|
Status |
Public on Sep 07, 2022 |
Title |
A20 with non-targeting control sgRNA replicate 2 |
Sample type |
SRA |
|
|
Source name |
A20 B cell lymphoma cell line
|
Organism |
Mus musculus |
Characteristics |
strain: BALB/C activation: Control
|
Treatment protocol |
Cells transduced with lentiviral vector overexpressing the TETact system together with either the non-targeting control sgRNA or CD4-promoter targeting sgRNA.
|
Growth protocol |
RPMI 1640 with 2 mM GlutaMAX, 50 μM β-mercaptoethanol and 10% heat-inactivated foetal calf serum (FCS).
|
Extracted molecule |
polyA RNA |
Extraction protocol |
NucleoSpin RNA Plus (Macherey-Nagel) with gDNA removal column Illumina TruSeq RNA (100ng plus) v1.0 protocol
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
NextSeq 2000 |
|
|
Data processing |
Reads were aligned to the GRCm38/mm10 build of the Mus musculus genome using Rsubread::align. Genewise counts were obtained using featureCounts with Rsubread's inbuilt mm10 annotation. Assembly: GRCm38/mm10 Supplementary files format and content: Tab-delimited text giving Entrez Gene IDs, gene length (number of bases in union of all exons) and the number of read-pairs assigned to that read.
|
|
|
Submission date |
May 17, 2022 |
Last update date |
Sep 07, 2022 |
Contact name |
Gordon K Smyth |
E-mail(s) |
smyth@wehi.edu.au
|
Phone |
(+61 3) 9345 2326
|
Fax |
(+61 3) 9347 0852
|
URL |
http://www.wehi.edu.au
|
Organization name |
Walter and Eliza Hall Institute of Medical Research
|
Department |
Bioinformatics
|
Lab |
Smyth
|
Street address |
1G Royal Pde
|
City |
Parkville |
State/province |
Vic |
ZIP/Postal code |
3052 |
Country |
Australia |
|
|
Platform ID |
GPL30172 |
Series (2) |
GSE203162 |
RNA-seq of A20 mouse cells using a novel TETact activation of CD4 |
GSE212345 |
RNA-seq and methyl-seq of A20 mouse cells using a novel TETact activation of CD4 |
|
Relations |
BioSample |
SAMN28487625 |
SRA |
SRX15302452 |