|
| Status |
Public on Nov 13, 2020 |
| Title |
H4K20me3_WT_mESC_rep2 |
| Sample type |
SRA |
| |
|
| Source name |
ESC
|
| Organism |
Mus musculus |
| Characteristics |
cell type: ESC
genotype/variation: wild type
|
| Growth protocol |
ES cells were cultured on gelatin-coated dishes in ES cell media containing 1.5 µM CHIR9901 (GSK3 inhibitor) for several passages to remove feeder cells. ES cells were passed by washing with PBS, and dissociating with trypsin.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
In situ Hi-C was performed for WT and SUV420H2 KO ES cells using the Arima-HiC kit (Arima Genomics Inc) as described by the manufacturer.
In situ Hi-C was performed for WT and SUV420H2 KO ES cells using the Arima-HiC kit (Arima Genomics Inc) as described by the manufacturer.
|
| |
|
| Library strategy |
Hi-C |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Hi-C
|
| Data processing |
Juicer was utilized to convert the raw sequencing data to a hic file containing normalized Hi-C contact matrices.
Genome_build: mm9
Supplementary_files_format_and_content: Hic
|
| |
|
| Submission date |
May 05, 2019 |
| Last update date |
Nov 13, 2020 |
| Contact name |
Benjamin L Kidder |
| E-mail(s) |
benjamin.kidder@wayne.edu
|
| Organization name |
Wayne State University
|
| Department |
Oncology
|
| Lab |
Laboratory of Epigenomics
|
| Street address |
4100 John R St
|
| City |
Detroit |
| State/province |
MI |
| ZIP/Postal code |
48201 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE130723 |
H4K20me3 methyltransferase SUV420H2 shapes the chromatin landscape of pluripotent embryonic stem cells |
| GSE130725 |
H4K20me3 methyltransferase SUV420H2 shapes the three-dimensional chromatin landscape of pluripotent embryonic stem cells |
|
| Relations |
| BioSample |
SAMN11578701 |
| SRA |
SRX5794192 |
