|
| Status |
Public on Dec 07, 2020 |
| Title |
13etoh1 |
| Sample type |
SRA |
| |
|
| Source name |
murine ESC
|
| Organism |
Mus musculus |
| Characteristics |
genotype/variation: -5 floxed, exogenous mNanogV5
treatment: Vehicle
|
| Treatment protocol |
6 days of ethanol (vehicle) or tamoxifen (4OHT)
|
| Growth protocol |
200K cells were plated in 6 well plates
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted using Trizol, processed through the Qiagen RNAeasy Mini Plus Kit
RNA-seq libraries were made using the NEBNext Ultra RNA Library Prep Kit for Illumina
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
5del_DESeq.gct
|
| Data processing |
Reads were aligned using STAR to mm9
Aligned reads were analyzed using DESeq
Genome_build: mm9
|
| |
|
| Submission date |
Jan 20, 2020 |
| Last update date |
Dec 07, 2020 |
| Contact name |
Sridhar Rao |
| E-mail(s) |
sridhar.rao@bcw.edu
|
| Phone |
4149373841
|
| Organization name |
BloodCenter of Wisconsin
|
| Department |
Blood Research Institute
|
| Street address |
8727 Watertown Plank Road
|
| City |
Milwaukee |
| State/province |
WI |
| ZIP/Postal code |
53226 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE143959 |
Defining a critical Nanog enhancer using chromatin-focused approaches identifies RNAPII recruitment as required for expression [-5delRNASeq] |
| GSE143993 |
Genome editing demonstrates that the -5 kb Nanog enhancer regulates Nanog expression by modulating RNAPII initiation and/or recruitment |
|
| Relations |
| BioSample |
SAMN13892707 |
| SRA |
SRX7584350 |
