Genome-wide identification of copy number variations between two chicken lines that differ in genetic resistance to Marek’s disease

Table 2 Cross-validation with previous CNV discovery studies in the same population^a

Studies	Platform	Reference	Samples	CNVR count^b	CNVR size (kb)				Overlap with this study
Studies	Platform	Reference	Samples	CNVR count^b	Total	Mean	Max	Min	CNVR #	Pct.^c	Overlap size (kb)	Pct.^d
This study	Next generation sequencing	Galgal4	6	5,680	29,410	5	544	0.1
Crooijmans et al. [30]	Agilent 244 K aCGH chip	Galgal3	10	346	18,908	55	5,321	3	126	36.4	6,981	36.9
Luo et al. [31]	NimbleGen 385 k aCGH chip	Galgal3	4	32	1,399	44	190	10	19	59.4	694	49.6
Cumulated^e	-	-	-		19,379	53	53	3	145	38.4	7,714	39.6

^aThe comparison was based on Galgal4 assembly
^bThe CNVRs were obtained by aggregating overlapping CNVs that were successfully converted to Galgal4 assembly
^cThe percentage was calculated by dividing the number of overlapped CNVRs by the total number of CNVRs in corresponding study
^dThe percentage was calculated by dividing the number of overlapped bases by the total bases affected by CNVs in corresponding study
^eA union set based on previous studies

ISSN: 1471-2164