|
| Status |
Public on Sep 26, 2017 |
| Title |
HBCx-22 PDX treated with vehicle #3 |
| Sample type |
SRA |
| |
|
| Source name |
HBCx-22 PDX treated with vehicle
|
| Organism |
Homo sapiens |
| Characteristics |
xenograft host: female athymic nude mice (Foxn1nu)
tissue: breast cancer patient-derived xenografts (PDX)
tissue type: snapfrozen xenograft specimen
tag: Hormone receptor positive
|
| Treatment protocol |
Mice were randomized based on tumor size and allocated to treatment groups and then treated with vehicle (0.5% carboxylmethylcellulose, CMC, p.o.) or RAD140 100 mg/kg. Treatment lasted 51 days before mice were euthanized and tumor specimen were snapfrozen.
|
| Growth protocol |
HBCx-22 PDX model were established by implanting tumor fragments subcutaneously in the flank female athymic nude mice (Foxn1nu).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from xenograft samples and cells was extracted using the RNeasy Mini Kit (Qiagen), with a DNase incubation step included to ensure complete removal of genomic DNA.
Purified RNA samples were converted into cDNA libraries using the TrueSeq Stranded mRNA sample preparation kit (Illumina, San Diego, CA). Libraries were quantified, normalized, and pooled before being subjected to HiSeq 2×50bp paired end sequencing on an Illumina sequencing platform.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
veh tumor #3
9_L7.D707
|
| Data processing |
De-multiplexed FASTQ files were aligned to HG19 human genome using the STAR aligner version 2.4 and genetic features were quantified using RSEM version 1.2.14.
Genome_build: HG19
|
| |
|
| Submission date |
Sep 25, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
ZiYang Yu |
| E-mail(s) |
zyu@radiuspharm.com
|
| Phone |
617-551-4065
|
| Organization name |
Radius Health
|
| Street address |
950 Winter Street
|
| City |
Waltham |
| State/province |
MA |
| ZIP/Postal code |
02451 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE104177 |
Global modulation of signaling pathways by SARM RAD140 in AR/ER+ breast cancer xenografts |
|
| Relations |
| BioSample |
SAMN07692592 |
| SRA |
SRX3209941 |
