Modeling Global and local Codon Bias with Deep Language Models


Codon bias, the usage patterns of synonymous codons for encoding a protein sequence as nucleotides, is a biological phenomenon that is not fully understood. Several methods exist to represent the codon bias of an organism: codon adaptation index (CAI) [1], individual codon usage (ICU), hidden stop codons (HSC) [2] and codon context (CC) [3]. These methods… (More)
DOI: 10.1109/BIBE.2017.00-63


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