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

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

PROVIDER: PRJNA660026 | ENA |

REPOSITORIES: ENA

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

Project description: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).

2020-08-29 | GSE157078 | GEO

Normal and DNMT3L-overexpressing human neurons

Project description:Normal and DNMT3L-overexpressing human neurons

| PRJNA660025 | ENA

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

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

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

| PRJNA660028 | ENA

Transcriptome profiling of wild type and DNMT3L-overexpressing Drosophila larvae brains

Project description:The objective of the study was to examine the gene expression changes caused by human DNMT3L overexpression in Drosophila melanogaster brains. There were 6 samples in total- C1, C2, C3, D1, D2, and D3. C1-C3 were larvae brains from the strain of elavC155-Gal4, which were used as the control group (C). D1-D3 were larvae brains from the strain with DNMT3L overexpression, which were bred by crossing the strains of elavC155-Gal4 and w/w;P(UAS-DNMT3L,w+)/Cyo;TM2/TM6B and used as the DNMT3L overexpressing group (D). The total RNA of each sample was extracted from 30 brains of the 3rd instar larvae of Drosophila by using TRIzol reagent. Then the RNA samples were processed for high throughput transcriptome sequencing on Illumina HiSeq 3000 platform. Results: among 17737 cleaned RNAs, 267 RNAs were differentially expressed in DNMT3L overexpressing group compared with control group, with q-value ≤ 0.05 and |fold change|≥2 , with more down-regulation (151) than up-regulation (116). They corresponded to 655 human homologous genes. The differential expressed genes distributed in all chromosomes. Functional annotation with GO and KEGG enrichment revealed the top functional groups including calcium ion transport, voltage gated channel, choilnergic synapse, serotonergic synapse, and drug metabolism.

2024-05-29 | GSE263069 | 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

Normal and DNMT3L-overexpressing human neurons

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-08-29 | GSE157081 | GEO

Dnmt3l-/+ (maternal methylation-deficient) vs normal 8.5dpc embryos

2008-04-14 | GSE8756 | GEO

Transcriptome profiling of wild type and DNMT3L-overexpressing Drosophila larvae brains

Project description:Transcriptome profiling of wild type and DNMT3L-overexpressing Drosophila larvae brains

| PRJNA1095536 | ENA

Genome-wide analysis of Dnmt3L heterozygous and wildtype spermatocytes and spermatids

Project description:Comparison of gene expression differences between Dnmt3L heterozygous and wildtype pachytene spermatocytes, and similarly between Dnmt3L heterozygous and wildtype round spermatids which were isolated from the Dnmt3L knockout mouse line. This array was conducted to address the hypothesis that Dnmt3L heterozygosity results in deregulated gene expression within spermatocytes and spermatids. Results show that Dnmt3L heterozygosity causes numerous genes to be differentially regulated on a genome-wide level, showing that DNMT3L has an important role in regulating gene expression within these male germ cells.

2011-03-01 | GSE20241 | GEO

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