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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Apr 10, 2017 |
| Title |
Role of SMARCAD1 and H3R26Cit in Maintenance of the Naïve Pluripotent State |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
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| Summary |
Genome-wide maps of SMARCAD1 binding and histone modification H3R26Cit in mouse ES cells, histone modification H3K9me3, H3K4me3, H3K27Ac in Smarcad1 KD mouse ES cells, and histone modification H3K9me3 in mouse ES cells after PADI inhibition. Together with RNA-seq data for mouse ICM, blastocyst, embryonic stem cells and Smarcad1 KD cells.
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| Overall design |
We used the strategies of ChIP-Seq to detect the epigenetic pattern of SMARCAD1 and H3R26Cit in E14 cells to describe the colocalization of the two.
We also used the strategies of ChIP-Seq to detect the epigenetic pattern in E14 and Smarcad1-knock down cells. Together with RNA-seq data for mouse ES cells, Smarcad1 KD cells, mouse ICM and blastocyst, we described the fuction of Smarcad1 in switch pluripotent states.
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| Contributor(s) |
Xiao S, Lu J, Sridhar B, Cao X, Zhao T, Yu P, Chen C, McDee D, Sloofman L, Wang Y, Rivas-Astroza M, Telugu BP, Levasseur D, Zhang K, Zhao JC, Tanaka TS, Stormo G, Zhong S |
| Citation(s) |
28355564 |
| Submission date |
Mar 20, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Sheng Zhong |
| E-mail(s) |
zhonglabucsd@gmail.com
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| Organization name |
University of California, San Diego
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| Department |
Bioengineering
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| Lab |
Dr. Sheng Zhong
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| Street address |
9500 Gilman Drive MC 0412
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| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92093-0412 |
| Country |
USA |
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| Platforms (4)
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| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
| GPL9318 |
AB SOLiD System 3.0 (Mus musculus) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (13)
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| Relations |
| BioProject |
PRJNA193514 |
| SRA |
SRP019829 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE45338_RAW.tar |
488.3 Mb |
(http)(custom) |
TAR (of BED, TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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