|
| Status |
Public on Dec 01, 2023 |
| Title |
IDH mutant astrocytoma, scATACseq |
| Sample type |
SRA |
| |
|
| Source name |
tumor specimen
|
| Organism |
Homo sapiens |
| Characteristics |
genotype: IDH mutant
tissue: astrocytoma
cell type: neural/tumor
|
| Treatment protocol |
Glioma specimen are flash frozen and single cell RNAsequencing and ATAC sequencing
|
| Growth protocol |
Tumor specimen
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The sample was then processed as described in the “10X Genomics Nuclei Isolation from Complex Tissues for Single Cell Multiome ATAC + GEX Sequencing Demonstrated Protocol CG000375 Rev B”
nuclei were processed for sequencing by the NYU GTC on an Illumina NovaSeq 6000 flow cell
10x Genomics single cell RNAseq and ATACseq
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic single cell |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10x Genomics
|
| Data processing |
10x Genomics CellRanger, version 7.0.1
Assembly: hg38
Supplementary files format and content: Barcode, features, and matrix files.
|
| |
|
| Submission date |
Apr 24, 2023 |
| Last update date |
Dec 01, 2023 |
| Contact name |
Niklas Ravn-Boess |
| Organization name |
NYU Langone
|
| Street address |
550 1st Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10016 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE230389 |
Single cell data from IDH mutant astroxytoma and IDH wildtype GBM tumor specimen |
|
| Relations |
| BioSample |
SAMN34341296 |
| SRA |
SRX20079433 |
