Identification of genomic indels and structural variations using split reads

BMC Genomics

Table 2 Array capture validation of SR called deletions. ^{1, 2}

t _n ³	2	3	4	5	6	7
True positive	30	20	15	13	9	7
Positive	115	33	22	18	12	10
Positive predictive value ⁴	0.26	0.60	0.68	0.72	0.75	0.70

Notes:
1. 0.5× 454 reads for a CEU individual (NA12878) from the 1000 Genomes Project are used to make the SR deletion calls.
2. Only deletions longer than 500 bp are selected for array capture validation.
3. t_n, is threshold on the number of supportive reads.
4. Positive predictive value = True positive/Positive.

ISSN: 1471-2164