Global Subcellular Characterization of Protein Degradation Using Quantitative Proteomics

Mass Spectrometry–Based Proteomics and Network Biology

(2012) Ariel Bensimon et al.   Annual Review of Biochemistry

Advancing Cell Biology Through Proteomics in Space and Time (PROSPECTS)

(2012) Angus I. Lamond et al.   MOLECULAR & CELLULAR PROTEOMICS

GPS-ARM: Computational Analysis of the APC/C Recognition Motif by Predicting D-Boxes and KEN-Boxes

(2012) Zexian Liu et al.   PLoS One

Extremely Long-Lived Nuclear Pore Proteins in the Rat Brain

(2012) J. N. Savas et al.   SCIENCE

Quantitative, High-Resolution Proteomics for Data-Driven Systems Biology

(2011) Jürgen Cox et al.   Annual Review of Biochemistry

Molecular chaperones in targeting misfolded proteins for ubiquitin-dependent degradation

(2011) Franziska Kriegenburg et al.   FEBS Journal

Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment

(2011) Jürgen Cox et al.   JOURNAL OF PROTEOME RESEARCH

Characterization of MRFAP1 Turnover and Interactions Downstream of the NEDD8 Pathway

(2011) Mark Larance et al.   MOLECULAR & CELLULAR PROTEOMICS

Systematic Analysis of Protein Pools, Isoforms, and Modifications Affecting Turnover and Subcellular Localization

(2011) Yasmeen Ahmad et al.   MOLECULAR & CELLULAR PROTEOMICS

A Quantitative Spatial Proteomics Analysis of Proteome Turnover in Human Cells

(2011) François-Michel Boisvert et al.   MOLECULAR & CELLULAR PROTEOMICS

Systematic and Quantitative Assessment of the Ubiquitin-Modified Proteome

(2011) Woong Kim et al.   MOLECULAR CELL

Global quantification of mammalian gene expression control

(2011) Björn Schwanhäusser et al.   NATURE

Stable-isotope labeling with amino acids in nematodes

(2011) Mark Larance et al.   NATURE METHODS

Comparison between procedures using SDS for shotgun proteomic analyses of complex samples

(2011) Michael S. Bereman et al.   PROTEOMICS

Proteome Half-Life Dynamics in Living Human Cells

(2011) E. Eden et al.   SCIENCE

Comparative Proteomic Analysis Identifies a Role for SUMO in Protein Quality Control

(2011) M. H. Tatham et al.   Science Signaling

Mitochondrial protein quality control during biogenesis and aging

(2011) Brooke M. Baker et al.   TRENDS IN BIOCHEMICAL SCIENCES

Multiple degradation pathways regulate versatile CIP/KIP CDK inhibitors

(2011) Natalia G. Starostina et al.   TRENDS IN CELL BIOLOGY

HSP90 and Its R2TP/Prefoldin-like Cochaperone Are Involved in the Cytoplasmic Assembly of RNA Polymerase II

(2010) Séverine Boulon et al.   MOLECULAR CELL

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

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

Organelle proteomics experimental designs and analysis

(2010) Laurent Gatto et al.   PROTEOMICS

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

A Computational Screen for Regulators of Oxidative Phosphorylation Implicates SLIRP in Mitochondrial RNA Homeostasis

(2009) Joshua M. Baughman et al.   PLoS Genetics

Turnover of the Human Proteome: Determination of Protein Intracellular Stability by Dynamic SILAC

(2008) Mary K. Doherty et al.   JOURNAL OF PROTEOME RESEARCH

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

Global Protein Stability Profiling in Mammalian Cells

(2008) H.-C. S. Yen et al.   SCIENCE