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Sample GSM4085081 Query DataSets for GSM4085081
Status Public on Sep 19, 2022
Title CAL-62_DMSO rep2
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 SAMN12786812
SRA SRX6871371

Supplementary file Size Download File type/resource
GSM4085081_DMSO_rep2.txt.gz 103.3 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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