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 …

Quantitative, high-resolution proteomics for data-driven systems biology

J Cox, M Mann - Annual review of biochemistry, 2011 - annualreviews.org
Systems biology requires comprehensive data at all molecular levels. Mass spectrometry
(MS)-based proteomics has emerged as a powerful and universal method for the global …

OpenCell: Endogenous tagging for the cartography of human cellular organization

NH Cho, KC Cheveralls, AD Brunner, K Kim… - Science, 2022 - science.org
Elucidating the wiring diagram of the human cell is a central goal of the postgenomic era.
We combined genome engineering, confocal live-cell imaging, mass spectrometry, and data …

ALIX-and ESCRT-III–dependent sorting of tetraspanins to exosomes

J Larios, V Mercier, A Roux, J Gruenberg - Journal of Cell Biology, 2020 - rupress.org
The intraluminal vesicles (ILVs) of endosomes mediate the delivery of activated signaling
receptors and other proteins to lysosomes for degradation, but they also modulate …

ESCRT-dependent membrane repair negatively regulates pyroptosis downstream of GSDMD activation

S Rühl, K Shkarina, B Demarco, R Heilig, JC Santos… - Science, 2018 - science.org
Pyroptosis is a lytic form of cell death that is induced by inflammatory caspases upon
activation of the canonical or noncanonical inflammasome pathways. These caspases …

[HTML][HTML] A molecular grammar governing the driving forces for phase separation of prion-like RNA binding proteins

J Wang, JM Choi, AS Holehouse, HO Lee, X Zhang… - Cell, 2018 - cell.com
Proteins such as FUS phase separate to form liquid-like condensates that can harden into
less dynamic structures. However, how these properties emerge from the collective …

RNA buffers the phase separation behavior of prion-like RNA binding proteins

S Maharana, J Wang, DK Papadopoulos, D Richter… - Science, 2018 - science.org
Prion-like RNA binding proteins (RBPs) such as TDP43 and FUS are largely soluble in the
nucleus but form solid pathological aggregates when mislocalized to the cytoplasm. What …

ESCRT‐mediated lysosome repair precedes lysophagy and promotes cell survival

M Radulovic, KO Schink, EM Wenzel, V Nähse… - The EMBO …, 2018 - embopress.org
Although lysosomes perform a number of essential cellular functions, damaged lysosomes
represent a potential hazard to the cell. Such lysosomes are therefore engulfed by …

Genome-wide and high-density CRISPR-Cas9 screens identify point mutations in PARP1 causing PARP inhibitor resistance

SJ Pettitt, DB Krastev, I Brandsma, A Dréan… - Nature …, 2018 - nature.com
Although PARP inhibitors (PARPi) target homologous recombination defective tumours,
drug resistance frequently emerges, often via poorly understood mechanisms. Here, using …

An aberrant phase transition of stress granules triggered by misfolded protein and prevented by chaperone function

D Mateju, TM Franzmann, A Patel, A Kopach… - The EMBO …, 2017 - embopress.org
Stress granules (SG) are membrane‐less compartments involved in regulating mRNAs
during stress. Aberrant forms of SGs have been implicated in age‐related diseases, such as …