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Comparison of Invariant NKT Cells with Conventional T Cells by Using Gene Set Enrichment Analysis (GSEA).

Oh SJ, Ahn JY, Chung DH - Immune Netw (2011)

Bottom Line: However, gene expression pattern in two types of cells has not been well characterized. we performed comparative microarray analyses of gene expression in murine iNKT cells and conventional CD4(+)CD25(-)γδTCR(-) T cells by using Gene Set Enrichment Analysis (GSEA) method.Here, we describe profound differences in gene expression pattern between iNKT cells and conventional CD4(+)CD25(-)γδTCR(-) T cells.Our results provide new insights into the functional competence of iNKT cells and a better understanding of their various roles during immune responses.

View Article: PubMed Central - PubMed

Affiliation: Department of Pathology, Laboratory of Immune Regulation in Department of Biomedical Sciences, Seoul National University College of Medicine, Seoul 110-799, Korea.

ABSTRACT

Background: Invariant Natural killer T (iNKT) cells, a distinct subset of CD1d-restricted T cells with invariant Vαβ TCR, functionally bridge innate and adaptive immunity. While iNKT cells share features with conventional T cells in some functional aspects, they simultaneously produce large amount of Th1 and Th2 cytokines upon T-cell receptor (TCR) ligation. However, gene expression pattern in two types of cells has not been well characterized.

Methods: we performed comparative microarray analyses of gene expression in murine iNKT cells and conventional CD4(+)CD25(-)γδTCR(-) T cells by using Gene Set Enrichment Analysis (GSEA) method.

Results: Here, we describe profound differences in gene expression pattern between iNKT cells and conventional CD4(+)CD25(-)γδTCR(-) T cells.

Conclusion: Our results provide new insights into the functional competence of iNKT cells and a better understanding of their various roles during immune responses.

No MeSH data available.


Differentially expressed genes in iNKT cells compared with conventional T cells identified by GSEA. (A) Biological process category and (B) molecular function category were subdivided into various pathways. The numbers of up- or down-regulated genes were analyzed.
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Figure 3: Differentially expressed genes in iNKT cells compared with conventional T cells identified by GSEA. (A) Biological process category and (B) molecular function category were subdivided into various pathways. The numbers of up- or down-regulated genes were analyzed.

Mentions: The GSEA method using 2 datasets provided differential expression of numerous genes in each biological process pathway and molecular function pathway in two target T cell groups (Fig. 3A and B). In general biological pathway, nucleoside, nucleotide, nucleic acid metabolism, signal transduction, protein metabolism and modification, developmental process, immunity, defense, intracellular protein traffic, and intracellular protein traffic-related gene expression were significantly different between iNKT cells and conventional T cells. In molecular function-related genes, nucleic acid binding, transcription factor, select regulatory molecule, transferase, receptor, and hydrolase and kinase were differentially expressed (Fig. 3B).


Comparison of Invariant NKT Cells with Conventional T Cells by Using Gene Set Enrichment Analysis (GSEA).

Oh SJ, Ahn JY, Chung DH - Immune Netw (2011)

Differentially expressed genes in iNKT cells compared with conventional T cells identified by GSEA. (A) Biological process category and (B) molecular function category were subdivided into various pathways. The numbers of up- or down-regulated genes were analyzed.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3275711&req=5

Figure 3: Differentially expressed genes in iNKT cells compared with conventional T cells identified by GSEA. (A) Biological process category and (B) molecular function category were subdivided into various pathways. The numbers of up- or down-regulated genes were analyzed.
Mentions: The GSEA method using 2 datasets provided differential expression of numerous genes in each biological process pathway and molecular function pathway in two target T cell groups (Fig. 3A and B). In general biological pathway, nucleoside, nucleotide, nucleic acid metabolism, signal transduction, protein metabolism and modification, developmental process, immunity, defense, intracellular protein traffic, and intracellular protein traffic-related gene expression were significantly different between iNKT cells and conventional T cells. In molecular function-related genes, nucleic acid binding, transcription factor, select regulatory molecule, transferase, receptor, and hydrolase and kinase were differentially expressed (Fig. 3B).

Bottom Line: However, gene expression pattern in two types of cells has not been well characterized. we performed comparative microarray analyses of gene expression in murine iNKT cells and conventional CD4(+)CD25(-)γδTCR(-) T cells by using Gene Set Enrichment Analysis (GSEA) method.Here, we describe profound differences in gene expression pattern between iNKT cells and conventional CD4(+)CD25(-)γδTCR(-) T cells.Our results provide new insights into the functional competence of iNKT cells and a better understanding of their various roles during immune responses.

View Article: PubMed Central - PubMed

Affiliation: Department of Pathology, Laboratory of Immune Regulation in Department of Biomedical Sciences, Seoul National University College of Medicine, Seoul 110-799, Korea.

ABSTRACT

Background: Invariant Natural killer T (iNKT) cells, a distinct subset of CD1d-restricted T cells with invariant Vαβ TCR, functionally bridge innate and adaptive immunity. While iNKT cells share features with conventional T cells in some functional aspects, they simultaneously produce large amount of Th1 and Th2 cytokines upon T-cell receptor (TCR) ligation. However, gene expression pattern in two types of cells has not been well characterized.

Methods: we performed comparative microarray analyses of gene expression in murine iNKT cells and conventional CD4(+)CD25(-)γδTCR(-) T cells by using Gene Set Enrichment Analysis (GSEA) method.

Results: Here, we describe profound differences in gene expression pattern between iNKT cells and conventional CD4(+)CD25(-)γδTCR(-) T cells.

Conclusion: Our results provide new insights into the functional competence of iNKT cells and a better understanding of their various roles during immune responses.

No MeSH data available.