|
| Status |
Public on Dec 22, 2011 |
| Title |
mES ELL RNAi RNA-Seq |
| Sample type |
SRA |
| |
|
| Source name |
V6.5 mES
|
| Organism |
Mus musculus |
| Characteristics |
cell type: C57BL/6 (female) x 129/S (male)
passage: passage 10-18
|
| Treatment protocol |
RNAi in mouse ESCs (V6.5) was performed for 3 days by infecting cells with concentrated lentiviral particles with polybrene at a concentration of 4 mg/ml. ESCs were grown one passage off of feeder cells before harvesting.
|
| Growth protocol |
Mouse ES cells (V6.5) wre cultured under mouse ES complete medium on irradiated mouse embryonic fibroblasts (MEFs).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Libraries were prepared with the Illumina DNA Sample Kit (Part# 0801-0303) according to Illumina's instructions and sequenced on the Genome Analyzer IIx following the manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
non-genomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Description |
RNAseq after ELL-RNAi in mES cells
|
| Data processing |
RNA-seq analysis was done using TopHat v1.2.0 (Trapnell et al., 2009) and Bowtie v0.12.7. Only uniquely mapping reads were used.
|
| |
|
| Submission date |
Dec 21, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Alexander (Garrett) Garruss |
| E-mail(s) |
[email protected]
|
| Organization name |
Stowers Institute for Medical Research
|
| Lab |
Shilatifard
|
| Street address |
1000 East 50th Street
|
| City |
Kansas CIty |
| State/province |
Missouri |
| ZIP/Postal code |
64110 |
| Country |
USA |
| |
|
| Platform ID |
GPL11002 |
| Series (1) |
| GSE32120 |
The little elongation complex (LEC) regulates small nuclear RNA transcription |
|
| Relations |
| SRA |
SRX113080 |
| BioSample |
SAMN00768238 |
