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TranscriptomicsGenome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells
5hmC and TET proteins have been implicated in stem cell biology and cancer, but information on the genome-wide distribution of 5hmC is limited. Here we describe two novel and specific approaches to profile the genomic localisation of 5hmC. The first approach, termed GLIB (GLucosylation, perIodate o...
ORGANISM(S): Mus musculus 
2011-04-21 | E-GEOD-28682 | biostudies-arrayexpress
GenomicsDissecting the dynamic changes of 5-hydroxymethylcytosine in T cell development and differentiation [CMS-Seq]
The discovery of TET proteins, enzymes that oxidize 5-methylcytosine (5mC) in DNA, has revealed novel mechanisms for the regulation of DNA methylation. We have mapped 5-hydroxymethylcytosine (5hmC) at different stages of T cell development in the thymus and T cell differentiation in the periphery. ...
ORGANISM(S): Mus musculus 
2014-08-04 | E-GEOD-59212 | biostudies-arrayexpress
GenomicsLarge conserved domains of low DNA methylation maintained by 5-hydroxymethycytosine and Dnmt3a (CMS bisulfite-seq)
Gains and losses in DNA methylation are prominent genomic features of all mammalian cell types. To gain insight into mechanisms that could promote shifts in DNA 5-hydroxymethylation (5hmc) patterns and thus contribute to cell fate, including malignant transformation, we performed genome-wide mappin...
ORGANISM(S): Mus musculus 
2014-01-22 | E-GEOD-53742 | biostudies-arrayexpress
TranscriptomicsDistinct roles of Tet1 and Tet2 in mouse embryonic stem cells (CMS-Seq)
The TET proteins TET1, TET2 and TET3 constitute a new family of dioxygenases that utilize molecular oxygen and the cofactors Fe(II) and 2-oxoglutarate to convert 5-methylcytosine (5mC) to 5-hydroxy-methylcytosine (5hmC) and further oxidation products in DNA1-5. Here we show that Tet1 and Tet2 have d...
ORGANISM(S): Mus musculus 
2014-01-16 | E-GEOD-50200 | biostudies-arrayexpress
TranscriptomicsComparative global transcriptomic profiling of human ES and iPSs cells and their derived microdissected cardiac clusters
Recent establishment of induced pluripotent stem (iPS) cells opened new avenues for generating human patient-specific stem cell derivatives that can be used for in vitro modeling of human disease, drug development and cell replacement therapy. In this study we analyzed the molecular and functional p...
ORGANISM(S): Homo sapiens 
2010-09-15 | E-GEOD-17579 | biostudies-arrayexpress
TranscriptomicsGenome-wide gene expression analysis of new cardiomyocytes (CMs) derived from resident c-kitpos endogenous cardiac stem cells (eCSCs) after myocardial injury by Isoproterenol (ISO) in mice.
Genome-wide gene expression analysis of new cardiomyocytes (CMs) derived from resident c-kitpos endogenous cardiac stem cells (eCSCs) after myocardial injury by Isoproterenol (ISO) in mice. These data show that of new CMs derived from resident c-kitpos eCSCs have a gene expression profile that clo...
ORGANISM(S): Mus musculus 
2013-07-30 | E-GEOD-49318 | biostudies-arrayexpress
ProteomicsBlood biomarkers in a cohort of patients with CHRNE-associated congenital myasthenic syndrome
Pathogenic variants in CHRNE encoding the epsilon subunit of acetyl choline receptor (AChR) result in impaired neuromuscular transmission and congenital myasthenic syndromes (CMS). Clinical manifestations include facial, ocular and limb fatigability and weakness, whereby severity of symptoms may var...
ORGANISM(S): Homo sapiens (Human) 
2025-05-07 | PXD054347 | Pride
Cms mirna Cms metabolites Cms biomarkers Plec Cms extracellular vesicles Cms white blood cells Cms amino acids 
TranscriptomicsComparison of Atlantic salmon individuals with different outcomes of cardiomyopathy syndrome (CMS)
Experimentally infected Atlantic salmon post-smolts exhibited different outcomes of disease (CMS). High responder (HR) fish were characterized with sustained and increased viral load and pathology in heart tissue. Low responder (LR) fish showed declining viral load from 6-10 weeks post infection (wp...
ORGANISM(S): Salmo salar 
2012-03-29 | E-GEOD-36860 | biostudies-arrayexpress
TranscriptomicsMetabolic changes of human induced pluripotent stem cell-derived cardiomyocytes and teratomas after transplantation
Cardiac regenerative therapy using human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs) has been applied in clinical settings. Herein, we aimed to investigate the in vivo metabolic profiles of hiPSC-CM grafts. RNA sequencing and imaging mass spectrometry were performed in the prese...
ORGANISM(S): Homo sapiens 
2026-01-29 | GSE279695 | GEO
TranscriptomicsTranscriptome profiling of immune responses to cardiomyopathy syndrome (CMS) in Atlantic salmon
Cardiomyopathy syndrome (CMS) is a disease associated with severe myocarditis in adult Atlantic salmon (Salmo salar L.), which is presumably caused with a double-stranded RNA virus (piscine myocarditis virus; PMCV). This study addressed the host immune response in Atlantic salmon during experimental...
ORGANISM(S): Salmo salar 
2011-04-26 | E-GEOD-28843 | biostudies-arrayexpress
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