|
| Status |
Public on Apr 24, 2022 |
| Title |
163-rep3 |
| Sample type |
SRA |
| |
|
| Source name |
Cardiomyocyte (AC16 cell line)
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: Knockdown of HSALNG0104472
cell line: AC16
cell type: Cardiomyocyte
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cell samples were lysed using Trizol reagent. DNBSEQ-T7RS reagent kit(FCL PE150 V2.0) was used with 2 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard DNBSEQ protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
DNBSEQ-T7 |
| |
|
| Data processing |
MGI Sub-pixel Registration used for basecalling
The quality of raw sequence datas were checked using FastQC(V0.11.9). Low quality sequences were removed with Trim Galore!(V0.6.5) and rRNA sequences were removed with SortMeRNA(V2.1).
STAR-aligner(V2.7.10) was used for aligning RNA-seq data to genomes.
Subread(V2.0.2) outputs numbers of reads assigned to features
Assembly: GRCh38
Supplementary files format and content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Apr 19, 2022 |
| Last update date |
Apr 24, 2022 |
| Contact name |
Yibo Lu |
| E-mail(s) |
wave8013@sjtu.edu.cn
|
| Phone |
18916600183
|
| Organization name |
Shanghai Jiao Tong University
|
| Department |
Shanghai Children's Medical Center
|
| Street address |
No.1678, Dongfang Road, Shanghai
|
| City |
Shanghai |
| ZIP/Postal code |
200025 |
| Country |
China |
| |
|
| Platform ID |
GPL29480 |
| Series (1) |
| GSE201076 |
Copy number variations may contribute to congenital heart defect risk greatly by disrupting long noncoding RNAs |
|
| Relations |
| BioSample |
SAMN27643026 |
| SRA |
SRX14920357 |
