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Sample GSM5393161 Query DataSets for GSM5393161
Status Public on Jun 12, 2024
Title Naive Day 3 Rep 2
Sample type SRA
Source name Spleen
Organism Mus musculus
Characteristics tissue: Spleen
strain: C57BL/6
gender: female
infection: Naïve
day: 3
Treatment protocol Serially Blood Passaged: mice were i.p. injected ,with 10e5 infected red blood cell; moquito transmitted: mice were infected with 20 infected mosquitoes
Extracted molecule total RNA
Extraction protocol Spleen RNA was extracted using the RiboPure™ RNA extraction kit (Invitrogen, ThermoFisher) according to the manufacturer’s instructions. The quantity and quality of the RNA samples was verified using NanoDrop 1000 Spectrophotometer (Thermo Fisher Scientific) and Bioanalyser
RNA was used for cDNA library preparation using the KAPA RNA Hyperprep with Riboerase kit
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
Description naive.d3.r2
Data processing Fastq files QC using Multi QC (Babraham Institute)
Transcript were aligned and counted to the Mus musculus reference genome GRCm38 v86 using STAR v2.5.2 and RSEM v1.3.0
Libraries normalised for size through DESeq2 v1.26 in R v3.6.3
Genome_build: GRCm38 v 86
Submission date Jun 20, 2021
Last update date Jun 12, 2024
Contact name Jean Langhorne
Organization name Francis Crick Institute
Street address 1 Midland Road
City London
ZIP/Postal code N1 1ST
Country United Kingdom
Platform ID GPL17021
Series (1)
GSE178515 Transcriptomic responses in the host during mosquito-transmitted and blood passaged Plasmodium chabaudi infections.
BioSample SAMN19789373
SRA SRX11185296

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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