Proteomics Pipeline for Biomarker Discovery of Laser Capture Microdissected Breast Cancer Tissue

Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment

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

Significance of E-cadherin expression in triple-negative breast cancer

(2010) S Kashiwagi et al.   BRITISH JOURNAL OF CANCER

Quantitative Proteomics Reveals Subset-Specific Viral Recognition in Dendritic Cells

(2010) Christian A. Luber et al.   IMMUNITY

Reproducibility of Protein Identification of Selected Cell Types in Barrett’s Esophagus Analyzed by Combining Laser-Capture Microdissection and Mass Spectrometry

(2010) Christoph Stingl et al.   JOURNAL OF PROTEOME RESEARCH

Annexin A1 regulates TGF-  signaling and promotes metastasis formation of basal-like breast cancer cells

(2010) M. de Graauw et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The role of S100 genes in breast cancer progression

(2010) Eadaoin McKiernan et al.   TUMOR BIOLOGY

A statistical framework for protein quantitation in bottom-up MS-based proteomics

(2009) Yuliya Karpievitch et al.   BIOINFORMATICS

Normalization of peak intensities in bottom-up MS-based proteomics using singular value decomposition

(2009) Yuliya V. Karpievitch et al.   BIOINFORMATICS

Protein Quantification in Label-Free LC-MS Experiments

(2009) Timothy Clough et al.   JOURNAL OF PROTEOME RESEARCH

Identification of a Putative Protein Profile Associated with Tamoxifen Therapy Resistance in Breast Cancer

(2009) Arzu Umar et al.   MOLECULAR & CELLULAR PROTEOMICS

A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics

(2009) Jürgen Cox et al.   Nature Protocols

DAnTE: a statistical tool for quantitative analysis of -omics data

(2008) A. D. Polpitiya et al.   BIOINFORMATICS

Estrogen Receptor Regulation of Carbonic Anhydrase XII through a Distal Enhancer in Breast Cancer

(2008) D. H. Barnett et al.   CANCER RESEARCH

Mixed-Effects Statistical Model for Comparative LC−MS Proteomics Studies†

(2008) D. S. Daly 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