Next-generation proteomics: towards an integrative view of proteome dynamics

AFM Altelaar, J Munoz, AJR Heck - Nature Reviews Genetics, 2013 - nature.com
Next-generation sequencing allows the analysis of genomes, including those representing
disease states. However, the causes of most disorders are multifactorial, and systems-level …

Targeted quantitation of proteins by mass spectrometry

DC Liebler, LJ Zimmerman - Biochemistry, 2013 - ACS Publications
Quantitative measurement of proteins is one of the most fundamental analytical tasks in a
biochemistry laboratory, but widely used immunochemical methods often have limited …

Connectomic comparison of mouse and human cortex

S Loomba, J Straehle, V Gangadharan, N Heike… - Science, 2022 - science.org
The human cerebral cortex houses 1000 times more neurons than that of the cerebral cortex
of a mouse, but the possible differences in synaptic circuits between these species are still …

TMTpro reagents: a set of isobaric labeling mass tags enables simultaneous proteome-wide measurements across 16 samples

J Li, JG Van Vranken, L Pontano Vaites… - Nature …, 2020 - nature.com
Isobaric labeling empowers proteome-wide expression measurements simultaneously
across multiple samples. Here an expanded set of 16 isobaric reagents based on an …

Integrative proteomics and phosphoproteomics profiling reveals dynamic signaling networks and bioenergetics pathways underlying T cell activation

H Tan, K Yang, Y Li, TI Shaw, Y Wang, DB Blanco… - Immunity, 2017 - cell.com
The molecular circuits by which antigens activate quiescent T cells remain poorly
understood. We combined temporal profiling of the whole proteome and phosphoproteome …

The one hour yeast proteome

AS Hebert, AL Richards, DJ Bailey, A Ulbrich… - Molecular & Cellular …, 2014 - ASBMB
We describe the comprehensive analysis of the yeast proteome in just over one hour of
optimized analysis. We achieve this expedited proteome characterization with improved …

Calorie restriction and SIRT3 trigger global reprogramming of the mitochondrial protein acetylome

AS Hebert, KE Dittenhafer-Reed, W Yu, DJ Bailey… - Molecular cell, 2013 - cell.com
Calorie restriction (CR) extends life span in diverse species. Mitochondria play a key role in
CR adaptation; however, the molecular details remain elusive. We developed and applied a …

Quantitative phosphoproteomic analysis of the molecular substrates of sleep need

Z Wang, J Ma, C Miyoshi, Y Li, M Sato, Y Ogawa, T Lou… - Nature, 2018 - nature.com
Sleep and wake have global effects on brain physiology, from molecular changes,,–and
neuronal activities to synaptic plasticity,,,–. Sleep–wake homeostasis is maintained by the …

[HTML][HTML] Structurally distinct Ca2+ signaling domains of sperm flagella orchestrate tyrosine phosphorylation and motility

JJ Chung, SH Shim, RA Everley, SP Gygi, X Zhuang… - Cell, 2014 - cell.com
Spermatozoa must leave one organism, navigate long distances, and deliver their paternal
DNA into a mature egg. For successful navigation and delivery, a sperm-specific calcium …

Quantitative phosphoproteomics of the ataxia telangiectasia-mutated (ATM) and ataxia telangiectasia-mutated and Rad3-related (ATR) dependent DNA damage …

E Roitinger, M Hofer, T Köcher, P Pichler… - Molecular & Cellular …, 2015 - ASBMB
The reversible phosphorylation of proteins on serine, threonine, and tyrosine residues is an
important biological regulatory mechanism. In the context of genome integrity, signaling …