|
| Status |
Public on Dec 09, 2014 |
| Title |
RNA-Seq 129 copy enhancer_KO |
| Sample type |
SRA |
| |
|
| Source name |
mouse embryonic stem cell
|
| Organism |
Mus musculus |
| Characteristics |
strain: The distal Sox2 enhancer on the 129 allele was deleted.
cell type: mouse embryonic stem cell
|
| Growth protocol |
The F123 cells were cultured as described previously (Selvaraj et al. Whole-genome haplotype reconstruction using proximity-ligation and shotgun sequencing. Nature Biotechnology 2013)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Libraries were prepared according to Illumina's instruction or cited literatures.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
RNA-seq data were mapped using Novoalign.
Genome_build: mm9
Supplementary_files_format_and_content: Mapped reads for RNA-seq and ChIP-seq are provided as bed files. ChIP-seq and RNA-seq data were only used to generate browser tracks and we did not perform any further analysis.
|
| |
|
| Submission date |
Aug 26, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Fulai Jin |
| E-mail(s) |
fxj45@case.edu
|
| Phone |
2163681811
|
| Organization name |
Case Western Reserve University
|
| Lab |
Fulai Jin
|
| Street address |
10900 Euclid Avenue
|
| City |
Cleveland |
| State/province |
OH - OHIO |
| ZIP/Postal code |
44106 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE60763 |
CRISPR reveals a distal murine-specific enhancer required for Sox2 expression in mouse embryonic stem cells |
|
| Relations |
| BioSample |
SAMN03008908 |
| SRA |
SRX686944 |
| Named Annotation |
GSM1487551_rnaseq.129_KO.mono.bed.gz |
