|
| Status |
Public on May 22, 2024 |
| Title |
005N |
| Sample type |
SRA |
| |
|
| Source name |
Renal papillary cell carcinoma
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: Normal
tissue: Tumor tissue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent. 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
RNA-Seq paired-end clean data obtained were then analyzed using Hisat2, Samtools-1.9, Stringtie 1.3.5 and DESeq2.
Human reference genome (Homo_sapiens.GRCh38.84.gtf.gz) was obtained from Ensembl (ftp://ftp.ensembl.org/pub/release-84/gtf/homo_sapiens/Homo_sapiens.GRCh38.84.gtf.gz).
The genes annotated by GENCODE version 22 were used.
Genome_build: Homo_sapiens.GRCh38.84.gtf
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Jul 25, 2021 |
| Last update date |
May 22, 2024 |
| Contact name |
jinhuan wei |
| E-mail(s) |
weijh23@mail.sysu.edu.cn
|
| Organization name |
SYSU
|
| Street address |
No.58 zhongshan 2rd Road
|
| City |
Guangzhou |
| ZIP/Postal code |
510080 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
|
| Relations |
| BioSample |
SAMN20378267 |
| SRA |
SRX11547935 |
