Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Detection of chromatin accessibility in WT and SRC-2-/- mice in liver

ABSTRACT: We futher characterized genome-wide chromatin accessibility of WT and SRC-2-/- mouse liver at CT10 through DNase-Seq. In addition,chromatin accessibility was significantly reduced in SRC-2-/- mouse liver compared to WT mice at CT10. DNase-Seq was carried out in WT and SRC-2-/- mice in liver at CT10 using two doses of DNaseI.

ORGANISM(S): Mus musculus

SUBMITTER: Bokai Zhu

PROVIDER: E-GEOD-67859 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Coactivator-Dependent Oscillation of Chromatin Accessibility Dictates Circadian Gene Amplitude via REV-ERB Loading.

Zhu Bokai B Gates Leah A LA Stashi Erin E Dasgupta Subhamoy S Gonzales Naomi N Dean Adam A Dacso Clifford C CC York Brian B O'Malley Bert W BW

Molecular cell 20151121 5

A central mechanism for controlling circadian gene amplitude remains elusive. We present evidence for a "facilitated repression (FR)" model that functions as an amplitude rheostat for circadian gene oscillation. We demonstrate that ROR and/or BMAL1 promote global chromatin decondensation during the activation phase of the circadian cycle to actively facilitate REV-ERB loading for repression of circadian gene expression. Mechanistically, we found that SRC-2 dictates global circadian chromatin rem ...[more]

PMID: 26611104

Similar Datasets

Genome-wide maps of BAF180 and REV-ERBÎ± binding

Project description:We generated genome-wide cistromes of BAF180 subunit of the SWI-SNF chromatin remodeling complex in mouse liver at CT10 and CT22. In addition, we performed ChIP-Seq analysis on REV-ERBÎ± in WT and SRC-2-/- mouse liver at CT10. We found circadian oscilation of BAF180 chromatin recruitment in mouse liver with peak recruitment at CT22 and nadir at CT10. Further,REV-ERBÎ± chromatin recruitment was significantly reduced in SRC-2-/- mouse liver compared to WT mice at CT10. ChIP-Seq for BAF180 was performed in WT mice liver at CT10 and CT22 using two different antibodies. ChIP-Seq for REV-ERBÎ± was performed in WT and SRC-2-/- mice in liver at CT10 with biological replicates.

2015-12-07 | E-GEOD-67852 | biostudies-arrayexpress

Detection of chromatin accessibility in WT and SRC-2-/- mice in liver

Project description:We futher characterized genome-wide chromatin accessibility of WT and SRC-2-/- mouse liver at CT10 through DNase-Seq. In addition,chromatin accessibility was significantly reduced in SRC-2-/- mouse liver compared to WT mice at CT10.

2015-12-07 | GSE67859 | GEO

Genome-wide maps of BAF180 and REV-ERBα binding

Project description:We generated genome-wide cistromes of BAF180 subunit of the SWI-SNF chromatin remodeling complex in mouse liver at CT10 and CT22. In addition, we performed ChIP-Seq analysis on REV-ERBα in WT and SRC-2-/- mouse liver at CT10. We found circadian oscilation of BAF180 chromatin recruitment in mouse liver with peak recruitment at CT22 and nadir at CT10. Further,REV-ERBα chromatin recruitment was significantly reduced in SRC-2-/- mouse liver compared to WT mice at CT10.

2015-12-07 | GSE67852 | GEO

Expression analysis of GATA1s murine megakaryocyte progenitors from bone marrow and fetal Liver

Project description:About 10% of Down syndrome (DS) infants are born with a myeloproliferative disorder (DS-TMD) that spontaneously resolves within the first few months of life. About 20-30% of these infants subsequently develop acute megakaryoblastic leukemia (DS-AMKL). In order to understand differences that may exist between fetal and bone marrow megakaryocyte progenitor cell populations we flow sorted megakaryocyte progenitor cells and performed microarray expression analysis. kewywords: Mouse megakaryocyte progenitors Expression data of flow cytometrically isolated murine megakaryocyte progenitor cells (lin-, Sca-1-, c-kit+, CD150+, CD41+) from GATA1s fetal liver and bone marrow

2013-03-29 | E-GEOD-45619 | biostudies-arrayexpress

Expression analysis of BL6 murine megakaryocyte progenitors from bone marrow and fetal Liver

2013-03-29 | E-GEOD-45618 | biostudies-arrayexpress

Mus musculus

Project description:Detection of chromatin accessibility in WT and SRC-2-/- mice in liver

| PRJNA281083 | ENA

Time course SRC-3 ChIP-Seq and XBP1s ChIP-Seq in the C57BJ/L6 WT, SRC-3 WT versus KO, and Xbp1 WT versus LKO mice under chow and fasting conditions

Project description:We report the hepatic SRC-3 and XBP1s cistrome at 4-hour interval timecourse zeitgeber times (ZTs) in the liver of the C57BJ/L6 WT mice under chow and fasting conditions; we also chose liver samples at CT24, ZT0 and ZT8 for comprehensive SRC-3 and XBP1s ChIP-Seq to interrogate the genomic binding profiles of hepatic SRC-3 and XBP1s in vivo.

2021-12-31 | GSE175559 | GEO

439e5c9d-ed8e-4d34-be88-4b759c6329a2 - samples

Project description:RNA sequencing data of in vitro differentiated megakaryocyte cells transduced with E527K and WT SRC. CD34+ hematopoietic stem cells (HSC) were isolated from healthy controls before transduction with WT-SRC and E527K-SRC lentiviral vectors in triplicate and differentiation to MK. Three replicates each of two pools were generated for both WT and E527K SRC transduced cells, resulting in 3 WT pool 1 samples, 3 WT pool 2 samples, 3 E527K pool 1 samples and 3 E527K pool 2 samples for a total of 12 samples. RNA was extracted and sequenced with following parameters: Platform: Illumina HiSeq4000, Library Prep Kit: TruSeq stranded mRNA, Sequencing Kit: Illumina HiSeq4000 100 cycles (76-8-8-7), Fragments: single end / fr-firststrand.

| EGAD00001008356 | EGA

RNA sequencing data of in vitro differentiated megakaryocyte cells transduced with E527K and WT SRC

Project description:For RNA sequencing (RNAseq), CD34+ hematopoietic stem cells (HSC) were isolated from healthy controls before transduction with WT-SRC and E527K-SRC lentiviral vectors in triplicate and differentiation to MK. RNA was extracted from the complete cell population as the aim was to detect differences in genes regulating MK maturation and differentiation. A total of six WT-SRC and six E527K-SRC RNA samples were used for RNAseq to identify differentially expressed genes.

| EGAS00001005808 | EGA

Time course hepatic RNA-Seq in the SRC-3 WT versus KO mice

Project description:We report the hepatic total gene expression (starting at ZT0 and proceeding every four hours for two complete 12-hour cycles) in the liver of SRC-3 WT and KO mice.

2021-12-31 | GSE175560 | 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