|
| Status |
Public on Jun 11, 2020 |
| Title |
Ctrl PDX HCI-009 3943 |
| Sample type |
SRA |
| |
|
| Source name |
Patient derived xenograft tumors
|
| Organism |
Homo sapiens |
| Characteristics |
pdx: HCI-009 TNBC
mouse strain: NOD scid gamma
treatment: Vehicle control: Cellulose pellet, 9wk
|
| Treatment protocol |
Mice were implanted with cellulose control or slow release 8mg DHT pellets prior to tumor implantation. Tumor tissue was collect 9 weeks later.
|
| Growth protocol |
PDX tumors were propogated in the mammary glands of NOD/SCID/gamma mice
|
| Extracted molecule |
total RNA |
| Extraction protocol |
mRNA was extracted from frozen tissue using TRIzol and was Bioanalyzed prior to sequencing
RNA libraries were prepared used Illumina HiSeq libraries according to manufacturer’s instructions for the TruSeq Stranded RNA kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Control 1
|
| Data processing |
Reads generated were mapped to the human genome (GRCH38) by gSNAP (CITE2)
Expression (FPKM) derived by Cufflinks (CITE2)
Differential expression analyzed with ANOVA in R.
|
| |
|
| Submission date |
Jun 10, 2020 |
| Last update date |
Jun 12, 2020 |
| Contact name |
Jessica Christenson |
| E-mail(s) |
jessica.christenson@cuanschutz.edu
|
| Organization name |
University of Colorado Anschutz Medical Campus
|
| Department |
Pathology
|
| Lab |
Jennifer Richer
|
| Street address |
12800 E. 19th Ave.
|
| City |
Aurora |
| State/province |
CO |
| ZIP/Postal code |
80045 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE152246 |
Gene expression changes following dihydrotestosterone (DHT) treatment in HCI-009 PDXs |
|
| Relations |
| BioSample |
SAMN15206477 |
| SRA |
SRX8526619 |
