Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Study of DNA methylation pattern in single basepair resolution in the human dopaminergic neurons

ABSTRACT: Whole genome bisulfite sequencing was done in order to visualise the sides of DNA methylation in human genome.

ORGANISM(S): Homo sapiens

PROVIDER: GSE126639 | GEO | 2019/06/27

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Study of DNA methylation pattern in single basepair resolution in the human dopaminergic neurons

Project description:Study of DNA methylation pattern in single basepair resolution in the human dopaminergic neurons

| PRJNA522788 | ENA

Abnormal differentiation of dopaminergic neurons in zebrafish trpm7 mutant larvae impairs development of the motor pattern.

Project description: Not available

| S-EPMC3971878 | biostudies-literature

embryo dopaminergic neurons tiling array

Project description:modENCODE_submission_467 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commerically available genome tiling arrays. To maximize the chances of detecting rare transcripts with limited expression in specific cells, we are extracting RNA from selected embryonic cells isolated by FACS and from postembryonic cells by use of the mRNA tagging method. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: BY200 (engineered, target gene dat-1 tagged by GFP); Tissue: dopaminergic neurons (embryonic); Developmental Stage: Mixed stage of embryos 20dC; Genotype: dat-1::GFP (pRN2003); Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: Strain BY200 (engineered, target gene dat-1 tagged by GFP); temperature 20; Developmental Stage Mixed stage of embryos 20dC; Tissue dopaminergic neurons (embryonic)

2010-08-04 | E-GEOD-23257 | biostudies-arrayexpress

embryo dopaminergic neurons tiling array

2010-08-05 | GSE23257 | GEO

Hi-C Analyses with GENOVA: a case study with cohesin variants

Project description:Conformation capture-approaches like Hi-C can elucidate chromosome structure at a genome-wide scale. Hi-C datasets are large and require specialised software. Here, we present GENOVA: a user-friendly software package to analyse and visualise conformation capture data. GENOVA is an R-package that includes the most common Hi-C analyses, such as compartment and insulation score analysis. It can create annotated heatmaps to visualise the contact frequency at a specific locus and aggregate Hi-C signal over a user-specified genomic regions such as ChIP-seq data. Finally, our package supports output from the major mapping-pipelines. We demonstrate the capabilities of GENOVA by analysing Hi-C data from HAP1 cell lines in which the cohesin-subunits SA1 and SA2 were knocked out. We find that ΔSA1 cells gain intra-TAD interactions and increase compartmentalisation. ΔSA2 cells have longer loops and a less compartmentalised genome. These results suggest that cohesinSA1 forms longer loops, while cohesinSA2 plays a role in forming and maintaining intra-TAD interactions. The differences in loop-forming activity affect whole chromosome organisation consistent with a model where loops and compartments counterbalance each other. We show that GENOVA is an easy to use R-package, that allows researchers to explore Hi-C data in great detail.

2021-06-03 | GSE160490 | GEO

The long noncoding RNA H19 regulates tumor plasticity in neuroendocrine prostate cancer

Project description:We report the effect of H19 knockdown on genome wide methylation by Enhanced Reduced Representation Bisulfite Sequencing (eRBBS) to detect quantitative base pair changes. Differential methylation genome wide analysis was done on NEPC derived organoid expressing shH19 or a control vector.

2021-09-12 | GSE182914 | GEO

Study on miRNA expression pattern in Aging Mouse Hippocampal Neurons

Project description:Mouse hippocampal microRNA

2016-10-27 | GSE74796 | GEO

Study of MeCP2 binding and accessibity of chromatin in absence and presence of MeCP2 using ATAC-seq

Project description:ATAC-seq was performed to study changes in chromatin openness in the MeCP2 knock-outs and overexpressions. Additionally data was used to visualise the foorprint of MeCP2 bound to chromatin in vivo.

2019-06-27 | GSE125658 | GEO

Study on miRNA expression pattern in Aging Mouse Hippocampal Neurons

Project description:Mouse hippocampal microRNA 3 samples

2016-10-27 | E-GEOD-74796 | biostudies-arrayexpress

Dendritic Architecture Predicts <i>in vivo</i> Firing Pattern in Mouse Ventral Tegmental Area and Substantia Nigra Dopaminergic Neurons.

Project description: Not available

| S-EPMC8640462 | biostudies-literature