Investigating the effects of copy number variants on reading and language performance

Table 2 Large annotated CNV events (>500 kb) detected in RD cases

Subject	Family	Chr	Start (kb)	End (kb)	SNPs	Length (kb)	CopyN	Frequency	Gene	PC1	IQadjPC1	IBGdiscr
IBG143157	3914	2	96,196	96,737	26	541	3	Common	FAHD2CP,GPAT2,LINC00342,TRIM43	−2.51	−2.59	−3.29
IBG112039	3576	11	48,397	48,943	33	546	1	Common	OR4A47	−0.59	−0.43	−1.76
IBG1448951	4442	14	19,848	20,420	17	573	3	Common	10 genes (including several OR genes)^a	−0.97	−1.05	−2.83
IBG143577	4010	2	132,731	133,354	120	622	3	Common	ANKRD30BL,GPR39,MIR663B	−1.73	−1.54	−2.09
IBG112079	3906	8	105,737	106,407	147	670	3	Rare	ZFPM2	−1.56	−1.65	−1.98
IBG111829	2856	11	49,770	50,283	44	513	3	Common	LOC440040,LOC441601,OR4C12,OR4C13	−1.93	−1.74	−2.78
IBG112389	4048	5	45,672	46,399	35	727	3	Common	HCN1	−1.47	−1.57	−3.18
IBG145160	4499	11	54,794	56,004	190	1209	3	Common	30 genes (including several OR and TRIM genes)^b	−2.21	−2.05	−3.63
IBG1451651	4499	11	54,794	56,004	190	1209	3	Common	30 genes (including several OR and TRIM genes)^b	−1.83	−1.74	−2.14
IBG111948	3523	16	14,975	16,303	419	1328	3	Common	27 genes (including several microRNAs)^c	−1.55	−1.53	−1.61

When a CNV is annotated to more than five RefSeq genes, these are reported in a footnote (see below). All the CNVs partially overlapped or encompassed the genes to which they were annotated. All the positions are expressed in hg19 coordinates. The frequency column specifies how each CNV call showed substantial overlaps (≥50 %) with any CNV reported in the DGV database (July 2013, hg19): ≥5 overlaps for common CNVs, <5 overlaps for rare CNVs. An extended format of this table including further details is available in Additional file 2: Table S2a)
^aBMS1P17, BMS1P18, OR11H2, OR4K1, OR4K2, OR4K5, OR4M1, OR4N2, OR4Q3, POTEM
^bOR10AG1, OR4A15, OR4A16, OR4C11, OR4C15, OR4C16, OR4C6, OR4P4, OR4S2, OR5AS1, OR5D13, OR5D14, OR5D16, OR5D18, OR5F1, OR5I1, OR5J2, OR5L1, OR5L2, OR5T2, OR5W2, OR7E5P, OR8H2, OR8H3, OR8I2, OR8J3, OR8K5, TRIM48, TRIM51, TRIM51HP
^cABCC1, ABCC6, C16orf45, FOPNL, KIAA0430, LOC100288162, MIR3179-1, MIR3179-2, MIR3179-3, MIR3180-1, MIR3180-2, MIR3180-3, MIR3180-4, MIR484, MIR6506, MIR6511A-2, MIR6511B-1, MIR6770-2, MPV17L, MYH11, NDE1, NOMO1, NPIPA1, NPIPA5, NTAN1, PDXDC1, RRN3

ISSN: 1866-1955