Comparative analysis of mRNA and protein degradation in prostate tissues indicates high stability of proteins
Deterioration of biomolecules in clinical tissues is an inevitable pre-analytical process, which
affects molecular measurements and thus potentially confounds conclusions from cohort …
affects molecular measurements and thus potentially confounds conclusions from cohort …
Tandem mass spectral libraries of peptides and their roles in proteomics research
W Shao, H Lam - Mass spectrometry reviews, 2017 - Wiley Online Library
Proteomics is a rapidly maturing field aimed at the high‐throughput identification and
quantification of all proteins in a biological system. The cornerstone of proteomic technology is …
quantification of all proteins in a biological system. The cornerstone of proteomic technology is …
The SysteMHC atlas project
W Shao, PGA Pedrioli, W Wolski… - Nucleic acids …, 2018 - academic.oup.com
Mass spectrometry (MS)-based immunopeptidomics investigates the repertoire of peptides
presented at the cell surface by major histocompatibility complex (MHC) molecules. The …
presented at the cell surface by major histocompatibility complex (MHC) molecules. The …
Systematic proteome and proteostasis profiling in human Trisomy 21 fibroblast cells
Down syndrome (DS) is mostly caused by a trisomy of the entire Chromosome 21 (Trisomy
21, T21). Here, we use SWATH mass spectrometry to quantify protein abundance and protein …
21, T21). Here, we use SWATH mass spectrometry to quantify protein abundance and protein …
Integrated multi-omics reveals anaplerotic rewiring in methylmalonyl-CoA mutase deficiency
Methylmalonic aciduria (MMA) is an inborn error of metabolism with multiple monogenic
causes and a poorly understood pathogenesis, leading to the absence of effective causal …
causes and a poorly understood pathogenesis, leading to the absence of effective causal …
A computational framework for the inference of protein complex remodeling from whole-proteome measurements
…, P Blattmann, F Meier-Abt, W Shao… - Nature …, 2023 - nature.com
Protein complexes are responsible for the enactment of most cellular functions. For the protein
complex to form and function, its subunits often need to be present at defined quantitative …
complex to form and function, its subunits often need to be present at defined quantitative …
The SysteMHC Atlas v2. 0, an updated resource for mass spectrometry-based immunopeptidomics
The SysteMHC Atlas v1.0 was the first public repository dedicated to mass spectrometry-based
immunopeptidomics. Here we introduce a newly released version of the SysteMHC Atlas …
immunopeptidomics. Here we introduce a newly released version of the SysteMHC Atlas …
DPHL: a DIA pan-human protein mass spectrometry library for robust biomarker discovery
To address the increasing need for detecting and validating protein biomarkers in clinical
specimens, mass spectrometry (MS)-based targeted proteomic techniques, including the …
specimens, mass spectrometry (MS)-based targeted proteomic techniques, including the …
Understanding the improved sensitivity of spectral library searching over sequence database searching in proteomics data analysis
Spectral library searching has been recently proposed as an alternative to sequence database
searching for peptide identification from MS/MS. We performed a systematic comparison …
searching for peptide identification from MS/MS. We performed a systematic comparison …
A tissue-based draft map of the murine MHC class I immunopeptidome
The large array of peptides presented to CD8+ T cells by major histocompatibility complex (MHC)
class I molecules is referred to as the MHC class I immunopeptidome. Although the …
class I molecules is referred to as the MHC class I immunopeptidome. Although the …