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Sample GSM6063998 Query DataSets for GSM6063998
Status Public on Jun 30, 2022
Title 48 passaged HFSCs rep2
Sample type SRA
 
Source name follicle stem cell
Organism Mus musculus
Characteristics cell type: follicle stem cell
strain: C3H/HeN
passages: 48
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from cultured cells using TRIzol reagent.
RNA libraries were prepared using TruSeq stranded mRNA Library Prep Kit (Illumina).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Sequencing was performed on NovaSeq 6000 platform in a 101-base single-end mode.
Illumina RTA v3.4.4 software was used for base calling.
Generated reads were mapped to the mouse (mm10) reference genome using TopHat v2.1.1 in combination with Bowtie2 ver. 2.2.8 and SAMtools ver. 0.1.18.
Fragments per kilobase of exon per million mapped fragments (FPKMs) were calculated using Cuffdiff 2.2.1 with parameter -max-bundle-frags 50000000.
Assembly: mm10
Supplementary files format and content: tab-delimited text files include FPKM values for each sample
 
Submission date Apr 25, 2022
Last update date Jun 06, 2024
Contact name Daisuke Motooka
E-mail(s) dry_team@ngs.gen-info.osaka-u.ac.jp
Organization name NGS core facility, Research Institute for Microbial Diseases, Osaka University
Street address 3-1, Yamadaoka
City Suita
State/province Osaka
ZIP/Postal code 5650871
Country Japan
 
Platform ID GPL24247
Series (1)
GSE201445 Next generation sequence analysis of cells derived from mouse hair follicles after long term culture
Relations
BioSample SAMN27763063
SRA SRX14989837

Supplementary file Size Download File type/resource
GSM6063998_48p-EpSC-2_FPKM.txt.gz 127.3 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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