|
| Status |
Public on Oct 17, 2019 |
| Title |
Lib_06_CD5_low |
| Sample type |
SRA |
| |
|
| Source name |
Sorted CD5lo TN cell subset
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Sorted CD5lo TN cell subset
strain: C57BL/6
gender: male
tissue: spleen
|
| Growth protocol |
Spleens from C57BL/6 male mice were collected at 12 weeks of age and mechanically smashed by plunger of a 2ml syringe with a 40 μm cell strainer. Splenocytes were enriched for CD8+ T cells with the MojoSort mouse CD8+ naïve T cell isolation kit and stained for FACS sorting. FACS-sorted cells were lysed with 50 mL RLT buffer, with the addition of 1 mL RNAse inhibitor
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction was performed with RNeasy Micro Kit, according to manufacturer instructions
Libraries were prepared using SMART-Seq v4 Ultra Low Input RNA Kit, according to manufacturer instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Lib_06_S5_R1_001
|
| Data processing |
Basecalls performed using RTA v2 version 2.4.11
RNA-seq reads were aligned to the GRCm38 genome assembly using STAR version 2.5.1b
Differential Gene Expression analysis was performed using EdgeR 3.20.9 R version 3.4.4
Genome_build: GRCm38
|
| |
|
| Submission date |
Jan 15, 2019 |
| Last update date |
Oct 17, 2019 |
| Contact name |
Emilia Maria Cristina Mazza |
| E-mail(s) |
Emilia.Mazza@humanitasresearch.it
|
| Organization name |
Humanitas Clinical and Research Center
|
| Street address |
Via Alessandro Manzoni, 56
|
| City |
Rozzano, Milan |
| ZIP/Postal code |
20089 |
| Country |
Italy |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE125099 |
Effector differentiation potential determined at the level of human CD8+ naïve T cell subsets [RNA-Seq] |
| GSE125102 |
Effector differentiation potential determined at the level of human CD8+ naïve T cell subsets |
|
| Relations |
| BioSample |
SAMN10748229 |
| SRA |
SRX5250810 |
