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TranscriptomicsChromatin immunoprecipitation of human cell lines with oestrogen receptor (ER), the E2F transcription factor 4 (E2F4),
The Goal of the experiment was to validate the predicted regulatory modules identified by an algorithm.For this we took advantage of the the genome-wide location analysis technique (or ?ChIP/chip?). We selected modules predicted to be bound by the estrogen receptor (ER), the E2F transcription factor...
ORGANISM(S): Homo sapiens 
2006-05-01 | E-MEXP-471 | biostudies-arrayexpress
ProteomicsRole of circNFKB1 in cartilage degeneration of knee osteoarthritis and its mechanism
Circular RNAs (circRNAs) are covalently closed single-stranded RNA molecules produced by reverse splicing of the precursor mRNAs of thousands of gene exons in eukaryotes. Some circRNAs play potentially important roles at the molecular level through different modes of action in physiological and path...
ORGANISM(S): Homo sapiens (Human) 
2022-10-15 | PXD033469 | Pride
Osteoarthritis  circrna 
ProteomicsBenchmarking commonly used software suites and analysis workflows for DIA proteomics and phosphoproteomics
This repository is related to the work "Benchmarking commonly usedsoftware suites and analysis workflows for DIA proteomics and phosphoproteomics". The following files are stored here: 1. four MS datasets generated in this work, including two two-species benchmark datasets acquired on QE HF and tims...
ORGANISM(S): Homo Sapiens Saccharomyces Cerevisiae S288c Mus Musculus 
2022-12-08 | PXD034709 |
TranscriptomicsThe ThbZIP1 can be regulated by an ABF Transcription Factor and sensitivity to ABA treatment
In the current report, we report that ThbZIP1 is a direct target gene of the ThABF1 transcription factor. There are three ABRE motifs in the promoter of ThbZIP1, Yeast one-hybrid (Y1H) assays showed that a ABF protein, ThABF1, specifically binds to the ABRE motifs. The interaction between ThABF1 and...
ORGANISM(S): Arabidopsis thaliana 
2014-11-01 | E-GEOD-62888 | biostudies-arrayexpress
Proteomicschronic exposure to tramadol induces oxidative damage, inflammation based on mice serum proteome
Peptides were labeled with TMT reagents based on the manufacturer’s instructions (Thermo Fisher Scientifific). To quantify six samples, each aliquot (100 µg of peptide equivalent) was reacted with one tube of TMT reagent. After the sample was dissolved in 100 µL of 0.05 M tetraethylammonium bromide ...
ORGANISM(S): Mus Musculus 
2020-05-16 | PXD019233 |
ProteomicsIntegrative Proteomics and N-Glycoproteomics Reveals the Synergistic Anti-tumor Effects of Aspirin and Gemcitabine-based Chemotherapy on Pancreatic Cancer Cells
Based on an integrated multi-omics based on quantitative N-glycoproteomes analysis strategy, we investigated their synergistic anti-tumor effects and explored the potential molecular mechanisms and biological functions underlying their inhibitory effects on the development of pancreatic cancer.
ORGANISM(S): Homo Sapiens 
2023-04-10 | PXD041445 |
Proteomicscomparative proteomics studies of the wild strain SC1401 and the tfoX deficient strain
Natural transformation, as one of the horizontal gene transfer (HGT) modes of bacteria, allows bacteria to actively uptake foreign DNA under natural conditions and integrate it into their genome through homologous recombination. Natural transformation plays an vital role in the rapid spread of patho...
ORGANISM(S): Glaesserella Parasuis 
2022-03-17 | PXD032382 |
ProteomicsCPTAC CCRCC Discovery Study - DIA Proteome
This is a supplementary study to the CPTAC CCRCC Discovery Study - Proteome. Unlabeled, digested peptide material from individual tissue samples (ccRCC and NAT) was spiked with index Retention Time (iRT) peptides (Biognosys) and subjected to data-independent acquisition (DIA) analysis. Kidney cance...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-10-04 | MSV000093041 | MassIVE
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