|
| Status |
Public on Jun 07, 2023 |
| Title |
LNCap-EnzaR-ARD69_2 |
| Sample type |
SRA |
| |
|
| Source name |
LNCaP-EnzaR
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: LNCaP-EnzaR
cell type: prostate cancer
source: Derived from LNCAP
genotype: WT
treatment: ARD69
|
| Treatment protocol |
ARD-69 or DT-061 treatments were done at a concentration of 100 nM and 10 uM for12 hours respectivily.
|
| Growth protocol |
MDVR cell lines were grown in the medium supplemented with Enzalutamide.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using miRNeasy mini plus kit (Qiagen). 1 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using RNA library preparation kit Illumina following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Illumina bcl2fastq for demultiplexing to generate fastq files
fastq files were aligned to hg19 reference genome using STAR aligner (2.7.3a) with default parameters
samtools (v1.9) was used to convert SAM to BAM and filter out duplicates and reads q<30
bamCoverage was used to convert Bam to bigwig using “--normalizeUsing CPMâ€
Assembly: mm10, hg19
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample
|
| |
|
| Submission date |
Jun 02, 2022 |
| Last update date |
Jun 07, 2023 |
| Contact name |
Irfan Asangani |
| E-mail(s) |
asangani@upenn.edu
|
| Phone |
215-746-8780
|
| Organization name |
University of Pennsylvania
|
| Department |
Cancer Biology
|
| Lab |
Asangani Lab
|
| Street address |
421 Curie Blvd
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE205419 |
Loss of LCMT1 and biased protein phosphatase 2A heterotrimerization drive prostate cancer progression and therapy resistance |
|
| Relations |
| BioSample |
SAMN28853338 |
| SRA |
SRX15581516 |
