Next-generation sequencing-based detection of germline L1-mediated transductions

BMC Genomics

Table 1 Summary of TIGER results in non-human primate species

Species	Sample	Physical coverage (X)	Non-reference L1 insertions	TIGER transductions	L1 transduction rate (%)*	PCR validated transductions
Macaque	AG06249	26.0	449	29	5.5 ± 1.2**	14/16
	AG06252	29.2	620	28
	AG07098	21.7	424	26
	AG07109	23.7	473	28
	AG07110	18.6	635	28
Orangutan	AG06105	19.2	663	52	8.8 ± 1.4**	24/28
	AG06209	24.2	803	81
	GM04272	24.0	649	62
	PR00054	23.3	775	70
	PR01110	17.2	633	47
Chimpanzee	PR00226	32.2	214	4	2.5 ± 1.1**	5/7
	PR00738	32.9	246	7
	PR00818	28.2	223	4
	PR01106	19.8	148	3
	PR01171	18.8	132	5

For comparison to NA12878 see Additional file 1: Table S5
*Determined based on ratio between TIGER transductions and L1 insertions. 95 % confidence intervals were calculated using one sample t-test
**Significantly different based on Wald test of predicted-transduction rates: chimpanzee-macaque: P = 0.000073; chimpanzee-orangutan: P = 0.000037; macaque-orangutan: P = 0.0003

ISSN: 1471-2164