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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Feb 28, 2012 |
| Title |
Genome-wide analysis of histone modification, protein-DNA binding, cytosine methylation and transcriptome data in mouse and human ES cells and pig iPS cells |
| Organisms |
Homo sapiens; Sus scrofa; Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
Genome-wide analysis of histone modification (H2AZ, H3K27ac, H3K27me3, H3K36me3, H3K4me1, H3K4me2, H3K4me3 and H3K9me3), protein-DNA binding (TAF1, P300, Pou5f1 and Nanog), cytosine methylation and transcriptome data in mouse and human ES cells and pig iPS cells
We generated histone modification data (H2AZ, H3K27ac, H3K27me3, H3K36me3, H3K4me1, H3K4me2, H3K4me3 and H3K9me3) and protein-DNA binding data (TAF1, P300, Pou5f1 and Nanog) using Chromatin Immunoprecipitation followed by short sequencing (ChIP-seq), cytosine methylation data using methylated DNA immunoprecipitation followed by sequencing (MeDIP-seq) and DNA digestion by methyl-sensitive restriction enzymes followed by sequencing (MRE-seq), transcriptome data with RNA short sequencing (RNA-seq) in human embryonic stem cells, mouse embryonic stem cells, pig induced pluripotent stem cells and mouse embryonic stem cells under activin-A-induced-differentiation.
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| Overall design |
Examination of 8 histone modifications, 4 protein-DNA binding, cytosine methylation and transcriptome in human embryonic stem cells, mouse embryonic stem cells, pig induced pluripotent stem cells and mouse embryonic stem cells under activin-A-induced-differentiation.
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| Contributor(s) |
Xiao S, Xie D, Cao X, Yu P, Xing X, Chen C, Musselman M, Xie M, West FD, Lewin HA, Wang T, Zhong S |
| Citation(s) |
22682255 |
| Submission date |
Feb 27, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Pengfei Yu |
| E-mail(s) |
yupf05@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 0419
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| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093-0419 |
| Country |
USA |
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| Platforms (6)
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| GPL9115 |
Illumina Genome Analyzer II (Homo sapiens) |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
| GPL10945 |
Illumina Genome Analyzer II (Sus scrofa) |
| GPL11002 |
Illumina Genome Analyzer IIx (Mus musculus) |
| GPL15064 |
Illumina Genome Analyzer IIx (Sus scrofa) |
| GPL16417 |
Illumina MiSeq (Mus musculus) |
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| Samples (47)
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| Relations |
| SRA |
SRP011077 |
| BioProject |
PRJNA152995 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE36114_RAW.tar |
21.5 Gb |
(http)(custom) |
TAR (of BAM, BED, GTF, TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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