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ProteomicsImperfect Redundancy in the Family of Thylakoid Lumen Deg Proteases in Arabidopsis Helps Identifying Their Potential Substrates
Deg proteases are involved in protein quality control and response to stress in prokaryotic organisms. Out of the 16 Deg-encoding genes of Arabidopsis, the products of three, Deg1, Deg5 and Deg8, are located in the thylakoid lumen. Deg1 forms homo-hexamers, degrading photosynthetic proteins, especia...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-01-17 | PXD008920 | Pride
Deg proteins Thylakoids Arabidopsis 
MetabolomicsRare and common genetic determinants of metabolic individuality and their effects on human health (EPIC-Norfolk study assays)

Garrod’s concept of “chemical individuality” has contributed to comprehension of the molecular origins of human diseases. Untargeted high-throughput metabolomic technologies provide an in-depth snapshot of human metabolism at scale. We studied the genetic architecture of the human plasma metabolo...

2022-09-09 | MTBLS833 | MetaboLights
TranscriptomicsSingle-cell RNA-seq of wild-type and Pbx1/Pbx2 double-knockout EpiSCs differentiated in vitro to pre-somitic mesoderm in the first 48 hours of differentiation.
In vertebrates, body axis elongation is fuelled by bipotent neuromesodermal progenitors (NMPs), which support the development of both spinal cord and paraxial mesoderm (PM). HOX transcription factors have been historically implicated in axial elongation, with their sequential activation playing a fu...
ORGANISM(S): Mus musculus 
2021-07-21 | E-MTAB-9774 | biostudies-arrayexpress
ProteomicsPeptide standard acquired with the dual-gated SLIM-Orbitrap
Raw data collected on the dual-gated SLIM-Orbitrap. The sample contained a mixture of standard peptides at 1 uM equimolar concentration in 60:40 water:acetonitrile with 1% acetic acid (v/v). The peptides were kemptide, angiotensin I, bradykinin, neurotensin, angiotensin II, renin substrate tetradeca...
ORGANISM(S): Peptide Standards 
2023-08-23 | MSV000092738 | MassIVE
TranscriptomicsTempo-Seq experiment relating to Next Generation Risk Assessment for Occupational Chemical Safety – a Real World Example with Sodium-2-hydroxyethane sulfonate
A dose response and human cell line comparison of transcriptional responses following treatment with the chemical compound Sodium-2-hydroxyethane sulfonate. Gene expression changes were used to estimate the POD - minimum effect concentration when a biological perturbation as estimated by gene exp...
ORGANISM(S): Homo sapiens 
2024-12-31 | E-MTAB-14069 | biostudies-arrayexpress
ProteomicsComamonas KF-1 PET degradation
Cellular and extracellular fractions of Comamonas testosteroni KF-1 grown on PET +/- acetate, labeled via diDO-IPTL (Waldbauer et al. 2017 Analytical Chemistry) for protein expression quantitation
ORGANISM(S): Comamonas Testosteroni Kf-1 (ncbitaxon:399795) 
MSV000095794 | MassIVE
TranscriptomicsTranscription profiling of individual bovine nuclear transfer blastocysts
Individual zona free in vitro grown bovine day 7 blastocysts were compared to stage and quality matched nuclear transfer derived blastocysts (fibroblast donor cells).
ORGANISM(S): Bos taurus 
2006-02-14 | E-MEXP-556 | biostudies-arrayexpress
TranscriptomicsSingle-cell RNA-seq of tailbuds from control, Pbx1/Pbx2 compound and Pbx1/Pbx2 double-knockout E8.5/E9.0 embryos.
In vertebrates, body axis elongation is fuelled by bipotent neuromesodermal progenitors (NMPs), which support the development of both spinal cord and paraxial mesoderm (PM). NMPs reside in the caudal lateral epiblast and tailbud, from where they sustain axial elongation. HOX transcription factors ha...
ORGANISM(S): Mus musculus 
2021-07-21 | E-MTAB-9785 | biostudies-arrayexpress
ProteomicsProteomic Analysis of the IPF Mesenchymal Progenitor Cell Nuclear Proteome Identifies Abnormalities in Key Nodal Proteins That Underlie Their Fibrogenic Phenotype
IPF is a progressive fibrotic lung disease whose pathogenesis remains incompletely understood. We have previously discovered pathologic mesenchymal progenitor cells (MPCs) in the lungs of IPF patients. IPF MPCs display a distinct transcriptome and create sustained interstitial fibrosis in immune def...
ORGANISM(S): Homo sapiens (Human) 
2022-08-12 | PXD032352 | Pride
Ingenuity pathway analysis Mesenchymal progenitor cells (mpcs) Nuclear fraction Differentiation Quantitative mass spectrometry Apoptosis Idiopathic pulmonary fibrosis (ipf) Dna damage 
MetabolomicsAn Unbiased Lipid Phenotyping Approach To Study the Genetic Determinants of Lipids and Their Association with Coronary Heart Disease Risk Factors
Direct infusion high-resolution mass spectrometry (DIHRMS) is a novel, high-throughput approach to rapidly and accurately profile hundreds of lipids in human serum without prior chromatography, facilitating in-depth lipid phenotyping for large epidemiological studies to reveal the detailed associati...
2024-02-02 | MTBLS4461 | MetaboLights
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