LightCpG: a multi-view CpG sites detection on single-cell whole genome sequence data

BMC Genomics

Table 1 The distribution of CpG sites with known methylation status in different cells on the HCCs dataset

Chr	N	N ₁	P₁(%)	N ₂	P₂(%)	N ₃	P₃(%)
1	245976	145401	59.11	39278	15.97	1571	0.64
2	161199	87074	54.02	20338	12.62	980	0.61
3	110750	61484	55.52	14919	13.47	736	0.66
4	79228	34884	44.03	6879	8.68	407	0.51
5	102061	53635	52.55	10876	10.66	526	0.52
6	118936	67662	56.89	15998	13.45	748	0.63
7	168052	105917	63.03	32047	19.07	1318	0.78
8	99288	56661	57.07	13249	13.34	572	0.58
9	129180	77692	60.14	22570	17.47	1010	0.78
10	105721	56237	53.19	13081	12.37	542	0.51
11	124461	70626	56.75	17566	14.11	749	0.6
12	96267	49025	50.93	12301	12.78	625	0.65
Total	1541119	866298	56.21	219102	14.22	9784	0.63

¹Chr represents the chromosome ID
²N represents the total number of known CpG sites
³ N₁ represents the number of sites at the same position at least in two cells
⁴ P₁(%) represents the proportion of N₁ in all sites
⁵ N₂ represents the number of sites with same states at the same position in at least two cells
⁶ P₂(%) represents the proportion of N₂ in all sites
⁷ N₃ represents the number of sites with the same states in specific sites where methylation state was known
⁸ P₃(%) represents the proportion of N₃ in all sites

ISSN: 1471-2164