Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene expression profiling and DNA methylation profiling

ABSTRACT: Gene expression profiling and DNA methylation profiling

PROVIDER: PRJNA777428 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

PRMT1-mediated methylation regulates MLL2 stability and gene expression

Project description:The interplay between multiple transcription factors precisely regulates eukaryotic transcription. Here, we report that the protein methyltransferases, MLL2 and PRMT1, interact directly and act collectively to regulate gene expression. PRMT1 binds to the N-terminal region of MLL2, considered an intrinsically disordered region, and methylates multiple arginine residues within its RGG/RG motifs. Notably, overexpression of PRMT1 decreased poly-ubiquitylation of MLL2, whereas mutations on methylation sites in MLL2 increased MLL2 poly-ubiquitylation, suggesting that PRMT1-mediated methylation stabilizes MLL2. MLL2 and PRMT1 cooperatively stimulated the expression of a chromosomal reporter gene in a PRMT1-mediated, MLL2-methylation–dependent manner. RNA-seq analysis found that MLL2 and PRMT1 jointly regulate the expression of genes involved in cell membrane and extracellular matrix functions, and depletion of either resulted in impaired cell migration and invasion. Our study provides evidence that PRMT1-mediated MLL2 methylation regulates MLL2 protein stability and the expression of their target genes.

2024-10-21 | PXD055018 | JPOST Repository

Metabolic control of DNA methylation and imprinted gene expression in naive pluripotent cells

Project description:Naive pluripotent epiblast cells of the preimplantation murine embryo and their in vitro counterpart, embryonic stem (ES) cells, have the capacity to give rise to all cells of the adult. Such developmental plasticity is associated with global genome hypomethylation. It is unclear whether genome methylation is dynamically regulated only via differential expression of DNA methyltransferases (DNMTs) and Ten-eleven Translocation (TET) enzymes, which oxidase methylated DNA. Here we show that LIF/Stat3 signalling induces genomic hypomethylation via metabolic reconfiguration. In Stat3-/- ES cells we observed decreased alpha-ketoglutarate (ɑKG) production from reductive Glutamine metabolism, leading to decreased TET activity, increased Dnmt3a/b expression and to a global increase in DNA methylation. Notably, genome methylation is dynamically controlled by simply modulating αKG availability, mitochondrial activity or Stat3 activation in mitochondria, indicating effective crosstalk between metabolism and the epigenome. Stat3-/- ES cells also show increased methylation at Imprinting Control Regions accompanied with differential expression of >50% of imprinted genes. Single-cell transcriptome analysis of Stat3-/- embryos confirmed dysregulated expression of Dnmt3a/b, Tet2, and imprinted genes in vivo. Our results reveal that the LIF/Stat3 signal bridges the metabolic and epigenetic profiles of naive pluripotent cells, ultimately controlling genome methylation and imprinted gene expression. Several imprinted genes regulate cell proliferation and are often misregulated in tumors. Moreover, a wide range of cancers display Stat3-overactivation, raising the possibility that the molecular module we described here is exploited under pathological conditions.

2020-11-26 | PXD020385 | Pride

DNA methylation and gene expression profiling of primary medulloblastoma samples

Project description:DNA methylation and gene expression profiling of primary medulloblastoma samples

| PRJNA336569 | ENA

Expression profiling and DNA methylation of TNBCs

Project description:Expression profiling and DNA methylation of TNBCs

| PRJNA483987 | ENA

HKU Gastric Cancer Genomics study - WGS, DNA genotyping array, expression and methylation profiling

Project description:HKU Gastric Cancer Genomics study - Whole Genome Sequencing, DNA genotyping array, Expression profiling and Methylation profiling

| EGAS00001000597 | EGA

Gene Expression Profiling in Normal Tissue and Tumor Tissue From Patients With Colon Cancer That Has Spread to the Liver, Lungs, or Peritoneum

Project description:RATIONALE: Studying the genes expressed in samples of tissue from patients with cancer may help doctors identify biomarkers related to cancer. PURPOSE: This laboratory study is using gene expression profiling to evaluate normal tissue and tumor tissue from patients with colon cancer that has spread to the liver, lungs, or peritoneum.

| 2071958 | ecrin-mdr-crc

DNA Methylation Profiling of Glioblastoma: Impact on Gene Expression and Clinical Outcome

Project description:DNA Methylation Profiling of Glioblastoma: Impact on Gene Expression and Clinical Outcome

| PRJNA128155 | ENA

Profiling DNA methylation in nematodes

Project description:Profiling DNA methylation in nematodes

| PRJNA412389 | ENA

Gene Expression Profiling

Project description:Gene Expression Profiling from 21 cases: 14 CCND1-negative Mantle Cell Lymphoma and 7 CCND1-positive Mantle Cell Lymphoma

| EGAD00010001582 | EGA

DNA methylation and expression profiling study for bladder cancer

Project description:DNA methylation and expression profiling study for bladder cancer