|
| Status |
Public on Sep 19, 2017 |
| Title |
RNA_Control_rep2 |
| Sample type |
SRA |
| |
|
| Source name |
mouse ES cell line E14Tg2A
|
| Organism |
Mus musculus |
| Characteristics |
cell type: mouse embryonic stem cell line
cell line: E14Tg2A
|
| Treatment protocol |
Cells were infected with lenti-viral based shNT (control) or shRif1(Rif1 KD), cells were harvested 4 days after infection.
|
| Growth protocol |
Embryonic stem cells were cultured at 37°C, 5% CO2, in DMEM (Sigma) with 10% foetal bovine serum and leukemia inhibitory factor (LIF).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were harvested and total RNA was extracted by Thermo RNA kit
The sequencing library was generated by Truseq RNA sample preparation kit according to the instruction
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Gene expression 4 days after transfection
|
| Data processing |
Aligned with TopHat2 version 2.0.4 with the following parameters: --b2-sensitive --no-coverage-search -g 10
FPKM measurements obtained using CuffLinks version 2.0.2
Genome_build: mm9
Supplementary_files_format_and_content: FPKM: 1st column = RefSeq ID, 2nd column = fragments per kilobase of exon per million mapped reads (FPKM value)
|
| |
|
| Submission date |
Apr 26, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Pishun Li |
| E-mail(s) |
[email protected]
|
| Phone |
9193164745
|
| Organization name |
National Institute of Environmental Health Sciences
|
| Department |
ESCBL
|
| Lab |
stem cell
|
| Street address |
111 T.W. Alexander Drive
|
| City |
Research Triangle Park |
| State/province |
NC |
| ZIP/Postal code |
27709 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE98255 |
Rif1 Promotes a Repressive Chromatin State to Safeguard Against Endogenous Retrovirus Activation [RNA-seq] |
| GSE98256 |
Rif1 Promotes a Repressive Chromatin State to Safeguard Against Endogenous Retrovirus Activation |
|
| Relations |
| BioSample |
SAMN06840409 |
| SRA |
SRX2766221 |
