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TranscriptomicsGene expression data of cSHMT mutant, heterozygous, and wild-type mouse colons
Folate-mediated one-carbon metabolism is required for purine, thymidylate, and S-adenosylmethionine synthesis. Impairments in folate metabolism diminish cellular methylation potential and genome stability. Cytoplasmic serine hydroxymethyl transferase (cSHMT) regulates partitioning between thymidylat...
ORGANISM(S): Mus musculus 
2010-03-03 | E-GEOD-14645 | biostudies-arrayexpress
ProteomicsA causal model of ion interference enables assessment and correction of ratio compression in multiplex proteomics
We thoroughly characterize isobaric labeling (TMT)-associated reporter ion interference at the MS2 level using a defined two-proteome experimental system with known ground truth. We discover remarkably poor agreement between the apparent precursor purity in the isolation window and the actual level ...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae Saccharomyces cerevisiae (Baker's yeast) 
2023-12-19 | PXD040449 | Pride
Ion interference Tmt Ratio compression Isobaric label 
TranscriptomicsInvestigation of placental gene expression in obese women exposed to Metformin during pregnancy
Maternal obesity in pregnancy is associated with increased birth-weight, obesity and premature mortality in adult offspring. The Effect of Metformin on Maternal and Fetal Outcomes in Pregnant Obese Women (EMPOWaR) trial was a randomised, double-blind, placebo-controlled trial carried out to determin...
ORGANISM(S): Homo sapiens 
2019-01-31 | E-MTAB-6418 | biostudies-arrayexpress
ProteomicsAutosomal Dosage Compensation in Aneuploidy and Cancer Is Mediated by Transcriptional Bursting Regulation
Aneuploidy, resulting from partial (segmental) or complete chromosomal gains or losses, is generally detrimental to organismal fitness, but is also associated with tumorigenicity. While sex chromosome aneuploidies are well-tolerated via dedicated allelic dosage compensation mechanisms, the existence...
ORGANISM(S): Mus musculus (Mouse) 
2026-09-29 | PXD068580 | Pride
Aneuploidy Autosomal Mus musculus Dosage compensation 
ProteomicsA dual-mechanism antimicrobial peptide with antimutagenic activity targets the replisome and induces cell envelope stress
To combat the growing threat of multidrug-resistant bacteria, we need to develop novel antibiotics with unique modes of action. This study investigates the antibacterial properties of BTP-001 towards Escherichia coli. BTP-001 is a β-clamp targeting antimicrobial peptide containing an AlkB homologu 2...
ORGANISM(S): Escherichia coli Bacteria 
2025-08-24 | PXD055475 | Pride
Escherichia coli 
ProteomicsSOS Genes Are Rapidly Induced While Mutagenesis Is Temporally Regulated by Changes in Protein Activation and Nucleotide Pools After a Sub-lethal Dose of Ciprofloxacin in Escherichia coli
The DNA damage inducible SOS response in bacteria serves to increase survival of the species. The SOS response first initiates error-free repair which is followed by error-prone repair. Here, we have employed a multi-omics approach to elucidate the temporal coordination of the SOS response using tra...
ORGANISM(S): Escherichia coli 
2024-03-26 | PXD047394 | Pride
Signalomics Escherichia coli Ciprofloxacin Sos response 
ProteomicsSpLICe (Spectral Library of Immune Cells).
Spectral libraries fulfill multiple functions in biological and analytical applications. For biologists, these libraries provide a valuable resource to verify the presence and abundance of specific proteins or pathways within a selected cell type, and thus determine the feasibility of further experi...
ORGANISM(S): Mus musculus (Mouse) 
2025-11-20 | PXD055070 | Pride
Bmdcs. Bioinformatics Proteomics Spectral library Cd8 t-cells Mouse Immunology B-cells Cd4 t-cells Bmdms 
ProteomicsProfiling of Human Circulating Plasma Microparticle Associated Proteins by DDA and DIA
Cells of the vascular system release spherical vesicles, called microparticles (MP), in the size range of 0.1-1μm induced by a variety of stress factors resulting in variable MP concentrations between health and disease. Furthermore, MP have intercellular communication/signaling properties and inter...
ORGANISM(S): Homo sapiens (Human) 
2016-10-18 | PXD003935 | Pride
Human Plasma Microparticles Relative quantification 
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