Fig. 1: Software GRIT and framework for converting UAG to UAA for human recoding.
From: Multiplex base editing to convert TAG into TAA codons in the human genome
a Framework for converting TAG codons into TAA in human cells. Chromosome and gene objects structure in GRIT. Using GRIT for informatics centers around chromosome and gene objects. Each box contains some (but not all) of the attributes for each. Each chromosome contains a list of gene objects, and each gene object contains its corresponding chromosome’s object. n = 2 in our current experiment. CBE, cytosine base editor23,32. b UAG number and editable UAG sites of all genes and essential genes in each chromosome. The editable sites mean the TAGs can be converted to TAAs by cytosine base editors with editing window from position 1-13(base positions are numbered relative to the PAM-distal end of the guide RNA). c Kernel density curves for the densities of TAG codons in the GRCh38.p13 build of the human genome obtained using GRIT. The density curves for the chromosomes are normalized to have uniform height and width. Chromosome lengths and total TAG counts are given on the left-hand side.
