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ProteomicsProteomic Analysis of fly brain cytoplasmic RNP granules containing the lncRNA mimi
In neurons, mRNAs and associated RNA-binding proteins assemble into ribonucleoprotein (RNP) granules essential to regulate mRNA trafficking, local translation, and turnover. Dysregulation of RNA-protein condensation can disturb synaptic plasticity. We report that the novel lncRNA mimi is a constitut...
ORGANISM(S): Drosophila melanogaster (Fruit fly) 
2022-10-12 | PXD034453 | Pride
Rnp granules  fly brain  neurons  lncrna mimi Fne  rbp9 Drosophila  relative ibaq  quantitative proteomics 
ProteomicsTMT and Label-Free Quantification of Yeast Mitochondrial and Cellular Proteome During Different Stages of Growth
Tandem mass tag (TMT)-based relative quantification was used in combination with the intensity-based absolute quantity estimation (IBAQ) to study of both yeast cells and isolated yeast mitochondria during fermentative growth, diauxic shift, respiratory growth.
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-03-06 | PXD012802 | Pride
Lc-ms Intensity-based absolute quantification Saccharomyces cerevisiae Label-free quantification Tandem mass tag Diauxic shift 
ProteomicsAdaptations in metabolism and protein translation give rise to the Crabtree effect in yeast
We have studied Schizosaccharomyces pombe, Saccharomyces cerevisiae, Scheffersomyces (Pichia) stipites, and Kluyveromyces marxianus yeast using the modified IBAQ label-free method with the spiked universal protein standard (UPS2). Each species had been prepared in 3 culturing replicates, and the sim...
ORGANISM(S): Kluyveromyces marxianus Scheffersomyces stipitis Schizosaccharomyces pombe 927 Saccharomyces cerevisiae (Baker's yeast) 
2021-11-29 | PXD026313 | Pride
Tmt Intensity-based absolute quantification Yeast Lfq Orbitrap fusion Label-free quantification Orbitrap fusion lumos Systems biology Ibaq Tandem mass tag 
ProteomicsStoichiometry of MBD2 vs. MBD3-NuRD
To obtain a comprehensive and quantitative view on MBD2 vs MBD3-NuRD complex stoichiometry, we performed biotin co-immunoprecipitations in Mbd3 KO ES cells expressing either biotin-tagged MBD2a or MBD3a and identified known NuRD complex members using label-free mass spectrometry (Supplementary Fig. ...
ORGANISM(S): Mus musculus (Mouse) 
2023-06-30 | PXD042407 | Pride
Embryonic stem cells Nurd complex 
ProteomicsProteomic Analysis of Loricrin Knockout Mouse Epidermis IBAQ
The cross-linked envelope of the mammalian epidermal corneocyte is important as a scaffold for assembly of the lipid barrier of the epidermis. Illustrating its importance, deficient envelope cross-linking by keratinocyte transglutaminase (TGM1) is a major cause of the autosomal recessive congenital ...
ORGANISM(S): Mus musculus (Mouse) 
2016-12-14 | PXD003532 | Pride
Loricrin Mouse Epidermis 
UnknownPan-Cancer Proteomics Analysis to Identify Tumor-Enriched and Highly Expressed Cell Surface Antigens as Potential Targets for Cancer Therapeutics.
Not available
S-EPMC10494184 | biostudies-literature
ProteomicsLabel-Free Quantification of Yeast Cellular Proteome
Precursor ion intensity quantification and intensity-based absolute quantity estimation (IBAQ) was used to on the mixture of yeast cell lysates in order to estimate the absolute concentrations of the proteins.
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-03-06 | PXD012803 | Pride
Lc-ms Intensity-based absolute quantification Saccharomyces cerevisiae Label-free quantification 
ProteomicsQuantifying gene expression control by growth and metabolism reveals distinct regulation of central carbon metabolism genes in yeast
Here we quantitatively describe the influence of cell growth rate and amino acid metabolic context on gene expression in the eukaryal model organism Saccharomyces cerevisiae. We show that growth rate and metabolic cues regulate ~70% of the yeast transcriptome and proteome, thereby exerting gene expr...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-03-15 | PXD021218 | Pride
Tmt Yeast Tandem mass tag Saccharomyces cerevisiae Lfq Label-free quantification Systems biology Orbitrap fusion 
ProteomicsThe lipid droplet protein DHRS3 is a regulator of melanoma cell state
Lipid droplets are fat storage organelles composed of a protein envelope which surrounds a lipid rich core. Dynamic regulation of this protein envelope underlies differential lipid droplet formation and function in diverse cell types. In melanoma, the ability to form lipid droplets has been linked t...
ORGANISM(S): Homo sapiens (Human) 
2025-11-10 | PXD050693 | Pride
Lipid droplet Dhrs3 Melanoma Human 
ProteomicsThe membrane-intrinsic Zn-metalloproteinase FtsH4 does not associate with FtsH1, FtsH2 or FtsH3 but does interact with the uncharacterized protein Sll1106
FtsH Zn-metalloproteinases are multimeric, membrane-intrinsic and universally conserved in bacteria, chloroplasts and mitochondria. FtsHs function in protein turnover and processing: activities that are essential in maintaining cellular homeostasis. In phototrophic organisms, FtsHs are additionally ...
ORGANISM(S): Synechocystis sp. PCC 6803 substr. GT-I 
2023-01-04 | PXD033240 | Pride
Biogenesis Cyanobacteria Sll1106 Ftsh Synechocystis Flag-tag Photosystem Repair 
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