|
| Status |
Public on Jan 30, 2024 |
| Title |
ES-4 |
| Sample type |
SRA |
| |
|
| Source name |
Patient-derived xenograft
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Patient-derived xenograft
subtype: Ewing sarcoma
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA of DSRCT PDX frozen samples were extracted using RNeasy Mini Kit (Qiagen).
Libraries were made using the KAPA Stranded RNA-Seq Library Preparation Kit (KAPA Biosystems).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
3-ES-PDX-3_S16
|
| Data processing |
Libraries from each sample were pooled together and sequenced on the Illumina HiSeq 4000 (Illumina).
Reads were mapped to the hg19 reference genome using GSNAP.
For calculation of gene expression, raw counts were obtained using featureCounts.
Assembly: hg38
Supplementary files format and content: tab-delimited text file
|
| |
|
| Submission date |
Oct 20, 2023 |
| Last update date |
Jan 30, 2024 |
| Contact name |
Danh Truong |
| E-mail(s) |
dtruong4@mdanderson.org
|
| Organization name |
MD Anderson Cancer Center
|
| Street address |
1515 Holcombe Blvd
|
| City |
Houston |
| ZIP/Postal code |
TX |
| Country |
USA |
| |
|
| Platform ID |
GPL20301 |
| Series (1) |
| GSE245914 |
RNA-sequencing of PDX from small round cell sarcomas |
|
| Relations |
| BioSample |
SAMN37906777 |
| SRA |
SRX22157243 |
