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GenomicsSpatial co-fragmentation pattern of cell-free DNA recapitulates in vivo chromatin organization and identifies tissue-of-origin
Spatial co-fragmentation pattern of cell-free DNA recapitulates in vivo chromatin organization and identifies tissue-of-origin
PRJNA514727 | ENA
UnknownGas-phase fragmentation of single heteroatom-incorporated Co5MS8(PEt3)6+ (M = Mn, Fe, Co, Ni) nanoclusters.
Not available
S-EPMC9814561 | biostudies-literature
ProteomicsQuantification and site-specific analysis of co-occupied N- and O-glycopeptides
Protein glycosylation is a complex post-translational modification that is generally classified as N- or O-linked. Site-specific analysis of glycopeptides is accomplished with a variety of fragmentation methods, depending on the type of glycosylation being investigated and the instrumentation availa...
ORGANISM(S): Homo sp. 
2024-10-22 | PXD053713 | Pride
Glycoproteomics Fragmentation Co-occupancy Mucins O-glycosylation N-glycosylation 
ProteomicsCarrier protein-enabled host cell proteome analysis (CP-HCP) with integrated isobaric tag interference filtering
We added increasing amounts of E coli carrier proteome to BSA, our moch recombinant protein to model interference of high-background BSA peaks with smaller peaks of E coli HCPs, using MS2 and MS3 methods to show co-fragmentation and co-elution based on similar m/z ratio. We created an interference d...
ORGANISM(S): Escherichia coli 
2026-01-12 | PXD050183 | Pride
Host cell proteins (hcps) Peptide-spectrum matches Tmt Co-elution Lc-ms Multiplexed proteomics Tryptic digest Interference Carrier proteome Data dependent acquisition Co-fragmentation 
UnknownFragmentation and Coagulation in Supramolecular (Co)polymerization Kinetics.
Not available
S-EPMC4850513 | biostudies-literature
ProteomicsImproving peptide fragment ion detection using travelling wave ion mobility spectrometry with signal enhancement MSE (seMSE)
Recently, a solution to inherent poor ion beam sampling of time-of-flight (TOF) mass analyzers was proposed by restricting detection to ions expected at specific arrival times after being separated in a travelling wave ion mobility spectrometry (TWIMS) cell. Here, we show that this approach can be a...
ORGANISM(S): Oryctolagus Cuniculus Escherichia Coli Bos Taurus Saccharomyces Cerevisiae 
PXD030431 | panorama
MetabolomicsIAPP toxicity activates HIF1α/PFKFB3 signaling delaying β-cell loss at the expense of β-cell function
The islet in type 2 diabetes (T2D) is characterized by amyloid deposits derived from islet amyloid polypeptide (IAPP), a protein co-expressed with insulin by β-cells. In common with amyloidogenic proteins implicated in neurodegeneration, human IAPP (hIAPP) forms membrane permeant toxic oligomers imp...
2020-04-17 | MTBLS951 | MetaboLights
OtherSpatial co-fragmentation pattern of cell-free DNA recapitulates in vivo chromatin organization and identifies tissue-of-origin
Three-dimensional chromatin organization varies across different cell types and is essential for gene regulation. However, current technologies are unable to assess in vivo genome-wide chromatin organization non-invasively. Here, we showed that long-range correlations in the fragment length of cell-...
ORGANISM(S): Homo sapiens 
2019-05-07 | GSE124974 | GEO
TranscriptomicsSustainable syntrophic growth of Dehalococcoides ethenogenes strain 195 with Desulfovibrio vulgaris Hildenborough and Methanobacterium congolense: global transcriptomic and proteomic analysis
The syntrophic growth of strain 195 with Desulfovibrio vulgaris Hildenborough (DVH) and/or Methanobacterium congolense (MC) enhanced TCE dechlorination process by faster dechlorination rate and more robust growth. Transcriptomes of strain 195 grown in isolation, co- and tri-cultures were obtained b...
ORGANISM(S): Dehalococcoides ethenogenes 195 
2011-07-31 | E-GEOD-26815 | biostudies-arrayexpress
UnknownImprovement of Human Sperm Vacuolization and DNA Fragmentation Co-Cultured with Adipose-Derived Mesenchymal Stem Cell Secretome: In Vitro Effect.
Not available
S-EPMC6881046 | biostudies-literature
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