: Generating protein quantitation estimates from LC-MS/MS proteomics results

(2008) John C Braisted et al.   BMC BIOINFORMATICS

Costly Mistakes: Translational Infidelity and Protein Homeostasis

(2008) Evan T. Powers et al.   CELL

SILAC Mouse for Quantitative Proteomics Uncovers Kindlin-3 as an Essential Factor for Red Blood Cell Function

(2008) Marcus Krüger et al.   CELL

Mistranslation-Induced Protein Misfolding as a Dominant Constraint on Coding-Sequence Evolution

(2008) D. Allan Drummond et al.   CELL

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

(2008) Eric W Deutsch et al.   EMBO REPORTS

High Quality Catalog of Proteotypic Peptides from Human Heart

(2008) Kelli G. Kline et al.   JOURNAL OF PROTEOME RESEARCH

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

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

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

The Transcriptional Landscape of the Yeast Genome Defined by RNA Sequencing

(2008) U. Nagalakshmi et al.   SCIENCE

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

(2008) K. Baerenfaller et al.   SCIENCE