Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Epigenome analysis of normal and DNMT3L-overexpressing human neurons [array]

ABSTRACT: Genome wide DNA methylation profiling of cultured fetal human neurons infected with lentivirus carrying DNMT3L or ZsGreen genes for 4days. The Illumina Infinium 850k Human MethylationEPIC BeadChip was used to obtain DNA methylation profiles across approximately 850,000 CpGs in the infected cells. Samples included 3 control samples (ZsGreen) and 3 DNMT3L-overexpressing samples (DNMT3L).

ORGANISM(S): Homo sapiens

PROVIDER: GSE157078 | GEO | 2020/08/29

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Epigenome analysis of normal human corneal endothelium and corneal endothelium from FECD patients

Project description:Genome wide DNA methylation profiling of normal human corneal endothelium and human corneal endothelium from FECD cases. The Illumina Infinium MethylationEPIC 850K BeadChip was used to obtain DNA methylation profiles across approximately 850,000 CpGs in genomic DNA from human corneal endothelium samples. Samples included 11 non-FECD donors, 17 FECD cases.

2023-02-15 | GSE198917 | GEO

Alterations of DNA Methylation Profile in Peripheral Blood of Children with Simple Obesity

Project description:Genome wide DNA methylation profiling of peripheral blood samples from 41 children with simple obesity and 31 normal controls. The Illumina Infinium MethylationEPIC BeadChip (Illumina 850k, San Diego, CA) was used to obtain DNA methylation profiles across greater than 850,000 CpG sites across the genome. Samples included 31 normal and 41 obesity peripheral blood.

2023-01-03 | GSE221864 | GEO

Transcriptome profiling of normal and DNMT3L-overexpressing human neurons [RNA-seq]

Project description:The objective of this study is to test the gene expression changes caused by DNMT3L overexpression in human neurons. The total RNA of each sample was extracted from the lentivirus infected, early differentiated human neuroprogenitors with ZsGreen (n=3) or DNMT3L (n=3) overexpression by using TRIzol reagent. Then the RNA samples were processed for high throughput transcriptome sequencing on Illumina HiSeq 3000 platform. Results: among 57 905 cleaned RNAs, 7983 RNAs were differentially expressed in DNMT3L overexpressing neurons compared with control neurons, with q-value ≤ 0.05. After limited the cut-off by adding |fold change| ≥ 1.5, the numbers of differential expressed RNAs lowered to 1073, with more down-regulation (590) than up-regulation (483). The differential expressed genes distributed in all chromosomes, also showing the pattern of more down-regulation than up-regulation in every chromosome except chromosome 21. Functional annotation with DAVID revealed the top functional groups including type I interferon signaling pathway and RNA and protein processing.

2020-08-29 | GSE157080 | GEO

Integrative analysis of gene expression and DNA methylation profiles in warts

Project description:Genome wide DNA methylation profiling of normal skin and common warts samples infected with the human papilloma virus (HPV). The Illumina Infinium MethylationEPIC BeadChip was used to obtain DNA methylation profiles across approximately 850,000 CpGs. DNA was extracted from 24 paired wart and normal skin samples.

2023-05-24 | GSE213888 | GEO

Characterization of Global DNA Methylome in Mild Cognitive Impairment and Alzheimer's Disease

Project description:Genome-wide profiling of DNA methylation in blood leukocytes from Chinese patients with mild cognitive impairment (MCI) and Alzheimer’s disease (AD). The Illumina Infinium MethylationEPIC BeadChip array (850K chip) was used to detect DNA methylation profiles throughout approximately 850,000 CpG sites in peripheral blood white cells of MCI- and AD-affected Chinese patients, as well as cognitively healthy controls. All samples included 20 Chinese patients with MCI, 20 Chinese patients with AD, and 20 cognitively healthy controls.

2023-09-11 | GSE208623 | GEO

Effect of a noval UHRF1-Targeted compound H93 on epigenome of DU145 prostate cancer cells.

Project description:To investigate the anti-tumor function of compound H93 in the development of prostate cancer, we treated DU145 cell lines with H93, SAHA or DMSO. We then performed genome wide DNA methylation profiling analysis of cells after treatment. The Illumina Infinium MethylationEPIC BeadChip (850K BeadChip) was used to obtain DNA methylation profiles across approximately 850,000 CpGs.

2024-01-10 | GSE222514 | GEO

DNA methylation changes in Dnmt3L-deficient mouse embryonic stem cells (mESCs)

Project description:We used RRBS to analyze DNA methylation in mESC lines deficient for maternal Dnmt3L (Dnmt3L mKO), zygotic Dnmt3L (Dnmt3L KO), and both maternal and zygotic Dnmt3L (Dnmt3L mzKO). Compared to wild-type (WT) mESCs, Dnmt3L mKO mESCs exhibit severe loss of methylation at imprinted loci but no changes in global DNA methylation, Dnmt3L KO mESCs exhibit moderate loss of methylation at many Dnmt3a target regions but do not affect methylation at imprinted loci, and Dnmt3L mzKO mESCs exhibit combined changes of mKO and KO cells, with severe loss of methylation at imprinted loci and moderate loss of methylation at Dnmt3a target regions.

2018-10-04 | GSE116489 | GEO

Transcription profiling of mpuse Dnmt3l-/+ (maternal methylation-deficient) vs normal 8.5dpc embryos

Project description:During oogenesis, DNA methyltransferase 3-like (Dnmt3l) is required for the establishment of the maternal germline DNA methylation imprints that in the offspring, govern the parent-of-origin-specific expression of most known imprinted genes (Science 2001, 294:2536-9). Dnmt3l-deficient dams were crossed with wildtype sires to obtain Dnmt3l-/+ embryos that lack maternal methylation imprints. Gene expression was measured in Dnmt3l-/+ and wildtype embryos and is expected to differ for imprinted genes that are under the control of a maternal methylation mark. Experiment Overall Design: 1 normal control sample/array. 2 biologically replicate Dnmt3l-/+ samples/arrays.

2008-06-16 | E-GEOD-8756 | biostudies-arrayexpress

Epigenome analysis of normal and FHRCC samples

Project description:Genome wide DNA methylation profiling of 32 hereditary leiomyomatosis and renal cell cancer patient-derived samples. The Illumina Infinium 850k Human DNA methylation Beadchip was used to obtain DNA methylation profiles across approximately 850,000 CpGs in nine breast HMECs samples.

2021-10-19 | GSE155207 | GEO

Epigenome analysis of normal and FHRCC samples

2023-07-25 | GSE155195 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data