A computational approach to candidate gene prioritization for X-linked mental retardation using annotation-based binary filtering and motif-based linear discriminatory analysis

Table 5 Classification of genes with > 50 kb contigs that were present in at least ten annotation categories

No of annotation terms matched (/40	HGNC symbol	XLMR gene¹	50 kb²	100 kb²	Dist (kb)³	Strata
24	DMD	1	NX	NX	71.7	XAR
23	GPM6B	0	NX	NX	68	XAR
19	AP1S2	1	X	X	61.4	XAR
19	FGF13	0	NX	NX	157.8	XCR
19	ZDHHC9	1	X	NX	60.7	XCR
18	TAF9B	0	NX	NX	133	XCR
18	FAM156A	0	X	NX	90.8	XCR
18	FAM156B	0	X	NX	90.8	XCR
17	ARHGEF9	1	NX	X	259.5	XCR
17	TMEM47	0	NX	NX	285.5	XAR
16	NAP1L2	0	NX	NX	182.7	XCR
16	NSBP1	0	NX	NX	80.3	XCR
16	PCSK1N	0	NX	NX	56.7	XCR
16	UXT	0	X	NX	64.4	XCR
15	BCOR	1	X	X	253.8	XAR
15	ENOX2	0	NX	NX	155	XCR
15	HUWE1	1	X	NX	224.7	XCR
15	LAS1L	0	NX	NX	132.8	XCR
15	THOC2	0	NX	NX	124	XCR
14	CXorf61	0	NX	NX	323.4	XCR
14	TBL1X	0	X	NX	190.3	XAR
14	TMLHE	0	NX	NX	154.8	XCR
13	C1GALT1C1	0	NX	NX	102.9	XCR
13	KAL1	0	NX	NX	58.6	XAR
13	PPP2R3B	0	NX	NX	237.4	XAR
13	RNF12	0	NX	NX	65.4	XCR
13	ZMAT1	0	NX	NX	77	XCR
12	GABRE	0	NX	NX	103	XCR
12	ZC4H2	0	X	NX	431.8	XCR
12	MAGED4	0	NX	X	115.6	XCR
12	MAGED4B	0	NX	X	115.6	XCR
12	MORC4	0	NX	NX	64.2	XCR
12	RAI2	0	NX	NX	302.1	XAR
11	APLN	0	X	NX	84.5	XCR
11	KLHL13	0	NX	NX	83.1	XCR
11	MUM1L1	0	NX	NX	93.4	XCR
11	RAP2C	0	X	NX	160.1	XCR
11	SLITRK4	0	NX	NX	72.2	XCR
11	SYTL4	0	NX	NX	88.2	XCR
10	CHRDL1	0	NX	NX	300.5	XCR
10	PHF16	0	NX	NX	72.4	XAR
10	STAG2	0	NX	NX	60.9	XCR

¹Indicates if gene is a known XLMR (= 1) or not (= 0)
²X indicates that a gene was classified as an XLMR gene and NX signifies classificiation as a non-XLMR gene.
³Distance from the TSS of gene to its closest neighbor gene

ISSN: 1745-6150