Microarray-based ultra-high resolution discovery of genomic deletion mutations

BMC Genomics

Table 1 The design and experimental performance of nineteen staggered probe sets used to detect a 104 bp genomic DNA deletion in an A. thaliana mutant

Probe set staggering (bp)	Number of probes		% of probes with a log₂normalized ratio of ≤ −0.4
Probe set staggering (bp)	Designed	Detected with a log₂normalized ratio of ≤ −0.4	% of probes with a log₂normalized ratio of ≤ −0.4
2	77	66	86
6	25	22	88
10	15	14	93
12	12	12	100
15	10	9	90
17	9	8	89
20	8	7	88
22	7	7	100
25	6	6	100
27	5	5	100
30	5	4	80
32	5	5	100
35	5	5	100
37	4	4	100
40	4	4	100
42	4	3	75
45	3	3	100
47	3	3	100
49	3	3	100

Table 1 The table shows the staggered design of probes that cover a 104 bp phyB deletion in the E124 A. thaliana mutant line. The number of probes in each staggered probe set that covered the deletion are shown (column titled ‘Designed’). The number and percent of ‘Designed’ probes that were experimentally detected with normalized log₂ intensities of ≤ −0.4 are also shown.

ISSN: 1471-2164