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Sample GSM7225696 Query DataSets for GSM7225696
Status Public on Apr 30, 2023
Title mLN_control_1
Sample type SRA
Source name mesenteric lymph node
Organism Mus musculus
Characteristics tissue: mesenteric lymph node
cell type: transferred CD45.1+CD8+ OTI T cells
genotype: WT
Sex: Female
treatment: Lm-OVA infection in recipient mice
Extracted molecule total RNA
Extraction protocol RNA was harvested using Rneasy micro plus kit (Qiagen).
Nextera Smarter following manufacture's protocol
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 4000
Description Standard_TMDI_raw_counts.txt
Data processing Read were mapped to the UCSC mm10 mouse genome with STAR v.2.7.4.
The biological QC was performed with picard tools
Table of counts was prepared with HTseq v0.9.1.
After normalization, the differential expression analysis was performed with the package edgeR (v1.34.1) in R.
PCA were obtained using Deseq2
Assembly: UCSC mm10 mouse genome
Supplementary files format and content: txt file containing raw counts of each sample (naïve, mLN, LILP)
Supplementary files format and content: excel file containing raw counts of each sample (highOVA, lowOVA)
Submission date Apr 25, 2023
Last update date Apr 30, 2023
Contact name Liqing Cheng
Organization name University of Geneva
Street address 1 rue Michel-Servet 1
City Geneva
ZIP/Postal code 1211
Country Switzerland
Platform ID GPL21103
Series (1)
GSE230515 Local antigen is required for CD8+ tissue resident memory T cell (Trm) generation in large intestine
BioSample SAMN34361377
SRA SRX20094571

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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