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Sample GSM1889959 Query DataSets for GSM1889959
Status Public on Oct 30, 2015
Title ILC2s IL-33 + IL-27 #3
Sample type SRA
 
Source name Group 2 innate lymphoid cells
Organism Mus musculus
Characteristics cell type: fat-asociated lymphoid cells
strain: C57BL/6
genotype: wild-type
Treatment protocol ILC2s were cultured with IL-33 (10ng/ml), IL-33 + IFN-g (10ng/ml), or IL-33 + IL-27 (10ng/ml) for 48hrs.
Growth protocol ILC2s were isolated from fat-asociated lymphoid clusters (FALC) of wild-type mice.
Extracted molecule total RNA
Extraction protocol RNA was isolated by Allprep DNA/RNA Micro Kit (QIAGEN)
cDNA libraries were prepared by TruSeq RNA Sample Preparation kits v2 (Illumina) according to the manufacturer’s low sample protocol
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 1500
 
Data processing Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to the reference genome (mm9) using Bowtie2 v2.1.0 and TopHat2 v2.0.8.
The transcript abundances were estimated as FPKM (fragments per kilobase of exon million fragments mapped) value using Cufflinks v2.1.1.
Genome_build: mm9
Supplementary_files_format_and_content: Text files include FPKM values for each Sample.
 
Submission date Sep 21, 2015
Last update date May 15, 2019
Contact name Hiroki Kabata
E-mail(s) kabata.h@hotmail.co.jp
Organization name RIKEN-IMS
Lab Innate Immune system
Street address Suehirocho 1-7-22
City Yokohama, Tsurumi-ku
State/province Kanagawa
ZIP/Postal code 230-0045
Country Japan
 
Platform ID GPL18480
Series (1)
GSE73272 RNA-Seq analysis of mouse group 2 innate lymphoid cells (ILC2s) cultured with IL-33, IFN-g, and IL-27
Relations
BioSample SAMN04100010
SRA SRX1269142

Supplementary file Size Download File type/resource
GSM1889959_S04935_ILC2s_IL-33_+_IL-27__3.txt.gz 93.5 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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