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Sample GSM7855044 Query DataSets for GSM7855044
Status Public on Oct 02, 2024
Title HaCaT cells, Control 2
Sample type SRA
 
Source name HaCaT
Organism Homo sapiens
Characteristics cell line: HaCaT
cell type: human keratinocytes
genotype: WT
treatment: sham irradiated
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using TRIzol reagent according to the manufacturer's protocol.
Ribosomal RNA was depleted from total RNA using RNase R.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description TPM
Data processing Used the standard base calling software provided by Illumina HiSeq2500 to generate raw sequence reads in FASTQ format.
Circular RNAs were identified and quantified using find_circ and CIRCexplorer2.
Data filtering (Removed low quality reads, Removed reads with >10% N bases, Removed reads with adapter contamination, Removed reads <18 nt).
Used find_circ (version 1.2) to identify candidate circRNAs, Used CIRCexplorer2 (version 2.3.3) to further identify circRNAs.
Assembly: The human reference genome build/assembly used for read alignment was hg38/GRCh38.
Supplementary files format and content: Tab-delimited text files include expected counts and TPMs.
 
Submission date Oct 23, 2023
Last update date Oct 02, 2024
Contact name yi peng
E-mail(s) yipengswmu@gmail.com
Phone 18180092445
Organization name 西南医科大学
Street address xianglinlu
City luzhou
ZIP/Postal code 646000
Country China
 
Platform ID GPL16791
Series (1)
GSE246068 Circular RNA expression profiling in UVA-treated HaCaT cells
Relations
BioSample SAMN37932657
SRA SRX22184581

Supplementary file Size Download File type/resource
GSM7855044_C2.tpm.txt.gz 34.6 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA

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