|
| Status |
Public on Jul 13, 2020 |
| Title |
CD34_500_Day14 |
| Sample type |
SRA |
| |
|
| Source name |
CD34+ hematopoietic cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: CD34+ hematopoietic cells
culture input cell #: 500
timepoint: Day 14
|
| Treatment protocol |
NA
|
| Growth protocol |
StemSpan II supplemented with P/S and 1x CC100 cytokine mix. For differentiation, IMDM-based media containing human serum and plasma was supplemented with erythropoietin, stem cell factor and interleukin-3; see method section for detailed information)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
NP40 lysis, see method sections for full details
Custom 10x Genomics scATAC-seq (mtscATAC-seq)
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
NextSeq 550 |
| |
|
| Data processing |
Fastqs were demultiplexed usiing CellRanger-ATAC mkfastq (v1.0.0)
Sequencing reads were aligned to a modified hg19 reference using CellRanger-ATAC count (v1.0.0). Single-cells were called using the default parameters from this step.
Genome_build: hg19
Supplementary_files_format_and_content: Processed fragment files from 10x CellRanger-ATAC count
|
| |
|
| Submission date |
Dec 30, 2019 |
| Last update date |
Jul 13, 2020 |
| Contact name |
Caleb Lareau |
| E-mail(s) |
lareauc@mskcc.org
|
| Organization name |
Memorial Sloan Kettering
|
| Street address |
417 E 68th St, Zuckerman - ZRC 1132
|
| City |
New York |
| State/province |
New York |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL21697 |
| Series (2) |
| GSE142742 |
High-throughput single-cell mitochondrial DNA genotyping reveals properties of clonal variation in human contexts [CD34-invitro] |
| GSE142745 |
High-throughput single-cell mitochondrial DNA genotyping reveals properties of clonal variation in human contexts |
|
| Relations |
| BioSample |
SAMN13699375 |
| SRA |
SRX7478518 |
