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Series GSE74596 Query DataSets for GSE74596
Status Public on Apr 18, 2016
Title Innate-like functions of natural killer T cell subsets result from highly divergent gene programs [single_cell_RNA-seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Natural killer T (NKT) cells have immune stimulatory or inhibitory effects on the immune response that are context-dependent. This may be attributed in part to the existence of functional NKT cell subsets; however, these functional subsets have only been characterized on the basis of differential expression of a few transcription factors and cell surface molecules. Here we have analyzed purified populations of thymic NKT cell subsets at both the transcriptomic and epigenomic levels, and by single-cell RNA sequencing. Our data indicate that despite their similar antigen specificity, the functional NKT cell subsets are highly divergent populations characterized by many gene expression and epigenetic differences. Therefore the thymus imprints innate-like NKT cells with novel combinations of properties, including differences in proliferative capacity, homing, and effector functions that were not previously anticipated.
 
Overall design Analysis of single cell transcriptomic heterogeneity in mouse Vα14 iNKT thymocyte subsets (NKT1, NKT2, NKT17 and NKT0). Samples were generated from individual experiment using a pool of thymocytes prepared from five five-week old C57BL/6J females. NKT cells subtypes were isolated from thymuses and directly sorted by flow cytometry into lysis buffer (96 well plate single cell sort). The preparation of samples occurred in 2 different batches (both having a equal representation of the different cell populations).
 
Contributor(s) Engel I, Seumois G, Chavez L, Chawla A, White B, Mock D, Vijayanand P, Kronenberg M
Citation(s) 27089380
Submission date Nov 03, 2015
Last update date Mar 21, 2019
Contact name Pandurangan Vijayanand
E-mail vijay@lji.org
Organization name La Jolla Institute for Allergy and Immunology
Street address 9420 Athena Circle
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
 
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (203)
GSM1923445 Single_cell_RNA-seq_NKT0_1
GSM1923446 Single_cell_RNA-seq_NKT0_2
GSM1923447 Single_cell_RNA-seq_NKT0_3
This SubSeries is part of SuperSeries:
GSE74597 Innate-like functions of natural killer T cell subsets result from highly divergent gene programs
Relations
BioProject PRJNA300942
SRA SRP065661

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Supplementary file Size Download File type/resource
GSE74596_RAW.tar 14.4 Mb (http)(custom) TAR (of TXT)
Raw data are available in SRA
Processed data provided as supplementary file

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