|
| Status |
Public on Sep 17, 2020 |
| Title |
mmu_siSnrnp70_2 |
| Sample type |
SRA |
| |
|
| Source name |
Neurons
|
| Organism |
Mus musculus |
| Characteristics |
cell type: ES cell derived neurons
strain: E14Tg2A.4
genotype: Snrnp70 KD2
|
| Treatment protocol |
NFLAG-delGly, shRNA for Luciferase or shRNA for Snrnp70 were expressed in ES cell derived neurons by lentivirus system and cells were treated with DOX to induce expression of the exogenous protein or shRNA along with Geneticin to select the cells infected with virus.
|
| Growth protocol |
Mouse embryonic stem cells (ES, E14Tg2A.4) were maintained in ES medium on gelatinized plates without feeder cells. Neuronal differentiation was performed as described previously (Wichterle et al., 2009). Cells were maintained into ADFNB+GDNF.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from neurons using Trizol reagent (Thermo).
Total RNA prepared as above was submitted to Novogene Co., Inc to prepare library using Eukaryotic directional mRNAseq kit (Illumina).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Snrnp70 KD2
|
| Data processing |
Obtained reads were mapped to the mouse genome (mm10) using HISAT2 version 2.1.0. with following parameters; --phred33 --rna-strandness RF -t --no-unal -p 4.
For gene count, HTseq-count (version 0.11.2) was used.
The gene count results of all samples obtained as above were combined into single file.
Genome_build: mm10
Supplementary_files_format_and_content: A text file contains read counts for genes for eight samples.
|
| |
|
| Submission date |
Aug 30, 2019 |
| Last update date |
Sep 17, 2020 |
| Contact name |
Tadashi Nakaya |
| E-mail(s) |
tadashi.nakaya@iuhw.ac.jp
|
| Organization name |
International University of Health and Welfare
|
| Department |
School of Pharmacy at Fukuoka
|
| Street address |
137-1 Enokizu
|
| City |
Okawa |
| State/province |
Fukuoka |
| ZIP/Postal code |
8318501 |
| Country |
Japan |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE136663 |
Dissection of FUS domains involved in regulation of SnRNP70 gene expression |
|
| Relations |
| BioSample |
SAMN12661179 |
| SRA |
SRX6779196 |
