|
| Status |
Public on Oct 20, 2017 |
| Title |
siSFPQ_sample3 |
| Sample type |
SRA |
| |
|
| Source name |
mouse stem cell
|
| Organism |
Mus musculus |
| Characteristics |
cell type: P19 cells
condition: SFPQ knockdown
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction was performed with miRNeasy columns (Qiagen), according to manufacturer's instructions
NEBNext® Ultra™ Directional RNA Library Prep Kit for Illumina® according to manufacturer's instruction
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Reads were trimmed with the program cutadapt and reads shorter than 15 nt were discarded
filtering versus mouse ribosomal RNA with bowtie2
Mapping of reads onto mouse genome mm10 was performed with STAR, than bowtie2
Genome_build: mm10
Supplementary_files_format_and_content: differential spliced events were identified with the software SpliceTrap and reported in the excel file provided as processed data file.
|
| |
|
| Submission date |
Oct 21, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Silvia Bottini |
| E-mail(s) |
[email protected]
|
| Organization name |
C3m
|
| Street address |
299, chemin de la ginestiere
|
| City |
Nice |
| ZIP/Postal code |
06200 |
| Country |
France |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE89032 |
Post-transcriptional Gene Silencing Mediated by microRNAs is Controlled by Nucleoplasmic Sfpq [RNA-Seq] |
| GSE89033 |
Post-transcriptional Gene Silencing Mediated by microRNAs is Controlled by Nucleoplasmic Sfpq |
|
| Relations |
| BioSample |
SAMN05933450 |
| SRA |
SRX2256197 |
