|
| Status |
Public on Feb 09, 2024 |
| Title |
91_ASCL1_r4_D5PRNBSA |
| Sample type |
SRA |
| |
|
| Source name |
C4-2B
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: C4-2B
cell type: Prostate cancer cells
chip antibody: ASCL1 (Abcam, #ab74065)
|
| Growth protocol |
C4-2B cells were maintained in Advanced DMEM/F12 medium supplemented with 1X serum-free B27, 10 ng/mL recombinant human basic FGF (bFGF), 10 ng/mL recombinant human EGF, 100 U/mL penicillin and 100 μg/mL streptomycin, and 4 mmol/L GlutaMAX in humidified atmosphere with 5% CO2 at 37C
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cut-and-Run_extract_protocol.rtf PMID 25827087
Libraries were prepared using the AutoCUT&RUN protocol (https://www.protocols.io/view/autocut-run-genome-wide-profiling-of-chromatin-pro-6qpvre6zblmk/v1)
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
NextSeq 2000 |
| |
|
| Data processing |
Peak calls for ASCL1, H3K4me1, H3K4me3 and H3K27ac from CUT&RUN data at different timepoints were performed using SEACR (v1.3)
Assembly: hg38
Supplementary files format and content: bed files
Library strategy: CUT&RUN
|
| |
|
| Submission date |
Feb 10, 2023 |
| Last update date |
Feb 09, 2024 |
| Contact name |
John K Lee |
| E-mail(s) |
[email protected]
|
| Phone |
206-667-6819
|
| Organization name |
Fred Hutch Cancer Research
|
| Department |
Human Biology Division
|
| Lab |
Lee lab
|
| Street address |
1100 Fairview Ave N, E2-112
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL30173 |
| Series (2) |
| GSE225006 |
Defined cellular reprogramming of androgen receptor-active prostate cancer to neuroendocrine prostate cancer [CUTnRUN] |
| GSE225026 |
Defined cellular reprogramming of androgen receptor-active prostate cancer to neuroendocrine prostate cancer |
|
| Relations |
| BioSample |
SAMN33241119 |
| SRA |
SRX19330387 |
