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| Status |
Public on Aug 19, 2019 |
| Title |
Methylation and gene expression data from Dnmt3b+/+, Dnmt3b-/- and Dnmt3bCI/CI embryos harvested at E11.5 |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
Dnmt3b is a DNA methyltransferase, an enzyme which methylates genomic DNA, contributes to genomic stability and transcriptional regulation. Inactivation of Dnmt3b in mice results in embryonic lethality at E13.5. It is however unclear which activities are responsible for this phenomenon. Here, we analyzed methylation and gene expression in Dnmt3b+/+ (WT), Dnmt3b-/- (3bKO) and Dnmt3bCI/CI (3bKI) embryos at E11.5.
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| Overall design |
We performed RRBS and RNA-seq analysis in whole embryos harvested at E11.5. RRBS experiments were performed in biological duplicates, RNA-seq experiments in triplicates. In addition, we performed RRBS in Dnmt3a-/- Dnmt3b-/- lymphoma cell line overexpressing Dnmt3b WT and CI.
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| Contributor(s) |
Nowialis P, Lopusna K, Opavska J, Haney SL, Abraham A, Sheng P, Riva A, Natarajan A, Guryanova O, Simpson M, Hlady R, Xie M, Opavsky R |
| Citation(s) |
31558711 |
| Submission date |
Jun 18, 2019 |
| Last update date |
Nov 18, 2019 |
| Contact name |
Rene Opavsky |
| E-mail(s) |
ropavsky@ufl.edu
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| Phone |
3522948599
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| Organization name |
University of FLORIDA
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| Department |
Anatomy and cell biology
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| Street address |
2033 Mowry rd, CGRC r..265
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| City |
Gainesville |
| State/province |
FL |
| ZIP/Postal code |
32610 |
| Country |
USA |
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| Platforms (2) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (18)
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| Relations |
| BioProject |
PRJNA549518 |
| SRA |
SRP201807 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE132952_RAW.tar |
94.7 Mb |
(http)(custom) |
TAR (of BIGWIG) |
| GSE132952_RNAseq_FPKM.txt.gz |
2.5 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
| Raw data are available in SRA |
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