Unique Immune Gene Expression Patterns in Bronchoalveolar Lavage and Tumor Adjacent Non-Neoplastic Lung Tissue in Non-Small Cell Lung Cancer

Frontiers in Immunology
Chih-Hsi Scott KuoCheng-Ta Yang

Abstract

The immune cells in the local environments surrounding non-small cell lung cancer (NSCLC) implicate the balance of pro- and antitumor immunity; however, their transcriptomic profiles remain poorly understood. A transcriptomic microarray study of bronchoalveolar lavage (BAL) cells harvested from tumor-bearing lung segments was performed in a discovery group. The findings were validated (1) in published microarray datasets, (2) in an independent group by RT-qPCR, and (3) in non-diseased and tumor adjacent non-neoplastic lung tissue by immunohistochemistry and in BAL cell lysates by immunoblotting. The differential expression of 129 genes was identified in the discovery group. These genes revealed functional enrichment in Fc gamma receptor-dependent phagocytosis and circulating immunoglobulin complex among others. Microarray datasets analysis (n = 607) showed that gene expression of BAL cells of tumor-bearing lung segment was also the unique transcriptomic profile of tumor adjacent non-neoplastic lung of early stage NSCLC and a significantly gradient increase of immunoglobulin genes' expression for non-diseased lungs, tumor adjacent non-neoplastic lungs, and tumors was identified (ANOVA, p < 2 × 10-16). A 53-gene signature was det...Continue Reading

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Datasets Mentioned

BETA
GSE8823
GSE27262
GSE10245
GSE32474

Methods Mentioned

BETA
bronchoalveolar lavage
PCR
electrophoresis
PCA

Software Mentioned

Bioconductor R package Surrogate Variable Analysis ( sva )
GSVA
BLAST
Cytoscape Enrichment Map
Primer
R package pamr
Bioconductor R package limma
Bioconductor R package affy
Gene Set Variation Analysis ( GSVA )

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