|
| Status |
Public on Mar 03, 2023 |
| Title |
C13_R2 ATAC |
| Sample type |
SRA |
| |
|
| Source name |
KIT+ CD16/32- CD34dim CD41- CD9-
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: Primary bone marrow
genotype: Wild type
cell population: KIT+ CD16/32- CD34dim CD41- CD9-
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
40,000 - 50,000 cells were collected from primary mouse bone marrow and resuspended with transposase TDE1 in buffer containing digitonin.
Right-side selection was performed with SPRIselect beads and amplified using the NEBnext PCR master mix and Nextera PCR primers 1 and 2. Libraries were subsequently purified using AMPure XP beads and the Kapa SYBR FAST Universal kit.
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Reads were mapped using Bowtie v1.0.0
Accessible reagions were identified wiht FSeq v1.85
Peaks were called using HOMER v1.0
Genome_build: mm10
Supplementary_files_format_and_content: genomic regions
|
| |
|
| Submission date |
Mar 04, 2021 |
| Last update date |
Nov 20, 2024 |
| Contact name |
Jens Lichtenberg |
| E-mail(s) |
lichtenbergj@mail.nih.gov
|
| Phone |
7402749495
|
| Fax |
3014024929
|
| Organization name |
National Institutes of Health
|
| Department |
National Human Genome Research Institute
|
| Street address |
49 Convent Dr 3A19
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE168257 |
Identification and isolation of hematopoietic stem and progenitor cell populations (ATAC-seq) |
| GSE168260 |
Identification and isolation of hematopoietic stem and progenitor cell populations |
|
| Relations |
| BioSample |
SAMN18142661 |
| SRA |
SRX10240652 |
