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ProteomicsLow cell number proteomic analysis using in-cell protease digests reveals a robust signature for cell cycle state classification
Comprehensive proteome analysis of rare cell phenotypes remains a significant challenge. We report a method for low cell number mass spectrometry (MS)-based proteomics using protease digestion of mildly formaldehyde-fixed cells in cellulo, which we call the ‘in-cell digest’. We combined this with AM...
ORGANISM(S): Homo sapiens (Human) 
2021-11-25 | PXD028117 | Pride
Tk6 In-cell digest Ampl Cell cycle Human 
GenomicsSingle-cell RNA-seq of total gallbladder/extrahepatic duct tissue digest from Pou2f3-/- and Pou2f3+/+, Pou2f3+/- mice
Single-cell RNA-seq of total gallbladder/extrahepatic duct tissue digest from Pou2f3-/- and Pou2f3+/+, Pou2f3+/- mice
PRJNA805298 | ENA
UnknownCapillary zone electrophoresis-multiple reaction monitoring from 100 pg of RAW 264.7 cell lysate digest.
Not available
S-EPMC3670666 | biostudies-literature
UnknownOptimizing INFOGEST Digest Conditioning for Reliable In Vitro Assessment of Nutrient Bioavailability Using Caco-2 Cell Models.
Not available
S-EPMC12844764 | biostudies-literature
TranscriptomicsSingle-cell RNA-seq of total gallbladder/extrahepatic duct tissue digest from Pou2f3-/- and Pou2f3+/+, Pou2f3+/- mice
Total gallbladder/extrahepatic duct tissue digest from Pou2f3-/- (KO) and Pou2f3+/+, Pou2f3+/- (heterozygous and homozygous WT mice together in WT sample) littermated mice were sorted for live cells on Moflo XDP cell sorter (singlets, FSCAxSSCA, DAPI-). Immediately post-sorting, cells were run on 10...
ORGANISM(S): Mus musculus 
2022-03-01 | GSE196546 | GEO
GenomicsNucleosome mapping of Tetrahymena thermophila chromatin in vivo and in vitro
A conserved hallmark of eukaryotic chromatin architecture is the distinctive array of well-positioned nucleosomes downstream of transcription start sites (TSS). Recent studies indicate that trans-acting factors establish this stereotypical array. Here, we present the first genome-wide in vitro and i...
ORGANISM(S): Tetrahymena thermophila 
2015-07-30 | E-GEOD-64061 | biostudies-arrayexpress
UnknownEffect of Different Proteinase K Digest Protocols and Deparaffinization Methods on Yield and Integrity of DNA Extracted From Formalin-fixed, Paraffin-embedded Tissue.
Not available
S-EPMC7045302 | biostudies-literature
ProteomicsSubcellular Mass Spectrometry Reveals Proteome Remodeling in an Asymmetrically Dividing (Frog) Embryonic Stem Cell
This project enhanced discovery subcellular proteomics sensitivity by integrating diaPASEF with capillary electrophoresis mass spectrometry (CE-MS). The method was developed, tested, and validated on ~200 pg of the HeLa proteome digest, ~80% of the total proteome of a single cell. Reproducible ident...
ORGANISM(S): Homo sapiens (Human) Xenopus laevis (African clawed frog) 
2026-01-09 | PXD063566 | Pride
Proteomics Mass spectrometry Differentiation Profiling Single cell Asymmetric division Capillary electrophoresis Diapasef Quantification 
ProteomicsPhosphopeptide enrichment on synthetic libraries and HeLa cells digest
2 phosphopeptide enrichment methods (TiO2 and Ti-IMAC) were evaluated on synthetic libraries and HeLa cells digest. The resulting peptides were compared to the ones without enrichment with regards to the nature of the phosphorylation site (serine, threonine, tyrosine) and the characteristics of the ...
ORGANISM(S): Homo sapiens (Human) 
2014-08-11 | PXD000759 | Pride
Phosphopeptide enrichment Tio2 Ti-imac Hela Synthetic library 
UnknownGastrin and Nitric Oxide Production in Cultured Gastric Antral Mucosa Are Altered in Response to a Gastric Digest of a Dietary Supplement.
Not available
S-EPMC8520902 | biostudies-literature
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