Genome-wide methylomic analysis in individuals with HNF1B intragenic mutation and 17q12 microdeletion

Clissold, Rhian L.; Ashfield, Beth; Burrage, Joe; Hannon, Eilis; Bingham, Coralie; Mill, Jonathan; Hattersley, Andrew; Dempster, Emma L.

doi:10.1186/s13148-018-0530-z

Clinical Epigenetics

Table 2 Top results from the probe-wise ANOVA analysis. The T statistic results from the regression analysis indicate that the association is mainly driven by the 17q12 deletion patients. DMP results are annotated with their genomic location and gene annotation taken from the annotation files provided by Illumina. (*The coefficient value is equivalent to the magnitude of change in DNA methylation beta value and the direction of effect is in comparison to the control group)

From: Genome-wide methylomic analysis in individuals with HNF1B intragenic mutation and 17q12 microdeletion

Illumina Probe ID	F statistic	ANOVA P value	ANOVA q values	CHR	MAPINFO (hg19)	Gene name	ctrl v 17q12del			ctrl vs HNF1B mtn
Illumina Probe ID	F statistic	ANOVA P value	ANOVA q values	CHR	MAPINFO (hg19)	Gene name	T statistic	Coefficient*	P value	T statistic	Coefficient*	P value
cg06475972	47.017	4.00E-12	1.55E−06	17	34842357	ZNHIT3	9.045	0.043	5.06E−12	0.074	0.000	0.942
cg17953633	43.696	1.28E−11	2.49E−06	17	34957751	MRM1	8.532	0.069	2.97E−11	−0.417	− 0.003	0.678
cg24685795	40.277	4.52E−11	5.84E−06	17	34851276	ZNHIT3	− 8.075	− 0.107	1.47E−10	0.674	0.008	0.504
cg18269801	37.212	1.48E−10	1.44E−05	17	35732756	ACACA	− 8.088	− 0.061	1.40E−10	− 0.184	− 0.001	0.855
cg05527869	35.891	2.52E−10	1.95E−05	17	35294476	LHX1	7.988	0.025	1.99E−10	0.310	0.001	0.758
cg04264908	35.376	3.10E−10	2.01E−05	17	35303330		8.057	0.060	1.56E−10	0.716	0.005	0.477
cg22359664	32.781	9.19E−10	5.10E−05	17	35289432		7.094	0.044	4.75E−09	− 1.023	− 0.006	0.311
cg07037057	30.723	2.25E−09	0.000107005	17	35969138	SYNRG	7.684	0.076	5.84E−10	1.382	0.012	0.173
cg18103097	30.332	2.68E−09	0.000107005	17	35414317		− 7.386	− 0.071	1.68E−09	− 0.415	− 0.004	0.680
cg20151045	30.270	2.76E−09	0.000107005	17	35414114	AATF	− 7.242	− 0.051	2.80E−09	− 0.018	0.000	0.986
cg20951949	29.512	3.88E−09	0.000136867	17	34898162		− 7.047	− 0.078	5.60E−09	0.254	0.003	0.801
ch.17.958355F	28.600	5.89E−09	0.000190431	17	35991457	DDX52	7.365	0.055	1.81E−09	1.110	0.008	0.273
cg19678067	27.750	8.74E−09	0.00026103	17	34901173	GGNBP2	6.725	0.033	1.77E−08	− 0.509	− 0.002	0.613
cg06655187	27.194	1.14E−08	0.000315011	17	34842929	ZNHIT3	7.335	0.018	2.01E−09	1.984	0.004	0.053
cg03146993	26.915	1.30E−08	0.000335768	17	35297146	LHX1	6.987	0.041	6.95E−09	0.487	0.003	0.628
cg18574725	26.761	1.40E−08	0.000338748	17	34900600	GGNBP2	6.659	0.032	2.24E−08	− 0.370	− 0.002	0.713
cg06397845	26.545	1.55E−08	0.000353603	17	35732737	ACACA	− 6.809	− 0.066	1.31E−08	− 0.092	− 0.001	0.927
cg00356511	26.177	1.85E−08	0.000398715	17	35716273	ACACA	6.279	0.024	8.68E−08	− 1.035	− 0.004	0.306
cg02787306	25.017	3.26E−08	0.000665877	17	34957963	MRM1	6.652	0.044	2.29E−08	0.209	0.001	0.835
cg27614319	24.275	4.72E−08	0.000916069	17	35079061		6.453	0.040	4.68E−08	− 0.073	0.000	0.942
cg04993975	24.159	5.00E−08	0.000924571	17	35294472	LHX1	6.648	0.024	2.33E−08	0.555	0.002	0.582

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ISSN: 1868-7083

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