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Series GSE98776 Query DataSets for GSE98776
Status Public on Jul 10, 2018
Title Open chromatin in somatic cells transplanted into Xenopus oocytes
Organisms Mus musculus; Mus musculus musculus x Mus musculus castaneus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Active gene transcription is associated with an open chromatin configuration at gene regulatory regions. However, the relationship between chromatin architecture of somatic cells and transcriptional activation during nuclear reprogramming in oocytes is unclear. We therefore examined changes in open chromatin states before and after transplantation of mouse somatic nuclei into Xenopus laevis oocytes by using the Assay for Transposase-Accessible Chromatin Sequencing (ATAC-seq).
 
Overall design ATAC-seq was performed using the following cell samples; (1) C2C12 cells, (2) mouse embryonic fibroblasts (MEFs) before and after nuclear transplantation into Xenopus laevis oocytes.
 
Contributor(s) Miyamoto K, Bradshaw C
Citation(s) 29996092
Submission date May 10, 2017
Last update date Jul 25, 2021
Contact name Charles Bradshaw
Organization name University of Cambridge
Department Gurdon Institute
Street address Tennis Court Road
City Cambridge
ZIP/Postal code CB2 1QN
Country United Kingdom
 
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL22270 Illumina HiSeq 2500 (Mus musculus musculus x M. m. castaneus)
Samples (8)
GSM2611648 C2C12-50000-1
GSM2611649 C2C12-50000-2
GSM2611650 C2C12-1000-1
Relations
BioProject PRJNA386179
SRA SRP106806

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE98776_AfterNT.peaks_fdr0.01.bed.gz 103.5 Kb (ftp)(http) BED
GSE98776_C2C12.1kcells.peaks_fdr0.01.bed.gz 416.4 Kb (ftp)(http) BED
GSE98776_C2C12.50kcells.peaks_fdr0.01.bed.gz 629.7 Kb (ftp)(http) BED
GSE98776_MEF.peaks_fdr0.01.bed.gz 474.6 Kb (ftp)(http) BED
GSE98776_NTToca1.peaks_fdr0.01.bed.gz 203.1 Kb (ftp)(http) BED
GSE98776_RAW.tar 901.4 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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