Evaluation of Disposable Trap Column nanoLC–FAIMS–MS/MS for the Proteomic Analysis of FFPE Tissue

Comprehensive micro-scaled proteome and phosphoproteome characterization of archived retrospective cancer repositories

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A Compact Quadrupole-Orbitrap Mass Spectrometer with FAIMS Interface Improves Proteome Coverage in Short LC Gradients

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Automated sample preparation with SP 3 for low‐input clinical proteomics

(2020) Torsten Müller et al.   Molecular Systems Biology

A streamlined mass spectrometry–based proteomics workflow for large‐scale FFPE tissue analysis

(2020) Fabian Coscia et al.   JOURNAL OF PATHOLOGY

Spatially resolved analysis of FFPE tissue proteomes by quantitative mass spectrometry

(2020) Katarzyna Buczak et al.   Nature Protocols

Prosit: proteome-wide prediction of peptide tandem mass spectra by deep learning

(2019) Siegfried Gessulat et al.   NATURE METHODS

High‐throughput proteomic analysis of FFPE tissue samples facilitates tumor stratification

(2019) Yi Zhu et al.   Molecular Oncology

Comprehensive Single-Shot Proteomics with FAIMS on a Hybrid Orbitrap Mass Spectrometer

(2018) Alexander S. Hebert et al.   ANALYTICAL CHEMISTRY

A novel differential ion mobility device expands the depth of proteome coverage and the sensitivity of multiplex proteomic measurements

(2018) Sibylle Pfammatter et al.   MOLECULAR & CELLULAR PROTEOMICS

A novel LC system embeds analytes in pre-formed gradients for rapid, ultra-robust proteomics

(2018) Nicolai Bache et al.   MOLECULAR & CELLULAR PROTEOMICS

Data-Independent Acquisition Mass Spectrometry To Quantify Protein Levels in FFPE Tumor Biopsies for Molecular Diagnostics

(2018) Yeoun Jin Kim et al.   JOURNAL OF PROTEOME RESEARCH

Single-pot, solid-phase-enhanced sample preparation for proteomics experiments

(2018) Christopher S. Hughes et al.   Nature Protocols

Loss-less Nano-fractionator for High Sensitivity, High Coverage Proteomics

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The MaxQuant computational platform for mass spectrometry-based shotgun proteomics

(2016) Stefka Tyanova et al.   Nature Protocols

Proteomic maps of breast cancer subtypes

(2016) Stefka Tyanova et al.   Nature Communications

System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis

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Quantitative Profiling of Single Formalin Fixed Tumour Sections: proteomics for translational research

(2016) Christopher S. Hughes et al.   Scientific Reports

Enhancement of mass spectrometry performance for proteomic analyses using high-field asymmetric waveform ion mobility spectrometry (FAIMS)

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Ion Mobility Tandem Mass Spectrometry Enhances Performance of Bottom-up Proteomics

(2014) Dominic Helm et al.   MOLECULAR & CELLULAR PROTEOMICS

Toward deciphering proteomes of formalin-fixed paraffin-embedded (FFPE) tissues

(2012) Sameh Magdeldin et al.   PROTEOMICS

Global quantification of mammalian gene expression control

(2011) Björn Schwanhäusser et al.   NATURE

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