计算生物学
基因
编码(社会科学)
抄写(语言学)
编码区
基因组
生物
信使核糖核酸
计算机科学
遗传学
统计
数学
语言学
哲学
作者
Yu-Jian Kang,Jingyi Jessica Li,Lan Ke,Shuai Jiang,Dechang Yang,Mei Hou,Ge Gao
标识
DOI:10.1101/2021.10.30.466534
摘要
Gene transcription and protein translation are two key steps of the "central dogma". It is still a major challenge to quantitatively deconvolute factors contributing to the coding ability of transcripts in mammals. Here, we propose Ribosome Calculator (RiboCalc) for quantitatively modeling the coding ability of RNAs in human genome. In addition to effectively predicting the experimentally confirmed coding abundance via sequence and transcription features with high accuracy, RiboCalc provides interpretable parameters with biological information. Large-scale analysis further revealed a number of transcripts with a variety of coding ability for distinct types of cells (i.e., context-dependent coding transcripts, CDCTs), suggesting that, contrary to conventional wisdom, a transcript's coding ability should be modeled as a continuous spectrum with a context-dependent nature.
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