Quantification of theN-glycosylated Secretome by Super-SILAC During Breast Cancer Progression and in Human Blood Samples

Proteomic Portrait of Human Breast Cancer Progression Identifies Novel Prognostic Markers

(2012) T. Geiger et al.   CANCER RESEARCH

Lectin Chromatography/Mass Spectrometry Discovery Workflow Identifies Putative Biomarkers of Aggressive Breast Cancers

(2012) Penelope M. Drake et al.   JOURNAL OF PROTEOME RESEARCH

Integrative Analysis of N-Linked Human Glycoproteomic Data Sets Reveals PTPRF Ectodomain as a Novel Plasma Biomarker Candidate for Prostate Cancer

(2012) Theodore E. Whitmore et al.   JOURNAL OF PROTEOME RESEARCH

Chemical Deamidation: A Common Pitfall in Large-Scale N-Linked Glycoproteomic Mass Spectrometry-Based Analyses

(2012) Giuseppe Palmisano et al.   JOURNAL OF PROTEOME RESEARCH

Mapping N-Glycosylation Sites across Seven Evolutionarily Distant Species Reveals a Divergent Substrate Proteome Despite a Common Core Machinery

(2012) Dorota F. Zielinska et al.   MOLECULAR CELL

Selected reaction monitoring–based proteomics: workflows, potential, pitfalls and future directions

(2012) Paola Picotti et al.   NATURE METHODS

ROR1 Is Expressed in Human Breast Cancer and Associated with Enhanced Tumor-Cell Growth

(2012) Suping Zhang et al.   PLoS One

Selected reaction monitoring applied to proteomics

(2011) Sebastien Gallien et al.   JOURNAL OF MASS SPECTROMETRY

Glycoprotein Profiles of Human Breast Cells Demonstrate a Clear Clustering of Normal/Benign versus Malignant Cell Lines and Basal versus Luminal Cell Lines

(2011) Ten-Yang Yen et al.   JOURNAL OF PROTEOME RESEARCH

Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment

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

Ultra High Resolution Linear Ion Trap Orbitrap Mass Spectrometer (Orbitrap Elite) Facilitates Top Down LC MS/MS and Versatile Peptide Fragmentation Modes

(2011) Annette Michalski 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

A High-Confidence Human Plasma Proteome Reference Set with Estimated Concentrations in PeptideAtlas

(2011) Terry Farrah et al.   MOLECULAR & CELLULAR PROTEOMICS

Breast cancer cells produce tenascin C as a metastatic niche component to colonize the lungs

(2011) Thordur Oskarsson et al.   NATURE MEDICINE

Large-scale phosphosite quantification in tissues by a spike-in SILAC method

(2011) Mara Monetti et al.   NATURE METHODS

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Use of stable isotope labeling by amino acids in cell culture as a spike-in standard in quantitative proteomics

(2011) Tamar Geiger et al.   Nature Protocols

Emerging molecular biomarkers—blood-based strategies to detect and monitor cancer

(2011) Samir M. Hanash et al.   Nature Reviews Clinical Oncology

A Systematic Analysis of Eluted Fraction of Plasma Post Immunoaffinity Depletion: Implications in Biomarker Discovery

(2011) Amit Kumar Yadav et al.   PLoS One

LIV-1 Promotes Prostate Cancer Epithelial-to-Mesenchymal Transition and Metastasis through HB-EGF Shedding and EGFR-Mediated ERK Signaling

(2011) Hui-Wen Lue et al.   PLoS One

FGFR1 Amplification Drives Endocrine Therapy Resistance and Is a Therapeutic Target in Breast Cancer

(2010) N. Turner et al.   CANCER RESEARCH

Precision Mapping of an In Vivo N-Glycoproteome Reveals Rigid Topological and Sequence Constraints

(2010) Dorota F. Zielinska et al.   CELL

Optimizing Performance of Glycopeptide Capture for Plasma Proteomics

(2010) Frode S. Berven et al.   JOURNAL OF PROTEOME RESEARCH

Mining the Plasma Proteome for Disease Applications Across Seven Logs of Protein Abundance

(2010) Q. Zhang et al.   JOURNAL OF PROTEOME RESEARCH

The cancer cell secretome: A good source for discovering biomarkers?

(2010) Maria P. Pavlou et al.   Journal of Proteomics

Secretome proteomics for discovery of cancer biomarkers

(2010) Manousos Makridakis et al.   Journal of Proteomics

Candidate Serological Biomarkers for Cancer Identified from the Secretomes of 23 Cancer Cell Lines and the Human Protein Atlas

(2010) Chih-Ching Wu et al.   MOLECULAR & CELLULAR PROTEOMICS

Cancer secretomics reveal pathophysiological pathways in cancer molecular oncology

(2010) George S. Karagiannis et al.   Molecular Oncology

Towards a knowledge-based Human Protein Atlas

(2010) Mathias Uhlen et al.   NATURE BIOTECHNOLOGY

Super-SILAC mix for quantitative proteomics of human tumor tissue

(2010) Tamar Geiger et al.   NATURE METHODS

Conditioned media from cell lines: A complementary model to clinical specimens for the discovery of disease-specific biomarkers

(2010) Paul Dowling et al.   PROTEOMICS

Epithelial-Mesenchymal Transitions in Development and Disease

(2009) Jean Paul Thiery et al.   CELL

Sweetening the Pot: Adding Glycosylation to the Biomarker Discovery Equation

(2009) P. M. Drake et al.   CLINICAL CHEMISTRY

N-Glycans in cancer progression

(2008) K. S Lau et al.   GLYCOBIOLOGY

Crystal Structure of the Novel Complex Formed between Zinc α2-Glycoprotein (ZAG) and Prolactin-Inducible Protein (PIP) from Human Seminal Plasma

(2008) Md. Imtaiyaz Hassan et al.   JOURNAL OF MOLECULAR BIOLOGY

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