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Table 4 Definitions of hidden states in ADTEx zygosity detection HMM

From: Inferring copy number and genotype in tumour exome data

State Copy Copy number alteration status Genotype BAF Zygosity
1 0/1 Deletion A,B 0,1 LOH
2 2 Copy neutral with LOH AA,BB 0,1 LOH
3 2 Normal AB 0.5 HET
4 3 Three copies with LOH AAA,BBB 0,1 LOH
5 3 Three copies with duplication of one allele AAB, ABB 0.33,0.67 ASCNA
6 4 Four copies with LOH AAAA,BBBB 0,1 LOH
7 4 Four copies with duplication of both alleles AABB 0.5 HET
8 4 Four copies with duplication of one allele AAAB,ABBB 0.25,0.75 ASCNA
9 5 Five copies with LOH AAAAA,BBBBB 0,1 LOH
10 5 Five copies with duplication of one allele AAAAB,ABBBB 0.2,0.8 ASCNA
11 5 Five copies with duplication of both alleles AAABB,AABBB 0.4,0.6 ASCNA
12 6 Six copies with LOH AAAAAA,BBBBBB 0,1 LOH
13 6 Six copies with duplication in one allele AAAAAB,ABBBBB 0.17,0.83 ASCNA
14 6 Six copies with duplication in both alleles AAABBB 0.5 HET
15 6 Six copies with duplication in both alleles AAAABB,AABBBB 0.33,0.67 ASCNA