Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome-wide chromatin accessibility and DNA methylation of wildtype zebrafish livers at 120 hpf

ABSTRACT: The goal of this study is genomic chromatin accessibility of 120 hpf zebrafish livers by ATAC-Seq. ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing) and the DNA methylation profile using reduced representation bisulfite sequencing (RRBS).

ORGANISM(S): Danio rerio

PROVIDER: GSE173792 | GEO | 2021/07/07

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

RNA-Seq of 120 hpf control sibling and mutant uhrf1 hi272 zebrafish livers

Project description:In this study, we performed RNA-seq on 5 dpf livers of uhrf1-hi272 mutants and phenotypically wild-type siblings collected at 120 hpf.

2020-12-01 | GSE160710 | GEO

Comparing the genome-wide chromatin accessibility of uhrf1 hi272 mutants and phenotypically wildtype whole zebrafish embryos at 120 hpf using ATAC-Seq.

Project description:The goal of this study is to study the chromatin accessibility differences between control and uhrf1 hi272 mutant 120 hpf zebrafish embryos (uhrf1 hi272+/-, Tg(fabp10a:CAAX-EGFP) using ATAC-Seq technique.

2020-06-23 | GSE151293 | GEO

Transcriptomic profiling of whole larvae and the liver from dnmt1 mutant zebrafish larvae compared to their phenotypically normal siblings at 120 hpf

Project description:This SuperSeries is composed of the SubSeries listed below which has both RNAseq (from whole larvae and pools of dissected livers) and methylome profiling using reduced representation bisulfite sequencing (from whole larvae) at 120 hours post-fertilization (hpf).

2020-12-01 | GSE160728 | GEO

Transcriptomic profiling of zebrafish livers with nAtf6 overexpression at collected at 78 and 120 hpf

Project description:Activting transcription factor 6 (Atf6) is one of three main mediators of the Unfolded Protein Response and it gets cleaved cleaved in the Golgi and its N-terminal consisting of the bZip domain translocates into the nucleus to generate a transcriptional response (nAtf6). This study carries out RNAseq on an established transgenic overexpression of nAtf6 in zebrafish hepatocytes ( tg(fabp10:nAtf6-cherry; cmlc2:GFP)-C allele). Samples were collected at 78 and 120 hpf to detect gene expression changes at early and late time points after nAtf6 is overexpressed.

2019-05-08 | GSE130800 | GEO

Genome-wide chromatin accessibility and DNA methylation of wildtype zebrafish livers at 120 hpf

Project description:Genome-wide chromatin accessibility and DNA methylation of wildtype zebrafish livers at 120 hpf

| PRJNA727017 | ENA

Transcriptomic profiling of the liver from dnmt1 mutant zebrafish larvae compared to their phenotypically normal siblings at 120 hpf

Project description:In this dataset we performed RNA-seq on pools of livers dissected at 120 hpf from dnmt1(s904) mutants and phenotipically wild-type looking siblings.

2020-12-01 | GSE160726 | GEO

Gene expression analysis of 120 hpf zebrafish livers following 24 hour iAs exposure

Project description:Gene expression analysis of 120 hpf zebrafish livers following 24 hour iAs exposure

| PRJNA657855 | ENA

RNA-Seq of 120 hpf control sibling and mutant uhrf1 hi272 zebrafish livers

Project description:RNA-Seq of 120 hpf control sibling and mutant uhrf1 hi272 zebrafish livers

| PRJNA674050 | ENA

Differential gene expression in the liver of zebrafish larvae exposed to 1 mM inorganic arsenic from 4-120 hpf

Project description:The goal of this study is to compare gene expression levels in the livers of larval Tg(fabp10:nls-mcherry) exposed to 1 mM inorganic arsenic from 4-120 hpf to the unexposed siblings. Samples were collected from Tg(fabp10:nls-mcherry) zebrafish larvae that were derived from incrossed parents of the same strain. The background of transgenic lines were typically from mixed outcrosses of the transgenics to AB, TAB5, and TAB14 strains when regenerating the lines as the working stocks aged. All samples were collected at approximately 120 hpf - natural spawning at 8:30-9:00AM EST on day zero, samples were collected at 8-10AM EST on day 5.

2017-11-12 | GSE104953 | GEO

Transcritomic analysis in untreated and sodium arsenite treated (96-120 hours post fertilization; hpf) in pooled (12-15) zebrafish larval livers 5 days post fertilization (dpf): wild-type TAB5 compared to as3mt mutant larvae

Project description:This study was carried out to compare the changes in gene expression in 5 dpf zebrafish larval livers in response to mutation of the arsenic methylation gene (as3mt) - 8 bp deletion in exon 3 with and without 1 mM sodium arsenite treatment (96-120 hpf)

2023-05-01 | GSE228752 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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