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TranscriptomicsComparison of the transcription (coding and lncRNAs) of in vitro cultured bovine SAM-treated blastocysts and non-treated blastocysts
Transcriptome (total RNA) profiling of bovine in vitro cultured expanded blastocysts (EB) comparing control non-treated expanded blastocysts with SAM-treated expanded blastocysts. S-Adenosyl methionine (SAM) is the global methyl donor providing methyl group for variety of biomolecules such as DNA , ...
ORGANISM(S): Bos taurus 
2016-02-29 | E-GEOD-75430 | biostudies-arrayexpress
ProteomicsProtein identification in 1000 U2OS cells
In this study, we aim to optimize sample processing methods using a conventional in-solution proteomic sample processing workflow. We then compared protein idetnfication numbers withour improved sample processing methods versus the original method, in 1000 U2OS human osteosarcoma cells.
ORGANISM(S): Homo sapiens (Human) 
2019-05-06 | PXD013702 | Pride
Sample recovery yield 1000 cells Lc-ms U2os Sam ple processing Osteosarcoma 
ProteomicsDiscovery and visualization of uncharacterized drug-protein adducts using mass spectrometry
Drugs are often metabolized to reactive intermediates that form protein adducts. Adducts can inhibit protein activity, elicit immune responses, and cause life threatening adverse drug reactions. The masses of reactive metabolites are frequently unknown, rendering traditional mass spectrometry-based ...
ORGANISM(S): Homo sapiens (Human) Rattus norvegicus (Rat) 
2022-02-24 | PXD025019 | Pride
Magnum Raloxifene Dicloxacillin Adduct Plasma Cyp3a4 Open search Metamorpheus Comet Human serum albumin Msfragger Penicillin Moda Hsa Xenobiotic Reactive metabolite P450-reductase Flucloxacillin Open-pfind Comet-ptm Limelight 
ProteomicsDirect 3D sampling of the embryonic mouse head: Layer-wise nanosecond infrared laser (NIRL) ablation from scalp to cortex for spatially resolved proteomics
Common workflows in bottom-up proteomics require homogenization of tissue samples giving to get access to the biomole-cules within the cells. The homogenized tissue samples often contain many different cell types, thereby representing an average of the natural proteome composition and rare cell type...
ORGANISM(S): Mus musculus (Mouse) 
2024-01-26 | PXD043011 | Pride
Nirl ablation Spatial proteomics Tissue sampling Bottom-up proteomics 
ProteomicsLolium perenne wet fractionation
Quantitative proteomics on fate of proteins during the initial biorefining step (wet fractionation) of cultivated lolium perenne. In this study, the ex vivo antioxidant activity of fractionated L. perenne green juice protein is investigated, and responsible effectors are evaluated. Moreover, the stu...
ORGANISM(S): Lolium perenne subsp. perenne 
2025-05-07 | PXD058233 | Pride
Screw pressing Perennial ryegrass 
TranscriptomicsDifferential expression of skeletal muscle genes between normal and pale, soft and exudative (PSE) turkey meat.
The objective of this study was to determine differential gene expression of turkey breast muscle regarding development of PSE meat defect. Genetically unimproved, random-bred (RBC2) turkeys representing turkeys from 1966, which are smaller and grow slower than modern turkeys, were raised at the Mic...
ORGANISM(S): Meleagris gallopavo 
2013-03-20 | E-GEOD-36660 | biostudies-arrayexpress
TranscriptomicsIdentification of the WhiB5 regulon in Mycobacterium tuberculosis H37Rv
We used DNA microarrays to define the M. tuberculosis whiB5 regulon and to study the variation of the global transcription profile in response of its induction. For this purpose we constructed a M. tuberculosis strain in which whiB5 was transcribed from an pristinamycin-inducible promoter and its tr...
ORGANISM(S): Mycobacterium tuberculosis H37Rv 
2011-08-14 | E-GEOD-30299 | biostudies-arrayexpress
TranscriptomicsTranscriptome analysis of Dop1R2 RNAi in Drosophila melanogaster
The process of metamorphosis relies on choreography of temporal and spatial cues that mediate, in which inappropriate activation of many of these genes results in growth defects, developmental delay and death. Using RNA interference, we have unraveled an essential role for the insect specific dopam...
ORGANISM(S): Drosophila melanogaster 
2015-09-01 | E-GEOD-66496 | biostudies-arrayexpress
TranscriptomicsThe regenerative response in the pig liver remnant varies with the degree of resection and rise in portal pressure.
Following parenchymal loss, the liver regenerates restoring normal mass and metabolic function. Prevailing theories on triggering events leading to regeneration include humoral, metabolic and flow-mediated mechanisms, the latter emphasizing the importance of shear stress mediated nitric oxide (NO) r...
ORGANISM(S): Sus scrofa 
2008-01-14 | E-GEOD-6860 | biostudies-arrayexpress
TranscriptomicsGene expression profiles of splenocytes of CD22DE12 transgenic mice
Splenocytes from nontransgenic control mice and transgenic mice were isolated and their gene expression profiles were compared to determine if the expression of the transgene results in any changes in regulation of gene expression. 12 differentially expressed genes were classified as the most discri...
ORGANISM(S): Mus musculus 
2010-09-10 | E-GEOD-23998 | biostudies-arrayexpress
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