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Series GSE45338 Query DataSets for GSE45338
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
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.
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.
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
Organization name University of California, San Diego
Department Bioengineering
Lab Dr. Sheng Zhong
Street address 9500 Gilman Drive MC 0412
City La Jolla
State/province California
ZIP/Postal code 92093-0412
Country USA
Platforms (4)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
GPL9318 AB SOLiD System 3.0 (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (13)
GSM1102658 KD_E14_H3K4me3_ChIP-seq
GSM1102659 KD_E14_H3K9me3_ChIP-seq
GSM1102663 mouse_ICM_RNA-seq
BioProject PRJNA193514
SRA SRP019829

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Supplementary file Size Download File type/resource
GSE45338_RAW.tar 488.3 Mb (http)(custom) TAR (of BED, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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