|
| Status |
Public on Oct 06, 2023 |
| Title |
P1_bone_marrow [scATAC-seq] |
| Sample type |
SRA |
| |
|
| Source name |
patient 1
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: bone marrow CD34/CD45+
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Flow-sorted CD34/CD45-positive cells were captured with the Chromium Controller (10x Genomics).
libraries were prepared with the Chromium Single Cell ATAC Kit v1.1 (10x Genomics)
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Sequencing data were processed by Cell Ranger ATAC version 1.2.0.
This pipeline performed de-multiplexing, alignment (hg38), and barcode processing to generate peak-cell matrices used for downstream analysis.
Genome_build: hg38
Supplementary_files_format_and_content: cell ranger count matrix for peaks vs single cells in each sample
|
| |
|
| Submission date |
Dec 11, 2020 |
| Last update date |
Oct 06, 2023 |
| Contact name |
Jiyang Yu |
| Organization name |
St Jude Children's Research Hospital
|
| Department |
Department of Computational Biology
|
| Street address |
262 Danny Thomas Pl
|
| City |
Memphis |
| State/province |
TN |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE163082 |
Integrome signatures of lentiviral gene therapy for SCID-X1 patients |
| GSE163083 |
Integrome signatures of lentiviral gene therapy for SCID-X1 patients |
|
| Relations |
| BioSample |
SAMN17064532 |
| SRA |
SRX9675580 |
