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Sample GSM3395240 Query DataSets for GSM3395240
Status Public on Sep 20, 2018
Title N17_Nb_ST2lo_rep2
Sample type SRA
Source name CD4+CD25-CD44hiST2- lung cells
Organism Mus musculus
Characteristics tissue: lung
cell type: T cell
strain: BALB/c
Growth protocol T cells were sorted from lungs of BALB/c mice 40 days after infection of 500 organisms of Nippostrongylus brasiliensis (L3) by flow cytometry
Extracted molecule total RNA
Extraction protocol Total cellular RNA was extracted with TRIzol reagent (Invitrogen).
TruSeq Stranded mRNA Library Preparation Kit (Illumina) was used according to the manufacturer's protocol.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 1500
Data processing Read sequences (50 bp) were aligned to the mm10 mouse reference genome (University of California, Santa Cruz (UCSC) December 2011) using Bowtie (version 0.12.8) and TopHat (version 1.3.2).
Fragments per kilobase of exon per million mapped reads (FPKM) for each gene were calculated using Cufflinks (version 2.0.2).
Genome_build: mm10
Supplementary_files_format_and_content: Text files include FPKM values for each Sample
Submission date Sep 19, 2018
Last update date Sep 24, 2018
Contact name Atsushi Onodera
Organization name Chiba University
Department Immunology
Street address Chuo-ku Inohana 1-8-1
City Chiba
ZIP/Postal code 260-8670
Country Japan
Platform ID GPL18480
Series (1)
GSE120173 Characterization of ST2+ and ST2- mTh cells in helminth infection
BioSample SAMN10091187
SRA SRX4715144

Supplementary file Size Download File type/resource
GSM3395240_N17_Nb_ST2lo_rep2.txt.gz 133.3 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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