|
| Status |
Public on Oct 01, 2023 |
| Title |
SKNO_IC90r_p300_3 |
| Sample type |
SRA |
| |
|
| Source name |
Transformed hematopoiesis
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Transformed hematopoiesis
cell line: SKNO1
cell type: AML cell line
genotype: SKNO1_BETiIC90r_1d_p300i
treatment: BETiIC90 resistant cells with 24h p300i treatment
|
| Growth protocol |
Cells were grown in standard media with addition 10-20% FCS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the RNeasy Plus Mini Kit (Qiagen) as per manufacturer’s protocol
RNA-seq libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
ic90r_p300i_3
|
| Data processing |
Chip Seq pipeline: Adapter sequences were trimmed for all reads and mapped against hg19 reference genome using Bowtie2. Uniquely mapped, deduplicated reads were retained and peaks were called using MACS2.
RNA Seq pipeline: Rads were trimmed for adaptor sequence. Paired end reads were aligned to hg19 genome using STAR. Count files were generated count files HTSeq.
Assembly: hg19
Supplementary files format and content: Txt files with HTSeq count columns for RNA Seq, bedGraph files for ChIPSeq
|
| |
|
| Submission date |
Nov 15, 2022 |
| Last update date |
Oct 01, 2023 |
| Contact name |
Daniel Sasca |
| E-mail(s) |
danielsasca@gmail.com
|
| Organization name |
University Medical Center Mainz
|
| Department |
Department of Hematology and Oncology
|
| Street address |
Langenbeckstr 1
|
| City |
Mainz |
| ZIP/Postal code |
55131 |
| Country |
Germany |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE167163 |
Acute resistance to BET inhibitors remodels compensatory transcriptional programmes via p300 co-activation |
|
| Relations |
| BioSample |
SAMN31746292 |
| SRA |
SRX18280070 |
