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ProteomicsStress specific SCE1-interactome characterised by IP-MS analysis
The AtSCE1-mVenus was immunoprecipitated using anti-GFP magnetic beads from Arbidopsis root cultures upon control, salt, mannitol and flg22 treatments. As a negative control, root tissues from pMDS1-VAM3 and pMDS1-SHR were utilized to account for non-specific binding to GFP. The eluate sapmles were ...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2025-09-08 | PXD063447 | Pride
Sumoylation Ip-ms At-sce1-interactome Arabidopsis thaliana root cultures 
TranscriptomicsMARS-seq Version 2
scRNA-seq procedure and analysis. ScRNA-seq was performed using the Massively Parallel Single-Cell RNA-sequencing technology (MARS-seq) as described by Jaitin et al., 2014 (PMID: 24531970) EpiSCs were seeded at ~6 x 103 cells/cm2 in 6-well cell-culture plates pre-coated with 15 µg/ml human Fibronec...
ORGANISM(S): Mus musculus 
2025-04-28 | E-MTAB-13660 | biostudies-arrayexpress
ProteomicsPptc7 is an essential phosphatase for promoting mammalian mitochondrial metabolism and biogenesis
Mitochondrial proteins are replete with phosphorylation; however, the origin, abundance, and functional relevance of these modifications are largely unclear. Nonetheless, mitochondria possess multiple resident phosphatases, suggesting that protein dephosphorylation may be broadly important for mitoc...
ORGANISM(S): Mus musculus (Mouse) 
2019-05-29 | PXD012743 | Pride
Mitochondia Pptc7 Phosphoproteome 
ProteomicsProteomics of Intracellular Freezing Survival
Panagrolaimus sp. DAW1, a nematode cultured from the Antarctic, has the extraordinary physiological ability to survive total intracellular freezing throughout all of its compartments. While a few other organisms, all nematodes, have subsequently also been found to survive freezing in this manner, P....
ORGANISM(S): Panagrolaimus 
2020-05-01 | PXD018121 | Pride
Intracellular freezing Nematode Panagrolaimus Cryoprotection 
GenomicsBivalent Chromatin Marks Developmental Regulatory Genes in the Mouse Embryonic Germline in Vivo
We developed a ChIP protocol for the analysis of histone marks using less than 10,000 cells per IP, and used it to investigate the chromatin state of E11.5 mouse primordial germ cells (PGCs). A genome-wide ChIP-Seq analysis of E11.5 PGCs revealed a distribution of H3K4me3/H3K27me3 bivalent domains h...
ORGANISM(S): Mus musculus 
2013-05-30 | E-GEOD-46396 | biostudies-arrayexpress
ProteomicsProteomic profiles of bona fide RNA-binding proteins across E. coli growth curve in M9LB media.
Dynamic interactions between RNA and RNA-binding proteins (RBPs) regulate a broad spectrum of bacterial functions. Here, we have characterised how the RBPome is dynamically rewired during the E. coli life cycle. We applied Orthogonal Organic Phase Separation (OOPS) coupled with an RNase digestion st...
ORGANISM(S): Escherichia coli 
2024-03-20 | PXD043373 | Pride
Tmt Rna-binding proteins Oops Bacterial growth curve 
MetabolomicsAlignment of multiple metabolomics LC-MS datasets from disparate diseases to reveal fever-associated metabolites

Acute febrile illnesses are still a major cause of mortality and morbidity globally, particularly in low to middle income countries. The aim of this study was to determine any possible metabolic commonalities of patients infected with disparate pathogens that cause fever. Three liquid chromatogra...

2023-07-17 | MTBLS4895 | MetaboLights
TranscriptomicsWinter and fall gene expression in rainbow smelt liver
Rainbow smelt (Osmerus mordax) are freeze-resistant fish that accumulate glycerol and produce an antifreeze protein during winter. Quantitative reverse transcription-PCR (qPCR) and subtractive hybridization studies have revealed a few genes in smelt liver to be differentially regulated in winter in...
ORGANISM(S): Osmerus mordax 
2010-05-15 | E-GEOD-17961 | biostudies-arrayexpress
ProteomicsDynamic proteomic profiling of extra-embryonic endoderm differentiation in mouse embryonic stem cells
During mammalian pre-implantation development, the cells of the blastocyst’s inner cell mass differentiate into the epiblast and primitive endoderm lineages, which give rise to the fetus and extra-embryonic tissues, respectively. Extra-embryonic endoderm differentiation can be modeled in vitro by in...
ORGANISM(S): Mus musculus (Mouse) 
2015-06-13 | PXD001901 | Pride
Extra-embryonic endoderm (xen) stem cells Differentiation Tandem mass tags (tmt) Quantitative proteomics Pluripotency 
ProteomicsCHIP controls the expression of the neuropeptide precursor protein VGF
CHIP is a neuroprotective E3-ubiquitin ligase that supports longevity and healthy ageing. Loss of CHIP function has a major impact on life expectancy in animal models, whilst in humans’ mutations that compromise the E3-ligase activity of CHIP are causative for forms of Spinocerebellar Ataxia (SCA) t...
ORGANISM(S): Homo sapiens (Human) 
2021-07-29 | PXD016299 | Pride
Human Swath Neuropeptide Pulse silac Chip Lc-ms/ms 
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