|
Status |
Public on Jul 11, 2022 |
Title |
OE2 |
Sample type |
SRA |
|
|
Source name |
mouse embryonic fibroblasts
|
Organism |
Mus musculus |
Characteristics |
cell type: embryonic fibroblasts condition: mouse embryonic fibroblasts induced to overexpress Bcl11b strain: C57BL/6
|
Treatment protocol |
MEF are infected with Bcl11b shRNA targetting particles or overexpressing plasmids and RNA were collected after 3 days
|
Growth protocol |
MEF were generated from E13.5 reprogrammable mice embryos and cultivated in DMEM medium supplemented with 10% foetal bovine serum (FBS), 100U/ml penicillin / streptomycin (PS), 1mM sodium pyruvate, 2mM L-glutamine, 0.1mM Non Essential Amino Acids (NEAA) and 0.1mM b-mercaptoethanol.
|
Extracted molecule |
total RNA |
Extraction protocol |
RNAs were extracted with Nucleospin RNA kit from Macherey Nagel. RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 4000 |
|
|
Data processing |
Sequenced reads were mapped to mm8 (release M19) whole genome and reads per gene were counted using STAR (ver. 2.5b). Read counts were analyzed with R DeSeq2 package. Supplementary files format and content: raw counts, normalized counts, csv file including FC, p-value and adjusted p-value
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|
|
Submission date |
Jul 08, 2022 |
Last update date |
Jul 11, 2022 |
Contact name |
Fabrice Lavial |
Organization name |
CRCL
|
Street address |
28 rue Laennec
|
City |
Lyon |
ZIP/Postal code |
69008 |
Country |
France |
|
|
Platform ID |
GPL21103 |
Series (2) |
GSE137050 |
The comparative roadmaps of reprogramming and transformation unveiled that cellular plasticity is broadly controlled by Bcl11b and Atoh8 |
GSE207732 |
Identification of genes regulated by Bcl11b |
|
Relations |
BioSample |
SAMN29598066 |
SRA |
SRX16085350 |