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Sample GSM6160906 Query DataSets for GSM6160906
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
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
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
BioSample SAMN28487625
SRA SRX15302452

Supplementary file Size Download File type/resource
GSM6160906_GenewiseCounts_CNTRL21.tsv.gz 180.1 Kb (ftp)(http) TSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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