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TranscriptomicsAbsolute quantification of protein production reveals principles underlying protein synthesis rates
A quantitative view of cellular functions requires precise measures of the rates of biomolecule production, especially proteins-the direct effectors of biological processes. Here we present a genome-wide approach, based on ribosome profiling, for measuring absolute protein synthesis rates. The resul...
ORGANISM(S): Escherichia coli 
2014-04-24 | E-GEOD-53767 | biostudies-arrayexpress
ProteomicsIntegrated lysine acetylation stoichiometry and proteomics analysis in human cells
Lysine acetylation is a widespread posttranslational modification that targets a large number of biological pathways. Recent studies reveal that lysine acetylation sites exhibit mainly low stoichiometry. Here we explored three sample preparation methods, the use of detergents for the chemical acetyl...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-11-09 | MSV000081704 | MassIVE
ProteomicsReduced proteasome activity in the aging brainresults in ribosome stoichiometry loss and aggregation
A progressive loss of protein homeostasis is characteristic of aging and a driver of neurodegeneration. To investigate this process quantitatively, we characterized proteome dynamics during brain aging in the short-lived vertebrate Nothobranchius furzeri combining transcriptomics and proteomics. We ...
ORGANISM(S): Nothobranchius furzeri 
2020-06-19 | PXD012314 | Pride
Brain Proteasome activity Ribosome stoichiometry Aging Aggregation 
ProteomicsReduced proteasome activity in the aging brainresults in ribosome stoichiometry loss and aggregation
A progressive loss of protein homeostasis is characteristic of aging and a driver of neurodegeneration. To investigate this process quantitatively, we characterized proteome dynamics during brain aging in the short-lived vertebrate Nothobranchius furzeri combining transcriptomics and proteomics. We ...
ORGANISM(S): Mus musculus (Mouse) Nothobranchius furzeri 
2020-08-17 | PXD018399 | Pride
Proteasome activity Aging brain Ribosome stoichiometry Aggregation 
TranscriptomicsCardiac mitochondrial function depends on BUD23 mediated ribosome programming
Efficient mitochondrial function is required in tissues with high energy demand such as the heart, and mitochondrial dysfunction is associated with cardiovascular disease. Expression of mitochondrial proteins is tightly regulated in response to internal and external stimuli. Here we identify a novel...
ORGANISM(S): Homo sapiens 
2020-01-23 | E-MTAB-8673 | biostudies-arrayexpress
ProteomicsIntegrated lysine acetylation stoichiometry and proteomics analysis in human cells
Lysine acetylation is a widespread posttranslational modification that targets a large number of biological pathways. Recent studies reveal that lysine acetylation sites exhibit mainly low stoichiometry. Here we explored three sample preparation methods, the use of detergents for the chemical acetyl...
ORGANISM(S): Homo sapiens (Human) 
2017-09-12 | PXD005903 | Pride
Deacetylase inhibitor Sirt1 Cancer cells Lysine acetylation Stoichiometry Proteomics 
ProteomicsReduced proteasome activity in the aging brain results in ribosome stoichiometry loss and aggregation
A progressive loss of protein homeostasis is characteristic of aging and a driver of neurodegeneration. To investigate this process quantitatively, we characterized proteome dynamics during brain aging in the short-lived vertebrate Nothobranchius furzeri combining transcriptomics and proteomics. We ...
ORGANISM(S): Nothobranchius furzeri 
2020-06-22 | PXD016459 | Pride
Transcriptome Brain Ribosome Aging Protein complex Proteome Proteasome Aggregation Stoichiometry 
ProteomicsReduced proteasome activity in the aging brain results in ribosome stoichiometry loss and aggregation
A progressive loss of protein homeostasis is characteristic of aging and a driver of neurodegeneration. To investigate this process quantitatively, we characterized proteome dynamics during brain aging in the short-lived vertebrate Nothobranchius furzeri combining transcriptomics and proteomics. We ...
ORGANISM(S): Struthio camelus (Ostrich) Pisum sativum (Garden pea) Mus musculus (Mouse) Olea europaea (Common olive) Nothobranchius furzeri Vigna mungo (Rice bean) (Black gram) Pongo pygmaeus (Bornean orangutan) Sus scrofa domesticus (domestic pig) Merluccius bilinearis (Silver hake) Rattus rattus (Black rat) Mesocricetus auratus (Golden hamster) Zea mays (Maize) Rattus norvegicus (Rat) Taeniopygia guttata (Zebra finch) (Poephila guttata) Pan troglodytes (Chimpanzee) Trypanosoma brucei Pinus radiata (Monterey pine) Nicotiana tabacum (Common tobacco) Oryza sativa (Rice) Vitis vinifera (Grape) Ricinus communis Solanum tuberosum (Potato) Triticum aestivum (Wheat) Saccharomyces cerevisiae (Baker's yeast) Yarrowia lipolytica (Candida lipolytica) Xenopus laevis (African clawed frog) Staphylococcus aureus 
2020-06-22 | PXD016587 | Pride
Transcriptome Brain Ribosome Aging Protein complex Proteasome Stoichiometry Proteome Aggregation 
ProteomicsDifferential stoichiometry among core ribosomal proteins
Understanding the regulation and structure of ribosomes is essential to understanding protein synthesis and its dysregulation in disease. While ribosomes are believed to have a fixed stoichiometry among their core ribosomal proteins (RPs), some experiments suggest a more variable composition. Testi...
ORGANISM(S): Saccharomycetales (ncbitaxon:4892) Mus Musculus (ncbitaxon:10090) 
2015-08-28 | MSV000079280 | MassIVE
GenomicsEvolutionary Convergence of Pathway-specific Enzyme Expression Stoichiometry
Evolutionary Convergence of Pathway-specific Enzyme Expression Stoichiometry
PRJNA376419 | ENA
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