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ProteomicsCircadian regulation of macromolecular complex turnover and proteome renewal
Although costly to maintain, protein homeostasis is indispensable for normal cellular function and long-term health. In mammalian cells and tissues, daily variation in global protein synthesis has been observed, but its utility and consequences for proteome integrity are not fully understood. Usi...
ORGANISM(S): Mus musculus (Mouse) 
2024-05-16 | PXD049176 | Pride
Circardian rhythms Protein homoestasis Psilac_tmt Complex turnover 
TranscriptomicsExpression profiles of the NuB4/HAT-B complex and histone knockouts
Dynamic modification of histone proteins plays a key role in regulating gene expression. However, histones themselves can also be dynamic, which potentially affects the stability of histone modifications. To determine the molecular mechanisms of histone turnover we developed a parallel screening met...
ORGANISM(S): Saccharomyces cerevisiae 
2012-05-14 | E-GEOD-30168 | biostudies-arrayexpress
GenomicsA dual-activity topoisomerase complex regulates mRNA translation and turnover
A dual-activity topoisomerase complex regulates mRNA translation and turnover
PRJNA779461 | ENA
ProteomicsCardiomyocyte Contractile Impairment in Heart Failure Results from Reduced BAG3-mediated Sarcomeric Protein Turnover
The association between reduced myofilament force-generating capacity (Fmax) and heart failure (HF) is clear, however the underlying molecular mechanisms are poorly understood. Here, we show impaired Fmax arises from reduced BAG3-mediated sarcomere turnover. Myofilament BAG3 expression decreases in ...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Mus Musculus (ncbitaxon:10090) 
2020-11-06 | MSV000086422 | MassIVE
GenomicsGenome-wide incorporation dynamics reveal distinct categories of turnover for the histone variant H3.3
We developed a system to study the DNA replication-independent turnover nucleosomes containing the histone variant H3.3 in mammalian cells. By measuring the genome-wide incorporation of H3.3 at different time points following epitope-tagged H3.3 expression, we find three categories of H3.3-nucleosom...
ORGANISM(S): Mus musculus 
2013-10-23 | E-GEOD-51505 | biostudies-arrayexpress
ProteomicsDynamic complexome profiling identifies impaired turnover of specific complex I subunits in a patient with mutations in DNAJC30.
We identified DNAJC30 as a key protein in the maintenance of functional NADH:ubiquinone oxidoreductase (complex I). To determine the turnover rates of modules in complex I, we pulsed patient and control fibroblast cell lines over 12 hours with heavy amino acids (PulseSILAC) followed by dynamic compl...
ORGANISM(S): Homo sapiens (Human) 
2021-09-09 | PXD021499 | Pride
Oxidative phosphorylation system Protein turnover Lc-msms Complexome profiling Complex i maintenance Complex i assembly 
ProteomicsLinking post-translational modifications and protein turnover by site-resolved protein turnover (SPOT) profiling
Proteome-wide measurements of protein turnover have largely ignored the impact of post-translational modifications (PTMs). To address this gap, we employ stable isotope labelling and mass spectrometry to measure the turnover of >120,000 peptidoforms including >33,000 phosphorylated, acetylated, and ...
ORGANISM(S): Homo Sapiens 
2022-03-14 | PXD023234 | panorama
ProteomicsA Systematic Protein Turnover Map for Decoding Protein Degradation
Protein degradation is mediated by an expansive and complex network of protein modification and degradation enzymes. Matching degradation enzymes with their targets and determining globally which proteins are degraded by the proteasome or lysosome/vacuole have been a major challenge. Furthermore, an...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-01-05 | PXD008706 | Pride
Profiling Turnover Pulse silac Yeast 
ProteomicsProtein turnover rates within mitochondrial complexes in mitochondrial disease patients and in a DNAJC30 knock-out cell line
We identified DNAJC30 as a key protein in the maintenance of functional NADH:ubiquinone oxidoreductase (complex I). To determine the turnover rates of modules in complex I and other mitochondrial complexes, we pulsed both patient and control fibroblast cell lines and a DNAJC30 knock-out HEK and cont...
ORGANISM(S): Homo sapiens (Human) 
2021-09-09 | PXD021548 | Pride
Oxidative phosphorylation system Protein turnover Lc-msms Complexome profiling Complex i maintenance Complex i assembly 
ProteomicsIn Vivo Protein Turnover Rates in Varying Oxygen Tensions Nominate MYBBP1A as a Novel Mediator of the Hyperoxia Response
Oxygen deprivation and excess are both toxic to mammals. Thus, the ability to adapt to varying oxygen tensions is critical for survival. While the transcriptional response to acute hypoxia has been well-studied, the post-translational effects of hypoxia and hyperoxia have been underexplored. In this...
ORGANISM(S): Mus Musculus (ncbitaxon:10090) 
2023-06-04 | MSV000092095 | MassIVE
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