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| Status |
Public on Mar 06, 2024 |
| Title |
22Rv1 DMSO treated replica 1 |
| Sample type |
SRA |
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| Source name |
22Rv1
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| Organism |
Homo sapiens |
| Characteristics |
cell line: 22Rv1
cell type: prostate cancer cell line
treatment: DMSO
time: 12 hrs
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| Treatment protocol |
24hrs post-seeding 22Rv1 cells were treated with Indisulam (3.3µM, 12hrs), or Pladienolide B (10nM, 6hrs) or THZ531 (200Nm, 6hrs) or DMSO, as control.
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| Growth protocol |
22Rv1 cells were grown in RPMI medium (Euroclone), supplemented with 10% fetal bovine serum, Sodium Pyruvate, HEPES, penicillin and streptomycin (GIBCO, Life Technologies) and glucose (Thermo Fisher)
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| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was extracted and DNAse treated using the RNEasy mini kit (Qiagen) according to manufacturer’s instruction
Universal Plus mRNA-Seq kit (Tecan Genomics, Redwood City, CA) has been used for library preparation following the manufacturer’s instructions (library type: fr-secondstrand).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Sequencing, data quality, reads repartition (e.g., for potential ribosomal contamination), and insert size estimation were performed using FastQC, Picard-Tools, Samtools and rseqc
Reads were mapped using STAR_2.7.5a
Assembly: hg19
Supplementary files format and content: Gene expression values normalized by DESeq2 unsing FAST DB v2018_1 annotations
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| Submission date |
Jun 12, 2023 |
| Last update date |
Mar 06, 2024 |
| Contact name |
Pierre de la Grange |
| E-mail(s) |
pierre.delagrange@genosplice.com
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| Organization name |
GenoSplice technology
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| Department |
Paris Biotech Santé
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| Street address |
29, rue du Faubourg Saint-Jacques
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| City |
Paris |
| ZIP/Postal code |
75014 |
| Country |
France |
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| Platform ID |
GPL24676 |
| Series (1) |
| GSE234734 |
Splicing targeting approaches highlight actionable vulnerabilities in advanced prostate cancer [22Rv1] |
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| Relations |
| BioSample |
SAMN35716445 |
| SRA |
SRX20662157 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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