|
| Status |
Public on Feb 01, 2021 |
| Title |
045C |
| Sample type |
SRA |
| |
|
| Source name |
cancer kidney tissue
|
| Organism |
Homo sapiens |
| Characteristics |
cancer type: clear cell renal cell carcinoma (ccRCC)
fuhrman's grade: G4
Sex: Male
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For the preservation of RNA, tissue fragments were collected into tubes containing RNAlater (Sigma Aldrich) and stored at -80°C for further processing. Next, fragments of tissue were transferred into a sterile mortar and grinded in liquid nitrogen. RNA was extracted with Trizol.
TruSeq RNA Library Preparation Kit v2 (Illumina, San Diego)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiScanSQ |
| |
|
| Description |
library preparation kit: TruSeq RNA Library Preparation Kit v2 (Illumina, San Diego)
|
| Data processing |
RNA-Seq raw paired-end reads were trimmed with cutadapt
Trimmed reads were aligned to Ensembl GRCh38 human genome with STAR (v2.7)
Counts were obtained using featureCounts v1.6.3
Genome_build: GRCh38
Supplementary_files_format_and_content: Table with gene expression raw reads in txt format.
|
| |
|
| Submission date |
May 29, 2020 |
| Last update date |
Feb 01, 2021 |
| Contact name |
Arkadiusz Kajdasz |
| E-mail(s) |
akajdasz@ibch.poznan.pl
|
| Organization name |
Institute of Bioorganic Chemistry PAS
|
| Lab |
Laboratory of Bioinformatics
|
| Street address |
ul. Z. Noskowskiego 12/14
|
| City |
Poznań |
| State/province |
wielkopolskie |
| ZIP/Postal code |
61-704 |
| Country |
Poland |
| |
|
| Platform ID |
GPL15456 |
| Series (2) |
| GSE151419 |
Identification of RCC subtype-specific microRNAs – meta-analysis of high-throughput RCC tumor microRNA expression data [RNA-Seq] |
| GSE151428 |
Identification of RCC subtype-specific microRNAs – meta-analysis of high-throughput RCC tumor microRNA expression data |
|
| Relations |
| BioSample |
SAMN15053558 |
| SRA |
SRX8423380 |
