Table 1. CNVs in Wwox-ko MEFs.

Location	Type	Log 2 value	Size (bp)	Genes
(a) CNVs identified in MEFs from ko model17,a
1 C2*	Loss	−1.054476	10 469
1 D	Loss	−0.403978	236 768	Alpi, Akp3...Efhd1, Gigyf2
1 H6	Loss	−1.222192	10 163	Ints7
2 A1	Loss	−2.408214	148 674
2 H2–H4	Loss	−0.636356	21 851 075	Gm826, Mafb...Polr3k
4 B3	Loss	−1.203901	20 144	Klf4
4 C4–D2.2*	Loss	−0.65898	40 610 731	Mtap, Cdkn2a...Ccdc28b, Txlna
5 A1–G3*	Loss	−0.636989	148 963 374	5830415L20Rik...Vmn2r18, Rfc3
5 B3–E2*	Loss	−0.578451	55 052 717	Crmp1, Evc...G3bp2, Uso1
5 F–G3	Loss	−0.78408	37 496 038	BC057022, Trpv4...Stard13, Vmn2r18
6 F3	Gain	2.251792	36 752	Klrb1c
6 F3	Gain	2.726201	41 787	Klra22, Klra15...Klra10, Klra23
7 A1– B4	Loss	−0.412604	48 525 504	Speer9-ps1, AU018091...Syt3
7 D1	Loss	−1.025512	21 457
7 D3*	Gain	3.048525	24 522
7 E3	Loss	−0.954134	11 544	C2cd3
7 E3*	Gain	3.55613	28 940	Trim12
7 E3*	Gain	4.681896	27 421	Gm6577
7 F1*	Gain	1.63469	314 615	Parva, Tead1
8 C2	Loss	−0.757912	83 656	Ndufb7, Tecr, Dnajb1
9 A3	Loss	−2.24994	52 755	Zfp872, 1810064F22Rik
9 A5.1	Loss	−1.072671	93 850	Thy1, Usp2...Rnf26, Mcam
12 A1.1–A1.3	Loss	−0.743706	4 851 016	Lpin1, Ntsr2...Adam17, Ywhaq
13 D2.2*	Loss	−2.147682	62 546	Fst
14 C1	Gain	2.402886	199 383	Ear1, Ear10, Ang3, Ang6
14 E4–E5	Gain	0.695019	8 370 044	Gpc5, Gpc6...Fgf14
19 C3	Loss	−1.09488	10 152
(b) CNVs identified in MEFs from ko model3,b
1 H6	Loss	−1.326041	10 163	Ints7
3 A1–H4*	Loss	−0.59902	156 573 195	Hnf4g, Zfhx4...Rpe65, Gpr177
4 A1–4 E2	Loss	−0.422696	152 029 615	Lyn, Rps20...Plekhn1, Klhl17
4 E2	Loss	−0.646968	2 226 341	Rere, Slc45a1... Kcnab2, Nphp4
6 B3	Loss	−1.294899	12 435	Nfe2l3
7 B1	Loss	−0.429359	599 038	Snx26, BC053749...Scn1b, Gramd1a
7 F3*	Loss	−0.887199	126 255	Gsg1l
8 C2–C3	Loss	−0.469223	2 732 571	Zfp330, Rnf150...Orc6l, Mylk3
12 A2	Gain	0.670557	2 723 510	Rnf144a, Rsad2, Cmpk2, Sox11, Allc
17 A1–E5	Loss	−0.475481	92 128 771	Rbm16, Tiam2...Adcyap1, Mettl4
18 A1*	Loss	−0.50186	431 578	Svil, Zfp438

Abbreviations: aCGH, array comparative genomic hybridization; CNV, copy number variation; ko, knockout; MEF, mouse embryonic fibroblast. Losses in common between the distinct knockout mice are italicized; Copy number losses also seen in karyotype analysis are bold; Common fragile sites are denoted by asterisk. DNA was isolated using QIAGEN DNeasy Kit (Valencia, CA, USA). aCGH was performed by Genome Quebec. Data were filtered by removing CNVs that spanned three or fewer probes and were <0.4-fold (log 2) altered vs wild-type DNA. CNVs were verified as novel by removing those associated with differences between B6/129 genomes annotated by the Mouse Genomes Project, Wellcome Trust Sanger Institute (http://www.sanger.ac.uk/resources/mouse/genomes).

DNA from MEFs established from two different Wwox-ko mouse models^3,17 was isolated using Qiagen DNeasy Kit; DNAs of wild-type littermates was used in the aCGH analyses. aCGH was performed by Genome Quebec for genomes of Wwox+/+3/Wwox−/−5³ and WT4/KO5¹⁷ MEF cell line pairs.

^aCell lines established from Ludes Meyers et al.'s¹⁷ Wwox-ko model.

^bCell lines established Aqeilan et al.'s³ Wwox-ko model.