|
| Status |
Public on May 08, 2023 |
| Title |
RCAS-nTva Bulk Tumor ATRX Positive 3 |
| Sample type |
SRA |
| |
|
| Source name |
Brain Tumor
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Brain Tumor
genotype: ATRX-wildtype
treatment: Tumorigenic RCAS and CRE RCAS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction was performed using the Qiagen Rneasy Plus kit according to manufacturer's instructions.
Libraries were generated using Truseq library preparation kits (Illumina)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
The raw fastq files were subjected to FASTQC analysis for quality control analysis
Alignment to mouse mm9 genome was performed using RNASTAR (version 2.7.8a).
Raw transcript counts were generated using HTseq-count tool (version 0.9.1)
Assembly: mm9
Supplementary files format and content: Tab-delimited count file containing counts for all samples
|
| |
|
| Submission date |
May 06, 2023 |
| Last update date |
May 08, 2023 |
| Contact name |
Benjamin Whitfield |
| E-mail(s) |
BTWhitfield@mdanderson.org
|
| Phone |
9198023476
|
| Organization name |
MD Anderson/UT Health GSBS
|
| Street address |
5918 Belrose Dr
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77035 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE231831 |
Effect of ATRX deficiency on gene expression of RCAS-nTva derived murine gliomas [RNA-seq: ATRX_Immuno_Tumor] |
| GSE231832 |
Effect of ATRX deficiency on gene expression of RCAS-nTva derived murine gliomas |
|
| Relations |
| BioSample |
SAMN34744360 |
| SRA |
SRX20244640 |
