|
Status |
Public on Jun 30, 2022 |
Title |
48 passaged HFSCs rep1 |
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 |
SAMN27763064 |
SRA |
SRX14989836 |