Table 5. Genomic data used for validating discovered D gene variations.
The last column describes the number of datasets in which the novel sequences were found in genomic reads and the range of number of reads in which the sequences were found. For rhesus macaques, we chose only 4 datasets out of the 1318 in the NCBI project PRJNA382404 for analysis.
| Species | Project | Description | Datasets | Novel variations/genes found in genomic reads | # datasets (# reads) |
|---|---|---|---|---|---|
| Human | PRJNA427604 | WES of human PBMC (ESCC—cohort, China) |
40 | N_Var (IGHD3-10*01)-3 N_Var (IGHD3-16*02)-0 |
5 (8–14) 6 (30–58) |
| Mice | PRJEB18467 | WGS of house mouse | 32 | N_Var (IGHD1-1*01)-0 | 19 (1–10) |
| Bactrian Camel | PRJNA276064 | WGS of Old world camels | 7 | N_Var(IGHD2*01)-0 N_Var(IGHD2*01)-1 N_Var(IGHD3*01)-0 N_Var(IGHD3*01)-1 N_Var(IGHD4*01)-0 N_Var(IGHD4*01)-1 N_Var(IGHD5*01)-0 N_Var(IGHD6*01)-2 |
2 (2) 6 (4–17) 2 (2–6) 7 (1–16) 2 (4–5) 6 (7–15) 6 (2–13) 7 (5–21) |
| Rhesus Macaque | PRJNA382404 | WGS of rhesus macaques | 4/1318 | N_Gene-1 N_Gene-1-0 N_Var (IGHD1S39*01) N_Var (IGHD3S18*01) N_Var (IGHD5S3*01) N_Var (IGHD2S11*01) N_Var (IGHD2S17*01) N_Var (IGHD3S23*01) |
4 (9–27) 2 (8–9) 1 (18) 2 (8–21) 4 (13–28) 1 (6) 4 (8–30) 3 (12–24) |
| Wistar Rats | PRJNA479378 | WGS of wistar rats | 10 | N_Var (IGHD1-12*02)-0 N_Var (IGHD1-3*01)-0 N_Var (IGHD1-9*01)-1 |
10 (1–9) 10 (2–18) 10 (2–8) |
| Rabbit | PRJNA242290 | WGS of rabbits and hares | 24 | N_Var (IGHD1-1*01)-2 N_Var (IGHD6-1*01)-3 N_Var (IGHD6-1*01)-4 |
23 (1–14) 19 (1–9) 11 (1–6) |