|
| Status |
Public on May 25, 2017 |
| Title |
Th2-1st_MeninKO_RNA |
| Sample type |
SRA |
| |
|
| Source name |
Five-day cultured Th2 cells generated from primary splenic CD4_T cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Th2 cells
strain: C57BL/6
genotype/variation: Menin KO
|
| Growth protocol |
Splenic CD4_T cells were stimulated under Th2 culture conditions (15 ng/ml IL-2, 10 ng/ml IL-4) for 5 days in vitro.
|
| 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 |
May 24, 2017 |
| Last update date |
May 15, 2019 |
| 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 (2) |
| GSE99260 |
Menin controls the memory Th2 cell function by maintaining the epigenetic integrity of Th2 cells. [RNA-Seq] |
| GSE99261 |
Menin controls the memory Th2 cell function by maintaining the epigenetic integrity of Th2 cells. |
|
| Relations |
| BioSample |
SAMN07163037 |
| SRA |
SRX2850801 |
