An introduction to mass spectrometry-based proteomics

SR Shuken - Journal of proteome research, 2023‏ - ACS Publications
Mass spectrometry is unmatched in its versatility for studying practically any aspect of the
proteome. Because the foundations of mass spectrometry-based proteomics are complex …

Adding intrinsically disordered proteins to biological ageing clocks

D Dormann, EA Lemke - Nature Cell Biology, 2024‏ - nature.com
Research into how the young and old differ, and which biomarkers reflect the diverse
biological processes underlying ageing, is a current and fast-growing field. Biological clocks …

APOE modulates microglial immunometabolism in response to age, amyloid pathology, and inflammatory challenge

S Lee, NA Devanney, LR Golden, CT Smith… - Cell reports, 2023‏ - cell.com
The E4 allele of Apolipoprotein E (APOE) is associated with both metabolic dysfunction and
a heightened pro-inflammatory response: two findings that may be intrinsically linked …

Versican promotes cardiomyocyte proliferation and cardiac repair

J Feng, Y Li, Y Li, Q Yin, H Li, J Li, B Zhou, J Meng… - Circulation, 2024‏ - ahajournals.org
BACKGROUND: The adult mammalian heart is incapable of regeneration, whereas a
transient regenerative capacity is maintained in the neonatal heart, primarily through the …

Mass Spectrometry Structural Proteomics Enabled by Limited Proteolysis and Cross‐Linking

H Lu, Z Zhu, L Fields, H Zhang… - Mass Spectrometry …, 2024‏ - Wiley Online Library
The exploration of protein structure and function stands at the forefront of life science and
represents an ever‐expanding focus in the development of proteomics. As mass …

Costs and Benefits of Popular P-Value Correction Methods in Three Models of Quantitative Omic Experiments

SR Shuken, MW McNerney - Analytical chemistry, 2023‏ - ACS Publications
The multiple hypothesis testing problem is inherent in large-scale quantitative “omic”
experiments such as mass spectrometry-based proteomics. Yet, tools for comparing the …

The choroid plexus maintains adult brain ventricles and subventricular zone neuroblast pool, which facilitates poststroke neurogenesis

A Taranov, A Bedolla, E Iwasawa, FN Brown… - Proceedings of the …, 2024‏ - pnas.org
The brain's neuroreparative capacity after injuries such as ischemic stroke is partly
contained in the brain's neurogenic niches, primarily the subventricular zone (SVZ), which …

Global analysis of aging-related protein structural changes uncovers enzyme-polymerization-based control of longevity

J Paukštytė, RML Cabezas, Y Feng, K Tong… - Molecular Cell, 2023‏ - cell.com
Aging is associated with progressive phenotypic changes. Virtually all cellular phenotypes
are produced by proteins, and their structural alterations can lead to age-related diseases …

FLiPPR: a processor for limited proteolysis (LiP) mass spectrometry data sets built on FragPipe

E Manriquez-Sandoval, J Brewer, G Lule… - Journal of Proteome …, 2024‏ - ACS Publications
Here, we present FLiPPR, or FragPipe LiP (limited proteolysis) Processor, a tool that
facilitates the analysis of data from limited proteolysis mass spectrometry (LiP-MS) …

[HTML][HTML] Navigating the Neuroimmunomodulation Frontier: Pioneering Approaches and Promising Horizons—A Comprehensive Review

A Krsek, L Ostojic, D Zivalj, L Baticic - International Journal of Molecular …, 2024‏ - mdpi.com
The research in neuroimmunomodulation aims to shed light on the complex relationships
that exist between the immune and neurological systems and how they affect the human …