|
| Status |
Public on Dec 04, 2024 |
| Title |
THP-1 cells, acetylated, 45 min, 2 |
| Sample type |
SRA |
| |
|
| Source name |
THP-1
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: THP-1
cell type: monocytic leukemia
genotype: WT
treatment: catalyst and acetyl donor
time: 45 min
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was harvested using NucleoSpin RNA and reverse transcribed using SuperScript III First-Strand Synthesis System for RT-PCR (Invitrogen).
Libraries for RNA-seq were prepared using the TruSeq Stranded mRNA Sample Prep Kit (Illumina).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Basecalls were performed using bcl2fastq.
Sequenced reads from RNA-seq experiments were aligned by using HISAT2 v2.1.0.
FPKM was calculated using cufflinks v2.2.1
Assembly: hg19
Supplementary files format and content: fpkm_tracking
|
| |
|
| Submission date |
Feb 28, 2024 |
| Last update date |
Dec 04, 2024 |
| Contact name |
Masaki Fukuyo |
| E-mail(s) |
fukuyo@chiba-u.jp
|
| Organization name |
Chiba University
|
| Department |
Department of Molecular Oncology
|
| Street address |
1-8-1 Inohana, Chuo-ku
|
| City |
Chiba |
| ZIP/Postal code |
260-8670 |
| Country |
Japan |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE259436 |
Cancer epigenome intervention by in-cell chemical catalysis for histone modification (RNA-seq) |
| GSE259438 |
Cancer epigenome intervention by in-cell chemical catalysis for histone modification |
|
| Relations |
| BioSample |
SAMN40184322 |
| SRA |
SRX23776444 |
