Codon usage bias analysis of genes linked with esophagus cancer

Hemashree Bordoloi; S R Nirmala

doi:10.6026/97320630017731

Codon usage bias analysis of genes linked with esophagus cancer

Bioinformation. 2021 Aug 31;17(8):731-740. doi: 10.6026/97320630017731. eCollection 2021.

Authors

Hemashree Bordoloi^{1

2}, S R Nirmala³

Affiliations

¹ Deptartment of Electronics and Communication Engineering, Gauhati University, Assam, Indi.
² Department of Electronics and Communication Engineering, Assam Don Bosco University, Assam, India.
³ School of Electronics and Communication Engineering, KLE Technological University, Karnataka, India.

Abstract

Esophageal cancer involves multiple genetic alternations. A systematic codon usage bias analysis was completed to investigate the bias among the esophageal cancer responsive genes. GC-rich genes were low (average effective number of codon value was 49.28). CAG and GTA are over-represented and under-represented codons, respectively. Correspondence analysis, neutrality plot, and parity rule 2 plot analysis confirmed the dominance over mutation pressure in modulating the codon usage pattern of genes linked with esophageal cancer.

Keywords: Natural selection; RSCU; compositional constraints; mutation pressure.