|
| Status |
Public on Aug 13, 2020 |
| Title |
37_1 |
| Sample type |
SRA |
| |
|
| Source name |
Mouse splenic CD4+ T cells
|
| Organism |
Mus musculus |
| Characteristics |
treatment: Activated at 37 C
|
| Treatment protocol |
The plates were incubated in either an incubator set at 37ºC or in an incubator set at 39ºC for 3 hours.
|
| Growth protocol |
Ex-vivo spleen cells were suspended in complete RPMI1640 medium (Biological Industries, Beit Haemek, Israel) supplemented with 10% FBS, 2 mM L-glutamine, 1.35 g/l sodium bicarbonate, 5 mM HEPES, 50 μM β-mercaptoethanol, 100 μg/ml streptomycin and 100 IU penicillin (Millipore Sigma, Merck KGaA, Germany) in 6 well plates coated with anti-CD3 and anti-CD28.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA isolation protocol using TRIzol reagent as recommended.
TruSeq RNA Sample Prep Kit v2 (Ilumina, San Diego) according to the kit protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
FastQC
Mapping with HISAT2
HTseq-count
DEseq2
Genome_build: Ensembl GRCm38.97
Supplementary_files_format_and_content: tabular format, read counts per gene.
|
| |
|
| Submission date |
Jun 18, 2020 |
| Last update date |
Aug 14, 2020 |
| Contact name |
G Aneeshkumar Arimbasseri |
| E-mail(s) |
aneesh@nii.ac.in
|
| Phone |
+91 9971986746
|
| Organization name |
National Institute of Immunology
|
| Department |
Molecular Genetics Laboratory
|
| Lab |
Molecular Genetics Laboratory
|
| Street address |
Aruna Asaf Ali Marg
|
| City |
New Delhi |
| State/province |
Delhi |
| ZIP/Postal code |
110067 |
| Country |
India |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE152757 |
Febrile temperature change modulates CD4 T cell differentiation via a TRPV channel-regulated Notch-dependent pathway |
|
| Relations |
| BioSample |
SAMN15314501 |
| SRA |
SRX8573961 |
