|
| Status |
Public on May 19, 2023 |
| Title |
CFAE+6-2_RNA |
| Sample type |
SRA |
| |
|
| Source name |
MEFs in CFAE+6 medium for Day4
|
| Organism |
Mus musculus |
| Characteristics |
tissue: embryo
cell type: embryonic fibroblast
genotype: WT
treatment: CFAE+6 medium for 4 days
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from cells was extracted using an EasyPure RNA Kit (Transgene, ER101-01) according to the manufacturer’s instructions.
RNA libraries for RNA-seq were prepared using NEBNext@ Ultra™ RNA Library Prep Kit for Illumina@ (#E7530) following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Bulk RNA-seq data were processed to obtain a gene count matrix of all samples using the featureCounts tool of the subread software. The count matrix was used for differential analysis with DESeq2 (Love et al., 2014).
Assembly: mm10
Supplementary files format and content: tab-delimited text files include RPKM and count values for each Sample
|
| |
|
| Submission date |
Mar 17, 2023 |
| Last update date |
May 19, 2023 |
| Contact name |
Jun Li |
| E-mail(s) |
junny@pku.org.cn
|
| Organization name |
Peking University
|
| Street address |
北京市海淀区颐和园路5号北京大学王克桢楼207
|
| City |
海淀区 |
| State/province |
北京市 |
| ZIP/Postal code |
100871 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE227569 |
Transcriptome-based chemical screens identify CDK8 as a common barrier in multiple cell reprogramming systems [RNA-seq] |
| GSE227570 |
Transcriptome-based chemical screens identify CDK8 as a common barrier in multiple cell reprogramming systems |
|
| Relations |
| BioSample |
SAMN33794580 |
| SRA |
SRX19697593 |
