Initial Quantitative Proteomic Map of 28 Mouse Tissues Using the SILAC Mouse

Analysis of High Accuracy, Quantitative Proteomics Data in the MaxQB Database

(2012) Christoph Schaab et al.   MOLECULAR & CELLULAR PROTEOMICS

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

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

Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment

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

System-wide Perturbation Analysis with Nearly Complete Coverage of the Yeast Proteome by Single-shot Ultra HPLC Runs on a Bench Top Orbitrap

(2011) Nagarjuna Nagaraj et al.   MOLECULAR & CELLULAR PROTEOMICS

Mass Spectrometry-based Proteomics Using Q Exactive, a High-performance Benchtop Quadrupole Orbitrap Mass Spectrometer

(2011) Annette Michalski et al.   MOLECULAR & CELLULAR PROTEOMICS

Deep proteome and transcriptome mapping of a human cancer cell line

(2011) N. Nagaraj et al.   Molecular Systems Biology

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

Identification of Aneuploidy-Tolerating Mutations

(2010) Eduardo M. Torres et al.   CELL

A Tissue-Specific Atlas of Mouse Protein Phosphorylation and Expression

(2010) Edward L. Huttlin et al.   CELL

The SILAC Fly Allows for Accurate Protein Quantificationin Vivo

(2010) Matthias D. Sury et al.   MOLECULAR & CELLULAR PROTEOMICS

Defining the transcriptome and proteome in three functionally different human cell lines

(2010) Emma Lundberg et al.   Molecular Systems Biology

Super-SILAC mix for quantitative proteomics of human tumor tissue

(2010) Tamar Geiger et al.   NATURE METHODS

Ensembl 2011

(2010) P. Flicek et al.   NUCLEIC ACIDS RESEARCH

Proteomic Changes Resulting from Gene Copy Number Variations in Cancer Cells

(2010) Tamar Geiger et al.   PLoS Genetics

The Impact of Tissue Fixatives on Morphology and Antibody-based Protein Profiling in Tissues and Cells

(2009) Linda Paavilainen et al.   JOURNAL OF HISTOCHEMISTRY & CYTOCHEMISTRY

Quantitative Proteomics by Metabolic Labeling of Model Organisms

(2009) Joost W. Gouw et al.   MOLECULAR & CELLULAR PROTEOMICS

A global view of protein expression in human cells, tissues, and organs

(2009) Fredrik Pontén et al.   Molecular Systems Biology

An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data

(2009) Daniel Ramsköld et al.   PLoS Computational Biology

Fat and Beyond: The Diverse Biology of PPARγ

(2008) Peter Tontonoz et al.   Annual Review of Biochemistry

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

(2008) Marcus Krüger et al.   CELL

Comparative Proteomic Phenotyping of Cell Lines and Primary Cells to Assess Preservation of Cell Type-specific Functions

(2008) Cuiping Pan et al.   MOLECULAR & CELLULAR PROTEOMICS

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

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

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

Peptide separation with immobilized pI strips is an attractive alternative to in-gel protein digestion for proteome analysis

(2008) Nina C. Hubner et al.   PROTEOMICS