|
| Status |
Public on Nov 16, 2022 |
| Title |
Con_2 |
| Sample type |
SRA |
| |
|
| Source name |
cell type
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: cell type
cell type: human skin fibroblast
genotype: Control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Total RNA Extractor (Trizol) .
RNA libraries for RNA-seq were prepared using Hieff NGSTM MaxUp Dual-mode mRNA Library Prep Kit for Illumina® following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
MGISEQ-2000RS |
| |
|
| Data processing |
salmon v1.6.0
Sequence reads were trimmed for adaptor sequence/low-quality sequence using fastp v 0.23.2
Trimmed sequence reads were mapped to GRCh38.104 using salmon v1.6.0 (parameters: -w 12 -q 30 -z 4 -5 -3 -M 20 -W 4 -u 40 -P 20 -h)
Read count extraction and normalization were performed using DESeq2 v1.34
Assembly: GRCh38.104
Supplementary files format and content: Matrix text files include normalized count for each Sample
|
| |
|
| Submission date |
Aug 17, 2022 |
| Last update date |
Nov 16, 2022 |
| Contact name |
Min Hu |
| E-mail(s) |
hm2021cns@gmail.com
|
| Organization name |
Tongji University School of Medicine
|
| Street address |
1800 Yuntai Road, Shanghai 200123, China
|
| City |
Shanghai |
| State/province |
Select a State or Province |
| ZIP/Postal code |
200123 |
| Country |
China |
| |
|
| Platform ID |
GPL30209 |
| Series (1) |
| GSE211497 |
Transcriptome analysis between wild-type and DM1-affected fibroblast. |
|
| Relations |
| BioSample |
SAMN30378023 |
| SRA |
SRX17124352 |
