|
| Status |
Public on Jan 29, 2019 |
| Title |
10_H3K9m3_ChIPseq |
| Sample type |
SRA |
| |
|
| Source name |
TetO-TFAP2C hESC differentiation at Day7 with Dox
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: early epidemal differentiated human emryonic stem cell (hESC)
genotype: TetO-TFAP2C
treatment and stage: early differentiaiton with Dox for 7 days
chip antibody: H3K9m3; Abcam Cat #ab8898
|
| Growth protocol |
In vitro differentiation of TetO-TFAP2C H9 hESCs: To study the function of TFAP2C in surface ectoderm differentiation, TetO-TFAP2C H9 hESCs were induced with 2 mg/ml Doxycycline(Dox) in E6 medium without RA/BMP4 for 7 days. The resulting cells were imaged and collected for subsequent analysis.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody.
ChIP-seq libraries were prepared following the NEBNext protocol (NEBNext ChIP-Seq Library Prep kit Cat #E6240S/L)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
bowtie used for alignment.
peaks called using MACS
Genome_build: hg19
Supplementary_files_format_and_content: bedGraph
|
| |
|
| Submission date |
Jan 29, 2019 |
| Last update date |
Feb 04, 2019 |
| Contact name |
Anthony Oro |
| E-mail(s) |
oro@stanford.edu
|
| Organization name |
Stanford University
|
| Department |
Dermatology
|
| Lab |
Oro
|
| Street address |
269 Campus Drive, CCSR 2145c
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE122385 |
Epigenome regulation during epidermal lineage commitment |
| GSE125857 |
Epigenome regulation during epidermal lineage commitment [ChIP-seq] |
|
| Relations |
| BioSample |
SAMN10841547 |
| SRA |
SRX5307293 |
