Abstract：
Inflammatory bowel disease (IBD) is an inflammatory disorder of the gastrointestinal tract. The present study attempted to understand the codon usage preferences in genes associated with IBD progression. Compositional analysis, codon usage bias (CUB), Relative synonymous codon usage (RSCU), RNA structure, and expression analysis were performed to obtain a comprehensive picture of codon usage in IBD genes. Compositional analysis of 62 IBD-associated genes revealed that G and T are the most and least abundant nucleotides, respectively. ApG, CpA, and TpG dinucleotides were overrepresented or randomly used, while ApC, CpG, GpT, and TpA dinucleotides were either underrepresented or randomly used in genes related to IBD. The codons influencing the codon usage the most in IBD genes were CGC and AGG. A comparison of codon usage between IBD, and pancreatitis (non-IBD inflammatory disease) indicated that only codon CTG codon usage was significantly different between IBD and pancreatitis. At the same time, there were codons ATA, ACA, CGT, CAA, GTA, CCT, ATT, GCT, CGG, TTG, and CAG for whom codon usage was significantly different for IBD and housekeeping gene sets. The results suggest similar codon usage in at least two inflammatory disorders, IBD and pancreatitis. The analysis helps understand the codon biology, factors affecting gene expression of IBD-associated genes, and the evolution of these genes. The study helps reveal the molecular patterns associated with IBD.
摘要：
炎症性肠病（IBD）是胃肠道的炎症性疾病。本研究试图了解与IBD进展相关的基因中的密码子使用偏好。成分分析,密码子使用偏倚（CUB），相对同义密码子使用(RSCU),RNA结构，并进行表达分析以获得IBD基因中密码子使用的全面情况。对62个IBD相关基因的组成分析表明，G和T是最丰富和最不丰富的核苷酸，分别。ApG,CpA,TpG二核苷酸被过度代表或随机使用，而ApC,CpG,GpT,和TpA二核苷酸在IBD相关基因中要么代表性不足，要么随机使用。IBD基因中影响密码子使用最多的密码子是CGC和AGG。IBD之间密码子使用的比较，和胰腺炎（非IBD炎症性疾病）表明，只有密码子CTG密码子的使用在IBD和胰腺炎之间有显著差异。同时,有密码子ATA，ACA,CGT,CAA,GTA,CCT,ATT,GCT,CGG,TTG,和CAG，对于IBD和管家基因集，密码子使用显着不同。结果表明，至少两种炎症性疾病的密码子使用相似，IBD和胰腺炎。分析有助于理解密码子生物学，影响IBD相关基因表达的因素，以及这些基因的进化。该研究有助于揭示与IBD相关的分子模式。
