|
| Status |
Public on Oct 30, 2015 |
| Title |
ILC2s IL-33 + IFNg #1 |
| 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 |
SAMN04100005 |
| SRA |
SRX1269137 |
