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Sample GSM5418708 Query DataSets for GSM5418708
Status Public on Jul 20, 2023
Title HCA2 cells, senescent-1
Sample type SRA
 
Source name HCA2 (MJ90)
Organism Homo sapiens
Characteristics cell line: HCA2 (MJ90)
cell type: skin fibroblast
cell condition: RO3306+Nutlin3a treatment
phenotype: senescent
Treatment protocol RO3306 (9 uM) + Nulin3a (5 uM)
Growth protocol Cells were cultured in DMEM (Invitrogen) supplemented with 10% fetal bovine serum (FBS).
Extracted molecule total RNA
Extraction protocol Rneasy mini kit (Qiagen) according to the manufacturer’s instructions.
Ion Total RNA-Seq kit v2 (Thermo Fisher Scientific) according to the manufacturer’s instructions.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Ion Torrent Proton
 
Description S4
Data processing The libraries were sequenced on a Ion Proton System platform
The sequencing reads were aligned to the hg19/GRCh37 reference human genome using Bowtie2 (v2.0.0) and STAR (v2.3.0).
Data normalization and differential expression analysis were performed using a edgeR package in the R language (v3.2.2).
Genome_build: hg19
Supplementary_files_format_and_content: Transcriptome among young and senescent fibroblasts.xlsx
 
Submission date Jul 05, 2021
Last update date Jul 20, 2023
Contact name Satotaka Omori
E-mail(s) satotaka.omori.r@gmail.com
Phone 0354495449
Organization name the university of Tokyo
Street address shirokanedai, 4-6-1
City Minato ku
State/province tokyo
ZIP/Postal code 108-0071
Country Japan
 
Platform ID GPL17303
Series (1)
GSE179465 Transcriptome analysis among young and senescent fibroblasts
Relations
BioSample SAMN20062898
SRA SRX11354417

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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