Recent advances in mass spectrometry based clinical proteomics: applications to cancer research

A Macklin, S Khan, T Kislinger - Clinical proteomics, 2020 - Springer
Cancer biomarkers have transformed current practices in the oncology clinic. Continued
discovery and validation are crucial for improving early diagnosis, risk stratification, and …

Subcellular proteomics

JA Christopher, C Stadler, CE Martin… - Nature Reviews …, 2021 - nature.com
The eukaryotic cell is compartmentalized into subcellular niches, including membrane-
bound and membrane-less organelles. Proteins localize to these niches to fulfil their …

Integrated proteogenomic characterization of human high-grade serous ovarian cancer

H Zhang, T Liu, Z Zhang, SH Payne, B Zhang… - Cell, 2016 - cell.com
To provide a detailed analysis of the molecular components and underlying mechanisms
associated with ovarian cancer, we performed a comprehensive mass-spectrometry-based …

Proteogenomic characterization of human colon and rectal cancer

B Zhang, J Wang, X Wang, J Zhu, Q Liu, Z Shi… - Nature, 2014 - nature.com
Extensive genomic characterization of human cancers presents the problem of inference
from genomic abnormalities to cancer phenotypes. To address this problem, we analysed …

[HTML][HTML] A tissue-specific atlas of mouse protein phosphorylation and expression

EL Huttlin, MP Jedrychowski, JE Elias, T Goswami… - Cell, 2010 - cell.com
Although most tissues in an organism are genetically identical, the biochemistry of each is
optimized to fulfill its unique physiological roles, with important consequences for human …

[HTML][HTML] The microbiome and butyrate regulate energy metabolism and autophagy in the mammalian colon

DR Donohoe, N Garge, X Zhang, W Sun, TM O'Connell… - Cell metabolism, 2011 - cell.com
The microbiome is being characterized by large-scale sequencing efforts, yet it is not known
whether it regulates host metabolism in a general versus tissue-specific manner or which …

Increasing the multiplexing capacity of TMTs using reporter ion isotopologues with isobaric masses

GC McAlister, EL Huttlin, W Haas, L Ting… - Analytical …, 2012 - ACS Publications
Quantitative mass spectrometry methods offer near-comprehensive proteome coverage;
however, these methods still suffer with regards to sample throughput. Multiplex quantitation …

The proteogenomic landscape of curable prostate cancer

A Sinha, V Huang, J Livingstone, J Wang, NS Fox… - Cancer Cell, 2019 - cell.com
DNA sequencing has identified recurrent mutations that drive the aggressiveness of prostate
cancers. Surprisingly, the influence of genomic, epigenomic, and transcriptomic …

Combining LOPIT with differential ultracentrifugation for high-resolution spatial proteomics

A Geladaki, N Kočevar Britovšek, LM Breckels… - Nature …, 2019 - nature.com
The study of protein localisation has greatly benefited from high-throughput methods
utilising cellular fractionation and proteomic profiling. Hyperplexed Localisation of Organelle …

[HTML][HTML] A mitochondrial protein compendium elucidates complex I disease biology

DJ Pagliarini, SE Calvo, B Chang, SA Sheth, SB Vafai… - Cell, 2008 - cell.com
Mitochondria are complex organelles whose dysfunction underlies a broad spectrum of
human diseases. Identifying all of the proteins resident in this organelle and understanding …