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MetabolomicsPhotorespiration is linked to DNA methylation by formate as one-carbon source.
DNA methylation is a key epigenetic modification regulating genome organization, stability, and gene expression. Stable DNA methylation critically relies on methyl groups provided through folate-mediated one-carbon (C1) metabolism, yet the origin and regulation of C1 supply remain elusive. Here we d...
2026-01-06 | MTBLS13444 | MetaboLights
MetabolomicsMulti-Omics analyses reveal dynamic interactions between DNA methylation and transcriptional regulation during black raspberry ripening
We show developmental-series transcriptome, methylome, and metabolome to reveal extensive epigenetic reprogramming during black raspberry (Rubus occidentalis) fruit ripening. Multi-omics integration reveals coordinated anthocyanin accumulation parallels expression of biosynthetic and regulatory gene...
2026-09-28 | MTBLS15819 | MetaboLights
MetabolomicsPKM2 methylation by CARM1 activates aerobic glycolysis to promote tumorigenesis
Metabolic reprogramming is a hallmark of cancer. Herein we discover that the key glycolytic enzyme pyruvate kinase M2 isoform (PKM2), but not the related isoform PKM1, is methylated by co-activator-associated arginine methyltransferase 1 (CARM1). PKM2 methylation reversibly shifts the balance of met...
2021-07-30 | MTBLS533 | MetaboLights
TranscriptomicsLung adenocarcinoma and mesothelioma DNA methylation
Pathologic differentiation of tissue of origin in tumors found in the lung can be challenging, with differentiation of mesothelioma and lung adenocarcinoma emblematic of this problem. Indeed, proper classification is essential for determination of treatment regimen for these diseases, making accurat...
ORGANISM(S): Homo sapiens 
2010-06-25 | E-GEOD-16559 | biostudies-arrayexpress
TranscriptomicsDNA methylation distinguishes pathologically normal human tissues
Epigenetic control of gene transcription is critical for normal human development and cellular differentiation. While alterations of epigenetic marks such as DNA methylation have been linked to cancers and many other human diseases, interindividual epigenetic variation in normal tissues due to aging...
ORGANISM(S): Homo sapiens 
2010-06-25 | E-GEOD-19434 | biostudies-arrayexpress
TranscriptomicsGenome-wide connection between DNA methylation and DNA replication timing
DNA methylation and DNA replication timing were examined across a variety of human tissues and cell lines, applying microarray-based techniques. The analyses revealed that late-replicating DNA was demethylated compared to the methylation of early-replicating regions. DNA methylation: Epstein-Barr-Vi...
ORGANISM(S): Homo sapiens 
2010-12-01 | E-GEOD-24947 | biostudies-arrayexpress
TranscriptomicsDNA methylation and expression profiling study for prostate cancer
Microarray-based DNA methylation and gene expression profiling was carried out using a panel of prostate cancer cell lines (LNCaP-FGC, DU-145, and PC-3) and the control normal prostate RWPE1 cell line. The identification of prostate cancer-specific methylation markers was based on the following crit...
ORGANISM(S): Homo sapiens 
2011-07-24 | E-GEOD-23388 | biostudies-arrayexpress
TranscriptomicsGenome wide DNA Methylation Study in Cornelia de Lange Syndrome
Differential DNA methylation was identified in CdLS, and correlates to cohesin binding as well. However, DNA methylation may only be one of several events that regulate gene expression in humans. 63 Lymphoblastoid cell lines (LCLs) from 39 CdLS probands, 2 RBS probands and 22 gender and racial match...
ORGANISM(S): Homo sapiens 
2010-07-07 | E-GEOD-18458 | biostudies-arrayexpress
GenomicsDnmt2-dependent methylomes lack biologically relevant DNA methylation patterns [Schistosoma mansoni]
Dnmt2 is a widely conserved protein, which is closely related to eukaryotic DNA methyltransferases. However, Dnmt2 shows a robust tRNA methyltransferase activity and only limited activity towards DNA. Interestingly, a recent study has provided evidence for a biologically important function of Dnmt2-...
ORGANISM(S): Schistosoma mansoni 
2013-05-06 | E-GEOD-39997 | biostudies-arrayexpress
TranscriptomicsDynamic changes of DNA methylome and hydroxymethylome during neural differentiation of hES cells (Methylation BeadChip)
DNA methylation and hydroxymethylation have been implicated in normal development and differentiation, but our knowledge about the genome-wide distribution of 5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) during cellular differentiation remains limited. Using in vitro model system of gra...
ORGANISM(S): Homo sapiens 
2013-11-04 | E-GEOD-38216 | biostudies-arrayexpress
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