|
| Status |
Public on Sep 19, 2022 |
| Title |
CAL-62_DMSO rep1 |
| Sample type |
SRA |
| |
|
| Source name |
CAL-62_DMSO
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: CAL-62
cell type: representative anaplastic thyroid carcinoma cell line
treatment: DMSO for 6h
|
| Treatment protocol |
CAL-62 cells were treated in duplicate with either DMSO or THZ531 for 6 h.
|
| Growth protocol |
CAL-62 cells were cultured in Dulbecco's Modified Eagle Medium supplemented with 10% fetal bovine serum (FBS).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was collected using TRIzol reagent following the manufacturer’s protocol.
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Raw data (raw reads) of fastq format were firstly processed through in-house perl scripts.
Clean reads were mapped to reference using Bowtie2. Only unique mapped reads were used in further analysis.
Differentially expressed genes were identified using DESeq2 algorithms.
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample.
|
| |
|
| Submission date |
Sep 19, 2019 |
| Last update date |
Sep 19, 2022 |
| Contact name |
Meijuan Geng |
| E-mail(s) |
gengmeijuan@tmu.edu.cn
|
| Organization name |
Tianjin Medical Universuty
|
| Street address |
No.22 Qixiangtai Road
|
| City |
Tianjin |
| ZIP/Postal code |
300070 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE137697 |
Targeting CDK12-mediated transcription regulation in anaplastic thyroid carcinoma [RNA-seq] |
| GSE137698 |
Targeting CDK12-mediated transcription regulation in anaplastic thyroid carcinoma |
|
| Relations |
| BioSample |
SAMN12786814 |
| SRA |
SRX6871370 |
