Cancer proteogenomics: current impact and future prospects
Genomic analyses in cancer have been enormously impactful, leading to the identification of
driver mutations and development of targeted therapies. But the functions of the vast majority …
driver mutations and development of targeted therapies. But the functions of the vast majority …
Recent advances of small extracellular vesicle biomarkers in breast cancer diagnosis and prognosis
Y Lee, J Ni, J Beretov, VC Wasinger, P Graham, Y Li - Molecular cancer, 2023 - Springer
Current clinical tools for breast cancer (BC) diagnosis are insufficient but liquid biopsy of
different bodily fluids has recently emerged as a minimally invasive strategy that provides a …
different bodily fluids has recently emerged as a minimally invasive strategy that provides a …
Reproducible workflow for multiplexed deep-scale proteome and phosphoproteome analysis of tumor tissues by liquid chromatography–mass spectrometry
Here we present an optimized workflow for global proteome and phosphoproteome analysis
of tissues or cell lines that uses isobaric tags (TMT (tandem mass tags)-10) for multiplexed …
of tissues or cell lines that uses isobaric tags (TMT (tandem mass tags)-10) for multiplexed …
A review on quantitative multiplexed proteomics
N Pappireddi, L Martin, M Wühr - Chembiochem, 2019 - Wiley Online Library
Over the last few decades, mass spectrometry‐based proteomics has become an
increasingly powerful tool that is now able to routinely detect and quantify thousands of …
increasingly powerful tool that is now able to routinely detect and quantify thousands of …
MultiNotch MS3 enables accurate, sensitive, and multiplexed detection of differential expression across cancer cell line proteomes
GC McAlister, DP Nusinow, MP Jedrychowski… - Analytical …, 2014 - ACS Publications
Multiplexed quantitation via isobaric chemical tags (eg, tandem mass tags (TMT) and
isobaric tags for relative and absolute quantitation (iTRAQ)) has the potential to revolutionize …
isobaric tags for relative and absolute quantitation (iTRAQ)) has the potential to revolutionize …
Protein analysis by shotgun/bottom-up proteomics
According to Genome Sequencing Project statistics (http://www. ncbi. nlm. nih.
gov/genomes/static/gpstat. html), as of February 16, 2012, complete gene sequences have …
gov/genomes/static/gpstat. html), as of February 16, 2012, complete gene sequences have …
Isobaric labeling-based relative quantification in shotgun proteomics
N Rauniyar, JR Yates III - Journal of proteome research, 2014 - ACS Publications
Mass spectrometry plays a key role in relative quantitative comparisons of proteins in order
to understand their functional role in biological systems upon perturbation. In this review, we …
to understand their functional role in biological systems upon perturbation. In this review, we …
NOREVA: normalization and evaluation of MS-based metabolomics data
Diverse forms of unwanted signal variations in mass spectrometry-based metabolomics data
adversely affect the accuracies of metabolic profiling. A variety of normalization methods …
adversely affect the accuracies of metabolic profiling. A variety of normalization methods …
Thermal proteome profiling for interrogating protein interactions
Thermal proteome profiling (TPP) is based on the principle that, when subjected to heat,
proteins denature and become insoluble. Proteins can change their thermal stability upon …
proteins denature and become insoluble. Proteins can change their thermal stability upon …
Benchmarking common quantification strategies for large-scale phosphoproteomics
A Hogrebe, L von Stechow, DB Bekker-Jensen… - Nature …, 2018 - nature.com
Comprehensive mass spectrometry (MS)-based proteomics is now feasible, but
reproducible quantification remains challenging, especially for post-translational …
reproducible quantification remains challenging, especially for post-translational …