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Hereditas(Beijing) ›› 2019, Vol. 41 ›› Issue (7): 625-633.doi: 10.16288/j.yczz.19-099

• Research Article • Previous Articles     Next Articles

Analysis of normal tissues adjacent to the tumour-specific expressed genes in breast cancer

Qichao Yu1,2,Bin Song1,2,Xuanxuan Zou1,2,3,Ling Wang4,Dequan Liu5,Bo Li1,2,Kun Ma1,2()   

  1. 1. BGI-Shenzhen, Shenzhen 518083, China
    2. China National GeneBank, BGI-Shenzhen, Shenzhen 518120, China
    3. BGI Education Center, University of Chinese Academy of Sciences, Shenzhen 518083, China
    4. Department of Vascular and Endocrine Surgery, Xijing Hospital of Fourth Military Medical University, Xi'an 710033, China
    5. Department of Mammary Surgery, Yunnan Tumor Hospital, The Third Affiliated Hospital of Kunming Medical University, Kunming 650118, China
  • Received:2019-04-09 Revised:2019-05-15 Online:2019-07-20 Published:2019-05-23
  • Contact: Ma Kun E-mail:makun1@genomics.cn
  • Supported by:
    Supported by Science, Technology and Innovation Commission of Shenzhen Municipality(JCYJ20150629114130814);Shenzhen Municipal Government of China(20170731162715261)

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Abstract:

Normal tissues adjacent to the tumour (NAT) are widely used as controls in comparative studies to search for cancer-associated genes. However, the gene expression profiles between NAT and non-tumour-bearing tissues are different. The presence of NAT-specific expressed genes often hinders traditional transcriptional profiles studies. Further, studies on the differences in gene expression profiles between NAT and tumour-free tissues are infrequently performed. In this study, we sequenced and analysed the transcriptomes of tumour tissues (T), matched NAT and contralateral breast normal tissues (CBN) of 14 breast cancer patients, and identified 102 differentially expressed genes (DEGs) between CBN and NAT. Gene enrichment and protein-protein interaction (PPI) analyses revealed that these DEGs are significantly enriched in TNF (tumour necrosis factor) signalling and EMT (epithelial-mesenchymal transition) gene sets closely associated with oncogenesis. Comparative analyses of the transcriptomic profiles between NAT and CBN, NAT and T identified 23 NAT-specific highly-expressed genes, namely tumour-adjacent speci?cally activated (TASA) genes. These genes were significantly enriched in TNF signalling gene set, and 15 of which have not been previously reported. The results indicate that TASA genes are common in adjacent tissues and are related to the TNF signalling in the immune system. The tumour-adjacent tissues harbour tumour-like expressed genes that could contribute to tumour initiation but are often missed in NAT-T pair-wise studies.

Key words: breast cancer, TASA gene, RNA-sequencing, gene expression profile