|
| Status |
Public on Jul 10, 2024 |
| Title |
iRGCs, Ctrl_c |
| Sample type |
SRA |
| |
|
| Source name |
RGC-like neurons (iRGCs)
|
| Organism |
Mus musculus |
| Characteristics |
cell type: RGC-like neurons (iRGCs)
genotype: control
|
| Treatment protocol |
MEFs were infected with Ascl1+Brn3b+Islet1 overexpressing lentiviruses, doxycycline was added on day 0 to induce exogenous gene expression, cells were switched to neuronal medium (DMEM/F12+GlutaMAX+N2+B27) on day 2 of reprogramming; medium was half-changed every other day.
|
| Growth protocol |
MEFs were cultured in DMEM+10% FBS, at 37℃ in incubator.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNAs were extracted using TRIzol reagent
NEBNext UltraTM RNA library Prep Kit for Illumina following manufacturer's protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Basecalls performed using CASAVA
clean reads were aligned to the mouse reference genome (mm10) using Hisat2
featureCounts was used to count the reads numbers mapped to each genes
Assembly: mm10
Supplementary files format and content: read counts for each genes were given in the Excel file
|
| |
|
| Submission date |
Feb 01, 2024 |
| Last update date |
Jul 10, 2024 |
| Contact name |
SHUYI CHEN |
| E-mail(s) |
chenshy23@mail.sysu.edu.cn
|
| Organization name |
Zhongshan Ophthalmic Center, SYSU
|
| Department |
State Key Laboratory of Ophthalmology
|
| Street address |
54 S. Xianlie Rd
|
| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510060 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE254839 |
Shtn1, a retinal ganglion cell (RGC) specific gene, regulates RGC neurite development: Insights from an RGC direct somatic cell reprogramming model |
|
| Relations |
| BioSample |
SAMN39726628 |
| SRA |
SRX23496914 |
