|
| Status |
Public on Jul 25, 2024 |
| Title |
2_WT_SAG |
| Sample type |
SRA |
| |
|
| Source name |
primary MEF
|
| Organism |
Mus musculus |
| Characteristics |
cell type: primary MEF
genotype: WT
treatment: 100 nM SAG for 24 h
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was extracted with using RNeasy mini kit (QIAGEN) with DNase I treatment (QIAGEN).
stranded library preparation with polyA selection
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1000 |
| |
|
| Data processing |
Cutadapt v1.9.1 was used to trim and filter reads, and clean data were aligned to the reference genome (ENSEMBLE, GRCm38.97) using the software HISAT 2 (v2.0.1).
Assembly: ENSEMBL, GRCm38.97
Supplementary files format and content: Relative gene expression was quantified and normalized in a FPKM format
|
| |
|
| Submission date |
May 17, 2024 |
| Last update date |
Jul 25, 2024 |
| Contact name |
SAISHU YOSHIDA |
| E-mail(s) |
saishu@hotmail.co.jp
|
| Phone |
0474721158
|
| Organization name |
Toho University
|
| Department |
Department of Biomolecular Science,
|
| Street address |
2-2-1 Miyama, Funabashi-shi
|
| City |
Chiba |
| ZIP/Postal code |
274-8510 |
| Country |
Japan |
| |
|
| Platform ID |
GPL15103 |
| Series (1) |
| GSE267749 |
Positive regulation of Hedgehog signaling via phosphorylation of GLI2/GLI3 by DYRK2 kinase |
|
| Relations |
| BioSample |
SAMN41443071 |
| SRA |
SRX24598600 |
