|
| Status |
Public on Aug 14, 2020 |
| Title |
RM1CD4_HiC |
| Sample type |
SRA |
| |
|
| Source name |
Primery CD4+ T-cells from PBMCs
|
| Organism |
Macaca mulatta |
| Characteristics |
individual: 1
Sex: Male
cell type: blood-deriven CD4+ T-cells
|
| Growth protocol |
CD4+ T-cells isolated from peripheral blood using positive selection for the CD4 antigen.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Nuclei were extracted as described (Danko et. al. (2015) Nature Methods).
Hi-C libraries were prepered according to Rho et al. 2018, cell (PMID: 25497547). MicroC was performed according to Krietenstein et al. Mol. Cell, 2020 (PMID:32213324)
|
| |
|
| Library strategy |
Hi-C |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Data was processed using the Juicer pipeline (Durand et al. Cell.Syst, 2016 [PMID: 27467249])
Genome_build: hg19
Supplementary_files_format_and_content: Hi-C and MicroC contact with mapping quality for each fragment are provided in the merged_nodup.txt suffixed filles. Contact frequancy matrices with resolution ranging from 5Kbp to 2.5Mbp are provided as hic files.
|
| |
|
| Submission date |
Aug 13, 2020 |
| Last update date |
Aug 14, 2020 |
| Contact name |
Charles Grahe Danko |
| E-mail(s) |
dankoc@gmail.com
|
| Organization name |
Cornell University
|
| Department |
Baker Institute for Animal Health
|
| Street address |
235 Hungerford Hill Road
|
| City |
Ithaca |
| State/province |
NY |
| ZIP/Postal code |
14853 |
| Country |
USA |
| |
|
| Platform ID |
GPL27943 |
| Series (1) |
| GSE156161 |
Multiple stages of evolutionary change in anthrax toxin receptor expression in humans |
|
| Relations |
| BioSample |
SAMN15808885 |
| SRA |
SRX8939699 |
