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Sample GSM6404285 Query DataSets for GSM6404285
Status Public on Aug 03, 2022
Title sgScd2/sgIrf7 (n=4)
Sample type SRA
 
Source name Spleen
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: Spleen
cell type: Naive CD4 T Cells
genotype: SCD2/IRF7 DKO
treatment: Naïve CD4 T cells were stimulated under Th1 culture conditions (10 ng/ml IL-12) for 5 days in vitro.
Treatment protocol Pharmacolgical drug was not treated in this assay
Growth protocol See "description".
Extracted molecule total RNA
Extraction protocol Total cellular RNA was extracted with TRIzol reagent (Invitrogen).
QuantSeq 3' mRNA-Seq Library Prep Kit FWD (LEXOGEN) was used for library constraction according to the manufacturer's protocol.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model NextSeq 2000
 
Description Day5_Th1_sgScd2_sgIrf7_No2_S102
Data processing For RNA-sequence, read sequences (75 bp) were aligned to the mm10 mouse reference genome (University of California, Santa Cruz (UCSC) December 2011) using STAR (version 2.7.9a).
Fragments per kilobase of transcripts for each gene were calculated using Subread (version 2.0.1, 13 ).
Assembly: mm10 mouse reference genome (University of California, Santa Cruz (UCSC) December 2011)
Supplementary files format and content: Text files include TPM values for each Sample
 
Submission date Jul 27, 2022
Last update date Aug 03, 2022
Contact name Toshio Kanno
E-mail(s) [email protected]
Organization name KAZUSA DNA Research Institute
Street address 2-6-7 Kazusa-kamatari
City Kisarazu
State/province Chiba
ZIP/Postal code 292-0818
Country Japan
 
Platform ID GPL30172
Series (1)
GSE200636 Effect of deletion of Irf3, Irf7 or Irf9 on gene expression in sgScd2 Th1 cells.
Relations
BioSample SAMN30027717
SRA SRX16718154

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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