|
| Status |
Public on Mar 08, 2017 |
| Title |
LET_7I_81 rep1 |
| Sample type |
SRA |
| |
|
| Source name |
embryonic stem cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: embryonic stem cells
genotype: Dgcr8-/- plus let-7
|
| Treatment protocol |
Cells were transfected using Dhamafect 1 transfection reagent (Dharmacon, GE Health) following manaufacturer's instructions
|
| Growth protocol |
ESCs were grown in DMEM, 15% FBS, LIF, and 2i (PD0325901 and CHIR99021)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Fluidigm protocol (version PN 100-7168 G1)
Nextera XT DNA Sample Preparation kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1000 |
| |
|
| Data processing |
Reads were aligned and assigned to Gencode Mouse released M4 transcripts and genes by using RSEM version 1.2.19 with standard parameters (Li & Dewey, 2011).
Genome_build: GenCode Mouse released M4
Supplementary_files_format_and_content: tab-delimited text files include raw counts and RPKM values for each Sample
|
| |
|
| Submission date |
Apr 12, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Annamaria Carissimo |
| E-mail(s) |
[email protected]
|
| Organization name |
Tigem
|
| Street address |
via Castellino
|
| City |
Napoli |
| ZIP/Postal code |
80131 |
| Country |
Italy |
| |
|
| Platform ID |
GPL15103 |
| Series (1) |
| GSE80168 |
Single cell sequencing of Dgcr8 knockout embryonic stem cells plus/minus miR-294 or let-7 |
|
| Relations |
| BioSample |
SAMN04633686 |
| SRA |
SRX1693467 |
