Identification of Genomic Alterations in Head and Neck Squamous Cell Carcinoma and Esophageal Squamous Cell Carcinoma

Li-Yen Shiu ； Chia-Hsiang Lai ； Chia-Hsin Yang ； Ailun Heather Tseng ； Hsin-Chung Lee ； Li-Jen Su

《International Journal of Head and Neck Science》 1卷1期 (2017/03) Pp. 47-84

https://doi.org/10.6696/IJHNS.2017.0101.07

摘要

Both head and neck squamous cell carcinoma (HNSCC) and esophageal squamous cell carcinoma (ESCC) is also histologically the most prevalent type of esophageal cancer and ranked as the leading cause of cancer death worldwide. However, molecular biology of them may help provide insight into our understanding and management, but it remains difficult at present to apply these results. In this study, there were 144 samples collected from the NCBIs Gene Expression Omnibus datasets and applied to differential expressed gene (DEG) analysis by using our novel method, named Heterogeneity-corrected Transcriptome Analysis (HTA). The bioinformatic results for top 500 DEGs of HNSCC and ESCC showed that there were 65 and 47% overlaps in biological process of gene ontology terms and KEGG signal pathways. We have identified a top 20 of significant perturbagens for ESCC and HNSCC using the Library or Integrated Network-based Cellular Signatures database. There were 9 candidate drugs including purvalanol-a, wortmannin, TPCA-1, serdemetan, selumetinib, PP-110, AS-605240, camptothecin and aminopurvalanol-a were same. For pathological application, we have predicted 5 diagnostic markers (KLHL41, MYH2, MYL1, MYOT and ABS5) for HNSCC and 5 (CAPN14, S100A7A, NASP, A2ML1 and HOXA10-HOXA9) for ESCC, specifically. These findings suggested that an enhanced understanding of the basic biological mechanisms of HNSCC and ESCC will likely facilitate development of improved methods for early detection, identification of individuals at high risk, and possibly also better methods of clinical treatment.

關鍵字

ESCC ； HNSCC ； microarray and biomarker