|
| Status |
Public on Jul 30, 2020 |
| Title |
SPF45 siRNA treated cells #2 |
| Sample type |
SRA |
| |
|
| Source name |
HEK293 cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293
genotype/variation: SPF45 siRNA
|
| Treatment protocol |
Six independent total RNAs derived from HEK293 cells treated with three control siRNAs
|
| Growth protocol |
HEK293 cells were cultured in Dulbecco’s modified Eagle’s medium (DMEM; Wako) supplemented with 10% fetal bovine serum (FBS).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs were prepared with NucleoSpin RNA kit (Macherey-Nagel).
rRNA depletion was performed by RiboMinus Eukaryote System v2 (Invitrogen–Thermo Fisher Scientific). The preparation of RNA libraries were performed using NEBNext Ultra RNA Library Prep Kit for Illumina (New England Biolabs).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
RNA-seq reads were aligned to the hg19 genome assembly using Tophat2
bigwig files were generated using bam2wig then followed by wigToBigwig
Genome_build: hg19
Supplementary_files_format_and_content: bigwig
|
| |
|
| Submission date |
Jul 30, 2019 |
| Last update date |
Aug 01, 2020 |
| Contact name |
Rei Yoshimoto |
| Organization name |
Fujita Health University
|
| Department |
Institute for Comprehensive Medical Science
|
| Lab |
Division of Gene Expression Mechanism
|
| Street address |
1-98 Dengakugakubo, Kutsukake
|
| City |
Toyoake |
| State/province |
Aichi |
| ZIP/Postal code |
470-1192 |
| Country |
Japan |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE135128 |
Transcriptome analysis of SFP45 knockdown cells |
|
| Relations |
| BioSample |
SAMN12412415 |
| SRA |
SRX6616809 |
