|
| Status |
Public on Dec 17, 2019 |
| Title |
JIM609A47_S35_L007: mLN-2 |
| Sample type |
SRA |
| |
|
| Source name |
iNKT cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: iNKT
tissue: MLN
unit: WT2
batch: Second
|
| Treatment protocol |
NKT cells were sort-purified from lymphoid tissues from WT C57BL/6 mice (as CD1d-tetramer+TCR-b+B220-CD11b-CD11c-CD8-). Four biological replicates were performed.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was isolated using RNA Mini Kit (QIAGEN). RNAseq including cDNA library preparation was processed at the Advanced sequencing facility in the Francis Crick Institute (London, UK).
NuGEN Ovation Ultralow (v2) kit was used for library preparation
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
cutadapt v1.7.1 with a minlength of 25 and a quality of 10
quantify reads using rsem (v1.2.31) with bowtie2 (v2.2.9)
Genome_build: GRCm38
Supplementary_files_format_and_content: fastq are gzipped, rsem are tab delimited columns of expected counts
|
| |
|
| Submission date |
May 17, 2019 |
| Last update date |
Dec 17, 2019 |
| Contact name |
Patricia Barral |
| E-mail(s) |
patricia.barral@kcl.ac.uk
|
| Organization name |
King's College London
|
| Department |
Immunobiology
|
| Street address |
Guy's Campus
|
| City |
London |
| ZIP/Postal code |
SE19RT |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE131420 |
Analysis of transcriptomic profile of iNKT cells |
|
| Relations |
| BioSample |
SAMN11672280 |
| SRA |
SRX5858785 |
