|
Status |
Public on Nov 16, 2022 |
Title |
DM1_1 |
Sample type |
SRA |
|
|
Source name |
cell type
|
Organism |
Homo sapiens |
Characteristics |
cell line: cell type cell type: human skin fibroblast genotype: DM1
|
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
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|
|
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 |
SAMN30378021 |
SRA |
SRX17124354 |