MYH7 variants in HCM cohorts

The table below lists the 438 rare (MAF<0.0001 in ExAC) protein-altering MYH7 variants identified in a cohort of 3200 HCM patients. When this rare variant frequency of 0.13687 is compared with a background population rate of 0.01398, there is a statistically significant case excess of 0.12289 (p<0.0001), which suggests that approximately 394 of these variants may be pathogenic.

Variant Type: All protein-altering variants - Truncating variants - Non-Truncating variants

Source: Combined (OMGL + LMM) - OMGL - LMM

No.	Variant (CDS)▼	Variant (Protein)	Variant Type▼	Cases (3200)▼	OMGL class	ExAC frequency
1.	c.2389G>A	p.A797T	missense	24	Pathogenic	0.000032
2.	c.1988G>A	p.R663H	missense	17	Pathogenic	0.000016
3.	c.1816G>A	p.V606M	missense	13	Pathogenic	0.000000
4.	c.2609G>A	p.R870H	missense	13	Pathogenic	0.000000
5.	c.2539A>G	p.K847E	missense	10	Likely Pathogenic	0.000000
6.	c.1063G>A	p.A355T	missense	10	Likely Pathogenic	0.000000
7.	c.1357C>T	p.R453C	missense	10	Pathogenic	0.000000
8.	c.5135G>A	p.R1712Q	missense	8	VUS	0.000008
9.	c.2348G>A	p.R783H	missense	8	Likely Pathogenic	0.000016
10.	c.2221G>T	p.G741W	missense	8	Pathogenic	0.000000
11.	c.2717A>G	p.D906G	missense	7	Likely Pathogenic	0.000000
12.	c.2681A>G	p.E894G	missense	7	Likely Pathogenic	0.000000
13.	c.2207T>C	p.I736T	missense	6	Pathogenic	0.000000
14.	c.1207C>T	p.R403W	missense	6	Pathogenic	0.000000
15.	c.3158G>A	p.R1053Q	missense	6	Likely Pathogenic	0.000074
16.	c.1142C>A	p.A381D	missense	5	Likely Pathogenic	0.000000
17.	c.4135G>A	p.A1379T	missense	5	Pathogenic	0.000000
18.	c.2155C>T	p.R719W	missense	5	Pathogenic	0.000000
19.	c.4066G>A	p.E1356K	missense	5	Likely Pathogenic	0.000000
20.	c.4130C>T	p.T1377M	missense	5	VUS	0.000000
21.	c.2722C>G	p.L908V	missense	5	Pathogenic	0.000000
22.	c.2770G>A	p.E924K	missense	5	Pathogenic	0.000000
23.	c.2167C>T	p.R723C	missense	4	Pathogenic	0.000024
24.	c.508G>A	p.E170K	missense	4	Pathogenic	0.000000
25.	c.3475G>A	p.V1159M	missense	4	VUS	0.000000
26.	c.1208G>A	p.R403Q	missense	4	Pathogenic	0.000000
27.	c.343T>C	p.Y115H	missense	4	Likely Pathogenic	0.000008
28.	c.958G>A	p.V320M	missense	4	VUS	0.000008
29.	c.1370T>C	p.I457T	missense	3	Likely Pathogenic	0.000008
30.	c.2302G>A	p.G768R	missense	3	Likely Pathogenic	0.000000
31.	c.611G>A	p.R204H	missense	3	VUS	0.000000
32.	c.1279C>A	p.L427M	missense	3	Likely Pathogenic	0.000000
33.	c.2631G>C	p.M877I	missense	3	VUS	0.000000
34.	c.715G>A	p.D239N	missense	3	Likely Pathogenic	0.000000
35.	c.2779G>A	p.E927K	missense	3	VUS	0.000000
36.	c.1856C>T	p.T619I	missense	3	VUS	0.000033
37.	c.746G>A	p.R249Q	missense	3	Pathogenic	0.000000
38.	c.1063G>T	p.A355S	missense	3	VUS	0.000000
39.	c.641G>A	p.G214D	missense	2	Likely Pathogenic	0.000000
40.	c.427C>T	p.R143W	missense	2	Likely Pathogenic	0.000049
41.	c.4124A>G	p.Y1375C	missense	2	VUS	0.000000
42.	c.1433T>A	p.I478N	missense	2	Likely Pathogenic	0.000000
43.	c.1231G>A	p.V411I	missense	2	Likely Pathogenic	0.000008
44.	c.1051A>G	p.K351E	missense	2	Likely Pathogenic	0.000000
45.	c.1182C>A	p.D394E	missense	2	VUS	0.000000
46.	c.2359C>T	p.R787C	missense	2	Likely Pathogenic	0.000057
47.	c.1954A>G	p.R652G	missense	2	Likely Pathogenic	0.000008
48.	c.1324C>T	p.R442C	missense	2	Likely Pathogenic	0.000008
49.	c.767G>A	p.G256E	missense	2	Likely Pathogenic	0.000000
50.	c.976G>C	p.A326P	missense	2	Likely Pathogenic	0.000067
51.	c.5329G>A	p.A1777T	missense	2	VUS	0.000041
52.	c.345C>A	p.Y115X	nonsense	2	VUS	0.000000
53.	c.2572C>T	p.R858C	missense	2	VUS	0.000000
54.	c.2011C>T	p.R671C	missense	2	Likely Pathogenic	0.000000
55.	c.2536G>C	p.E846Q	missense	2	VUS	0.000000
56.	c.1045A>G	p.M349V	missense	2	VUS	0.000024
57.	c.1405G>A	p.D469N	missense	2	VUS	0.000008
58.	c.428G>A	p.R143Q	missense	2	Likely Pathogenic	0.000008
59.	c.5561C>T	p.T1854M	missense	2	VUS	0.000033
60.	c.578A>G	p.Q193R	missense	2	Likely Pathogenic	0.000000
61.	c.1447G>A	p.E483K	missense	2	Pathogenic	0.000008
62.	c.1318G>A	p.V440M	missense	2	VUS	0.000000
63.	c.4259G>T	p.R1420L	missense	2	VUS	0.000000
64.	c.1268C>T	p.A423V	missense	2	VUS	0.000000
65.	c.2220G>T	p.K740N	missense	2	Likely Pathogenic	0.000000
66.	c.983A>G	p.E328G	missense	1	Likely Pathogenic	0.000000
67.	c.1757T>C	p.V586A	missense	1	Likely Pathogenic	0.000000
68.	c.1208G>T	p.R403L	missense	1	Pathogenic	0.000000
69.	c.788T>C	p.I263T	missense	1	Pathogenic	0.000000
70.	c.5172C>G	p.I1724M	missense	1	VUS	0.000000
71.	c.799C>G	p.L267V	missense	1	Likely Pathogenic	0.000000
72.	c.5725C>T	p.R1909W	missense	1	VUS	0.000032
73.	c.4259G>A	p.R1420Q	missense	1	VUS	0.000000
74.	c.3899A>T	p.Q1300L	missense	1	VUS	0.000000
75.	c.2906A>C	p.H969P	missense	1	VUS	0.000000
76.	c.4985G>A	p.R1662H	missense	1	VUS	0.000057
77.	c.4636G>C	p.E1546Q	missense	1	VUS	0.000000
78.	c.4048G>A	p.E1350K	missense	1	VUS	0.000000
79.	c.3373G>C	p.E1125Q	missense	1	VUS	0.000000
80.	c.5380C>A	p.Q1794K	missense	1	VUS	0.000000
81.	c.5471A>G	p.N1824S	missense	1	VUS	0.000000
82.	c.3231T>G	p.D1077E	missense	1	VUS	0.000000
83.	c.1804A>T	p.N602Y	missense	1	VUS	0.000000
84.	c.3208G>A	p.E1070K	missense	1	VUS	0.000008
85.	c.2683C>A	p.Q895K	missense	1	VUS	0.000000
86.	c.1345A>T	p.T449S	missense	1	Likely Pathogenic	0.000000
87.	c.3974C>T	p.A1325V	missense	1	VUS	0.000026
88.	c.2701G>C	p.A901P	missense	1	Likely Pathogenic	0.000000
89.	c.2471T>C	p.V824A	missense	1	VUS	0.000000
90.	c.500C>T	p.T167I	missense	1	VUS	0.000000
91.	c.2776C>G	p.L926V	missense	1	VUS	0.000016
92.	c.2573G>A	p.R858H	missense	1	Likely Pathogenic	0.000008
93.	c.737A>T	p.K246I	missense	1	Likely Pathogenic	0.000000
94.	c.3133C>T	p.R1045C	missense	1	Likely Pathogenic	0.000016
95.	c.2069T>C	p.M690T	missense	1	Likely Pathogenic	0.000000
96.	c.2104A>G	p.I702V	missense	1	VUS	0.000000
97.	c.1436A>G	p.N479S	missense	1	Likely Pathogenic	0.000000
98.	c.925G>A	p.D309N	missense	1	Likely Pathogenic	0.000024
99.	c.728G>A	p.R243H	missense	1	Likely Pathogenic	0.000008
100.	c.5029C>T	p.R1677C	missense	1	VUS	0.000016
101.	c.4664A>G	p.E1555G	missense	1	VUS	0.000000
102.	c.5587C>T	p.R1863W	missense	1	VUS	0.000008
103.	c.5773C>T	p.R1925C	missense	1	VUS	0.000000
104.	c.4132G>C	p.D1378H	missense	1	VUS	0.000000
105.	c.3346G>A	p.E1116K	missense	1	VUS	0.000000
106.	c.2707G>C	p.E903Q	missense	1	VUS	0.000000
107.	c.4787C>T	p.S1596L	missense	1	VUS	0.000041
108.	c.4000C>T	p.Q1334X	nonsense	1	VUS	0.000000
109.	c.3289G>A	p.E1097K	missense	1	VUS	0.000000
110.	c.2353A>G	p.I785V	missense	1	VUS	0.000000
111.	c.3548T>A	p.L1183Q	missense	1	VUS	0.000000
112.	c.2606G>A	p.R869H	missense	1	Likely Pathogenic	0.000032
113.	c.904C>A	p.L302M	missense	1	VUS	0.000000
114.	c.3138G>A	p.M1046I	missense	1	VUS	0.000024
115.	c.2606G>T	p.R869L	missense	1	VUS	0.000000
116.	c.1228T>G	p.Y410D	missense	1	Likely Pathogenic	0.000000
117.	c.3578G>A	p.R1193H	missense	1	VUS	0.000000
118.	c.595G>A	p.A199T	missense	1	VUS	0.000000
119.	c.2785G>A	p.E929K	missense	1	Likely Pathogenic	0.000000
120.	c.1479G>A	p.M493I	missense	1	Likely Pathogenic	0.000000
121.	c.2549C>A	p.A850D	missense	1	Likely Pathogenic	0.000000
122.	c.694A>C	p.N232H	missense	1	Likely Pathogenic	0.000000
123.	c.2623_2625delGAG	p.Glu875del	inframe	1	Likely Pathogenic	0.000000
124.	c.1477A>G	p.M493V	missense	1	Likely Pathogenic	0.000000
125.	c.2221G>A	p.G741R	missense	1	Pathogenic	0.000000
126.	c.1358G>A	p.R453H	missense	1	Likely Pathogenic	0.000000
127.	c.4343A>G	p.N1448S	missense	1	VUS	0.000000
128.	c.632C>T	p.P211L	missense	1	Likely Pathogenic	0.000024
129.	c.5110C>T	p.Q1704X	nonsense	1	VUS	0.000000
130.	c.789A>G	p.I263M	missense	1	Likely Pathogenic	0.000000
131.	c.5704G>C	p.E1902Q	missense	1	VUS	0.000074
132.	c.4030C>T	p.R1344W	missense	1	VUS	0.000016
133.	c.3341G>A	p.R1114H	missense	1	VUS	0.000000
134.	c.4258C>T	p.R1420W	missense	1	VUS	0.000008
135.	c.3803G>C	p.R1268P	missense	1	VUS	0.000000
136.	c.2894A>G	p.E965G	missense	1	VUS	0.000000
137.	c.4954G>T	p.D1652Y	missense	1	VUS	0.000024
138.	c.4532A>C	p.D1511A	missense	1	VUS	0.000000
139.	c.2738T>C	p.I913T	missense	1	VUS	0.000000
140.	c.3637G>A	p.V1213M	missense	1	VUS	0.000000
141.	c.3064A>G	p.K1022E	missense	1	VUS	0.000000
142.	c.2791_2793delGAG		inframe	1	Likely Pathogenic	0.000000
143.	c.1753A>T	p.I585F	missense	1	VUS	0.000000
144.	c.964T>A	p.S322T	missense	1	VUS	0.000000
145.	c.3170G>A	p.G1057D	missense	1	VUS	0.000000
146.	c.1121A>T	p.E374V	missense	1	Likely Pathogenic	0.000000
147.	c.2389G>C	p.A797P	missense	1	Likely Pathogenic	0.000000
148.	c.2770G>C	p.E924Q	missense	1	VUS	0.000000
149.	c.731T>G	p.F244C	missense	1	Likely Pathogenic	0.000000
150.	c.2167C>G	p.R723G	missense	1	Pathogenic	0.000000
151.	c.1625A>G	p.K542R	missense	1	VUS	0.000000
152.	c.2296A>C	p.K766Q	missense	1	Likely Pathogenic	0.000000
153.	c.1759G>A	p.D587N	missense	1	Likely Pathogenic	0.000000
154.	c.1216G>A	p.V406M	missense	1	Likely Pathogenic	0.000000
155.	c.5291T>A	p.M1764K	missense	1	VUS	0.000000
156.	c.809A>G	p.K270R	missense	1	VUS	0.000000
157.	c.5740G>A	p.E1914K	missense	1	VUS	0.000000
158.	c.5002A>G	p.K1668E	missense	1	VUS	0.000000
159.	c.4660G>A	p.E1554K	missense	1	VUS	0.000000
160.	c.3428T>G	p.L1143R	missense	1	VUS	0.000000
161.	c.5690G>A	p.R1897H	missense	1	VUS	0.000000
162.	c.4276G>A	p.E1426K	missense	1	VUS	0.000000
163.	c.4108C>A	p.Q1370K	missense	1	VUS	0.000000
164.	c.3046A>G	p.K1016E	missense	1	VUS	0.000008
165.	c.2273T>G	p.F758C	missense	1	Likely Pathogenic	0.000000
166.	c.3484G>A	p.E1162K	missense	1	VUS	0.000000
167.	c.2700T>A	p.D900E	missense	1	VUS	0.000000
168.	c.1346C>T	p.T449I	missense	1	VUS	0.000000
169.	c.3229_3240del	p.Asp1077_Leu1080del	inframe	1	VUS	0.000000
170.	c.1477A>T	p.M493L	missense	1	Likely Pathogenic	0.000000
171.	c.2602G>C	p.A868P	missense	1	VUS	0.000000
172.	c.793A>T	p.T265S	missense	1	VUS	0.000000
173.	c.3134G>T	p.R1045L	missense	1	VUS	0.000016
174.	c.2711G>A	p.R904H	missense	1	VUS	0.000000
175.	c.1207C>G	p.R403G	missense	1	Pathogenic	0.000000
176.	c.2081G>A	p.R694H	missense	1	Likely Pathogenic	0.000000
177.	c.2546T>C	p.M849T	missense	1	Likely Pathogenic	0.000000
178.	c.677C>T	p.A226V	missense	1	VUS	0.000000
179.	c.2183C>T	p.A728V	missense	1	VUS	0.000000
180.	c.2129C>A	p.P710H	missense	1	Likely Pathogenic	0.000000
181.	c.610C>T	p.R204C	missense	1	Likely Pathogenic	0.000024
182.	c.5647G>A	p.E1883K	missense	1	VUS	0.000000
183.	c.298G>A	p.A100T	missense	1	VUS	0.000016
184.	c.619A>C	p.K207Q	missense	1	Likely Pathogenic	0.000000
185.	c.5088G>C	p.E1696D	missense	1	VUS	0.000024
186.	c.4919A>G	p.Q1640R	missense	1	VUS	0.000000
187.	c.4817G>A	p.R1606H	missense	1	VUS	0.000049
188.	c.4418A>G	p.E1473G	missense	1	VUS	0.000000
189.	c.4004C>T	p.S1335L	missense	1	VUS	0.000033
190.	c.3325A>G	p.K1109E	missense	1	VUS	0.000000
191.	c.5326A>G	p.S1776G	missense	1	Likely Pathogenic	0.000032
192.	c.2501T>A	p.F834Y	missense	1	VUS	0.000000
193.	c.4144C>T	p.R1382W	missense	1	VUS	0.000000
194.	c.3593A>G	p.D1198G	missense	1	VUS	0.000000
195.	c.3493A>G	p.K1165E	missense	1	VUS	0.000012
196.	c.2881C>G	p.L961V	missense	1	VUS	0.000000
197.	c.920C>A	p.P307H	missense	1	Pathogenic	0.000000
198.	c.2631G>A	p.M877I	missense	1	VUS	0.000000
199.	c.3622G>A	p.D1208N	missense	1	VUS	0.000000
200.	c.2788G>A	p.E930K	missense	1	Likely Pathogenic	0.000000
201.	c.1579C>A	p.P527T	missense	1	VUS	0.000000
202.	c.2555T>C	p.M852T	missense	1	Likely Pathogenic	0.000000
203.	c.710G>A	p.R237Q	missense	1	VUS	0.000000
204.	c.2680G>A	p.E894K	missense	1	VUS	0.000000
205.	c.80A>G	p.Q27R	missense	1	VUS	0.000000
206.	c.2156G>A	p.R719Q	missense	1	Pathogenic	0.000000
207.	c.1544T>C	p.M515T	missense	1	Pathogenic	0.000000

References

1. Roddy Walsh, Kate L. Thomson, James S. Ware, Birgit H. Funke, Jessica Woodley, Karen J. McGuire, Francesco Mazzarotto, Edward Blair, Anneke Seller, Jenny C. Taylor, Eric V. Minikel, Exome Aggregation Consortium, Daniel G. MacArthur, Martin Farrall, Stuart A. Cook and Hugh Watkins. Reassessment of Mendelian gene pathogenicity using 7,855 cardiomyopathy cases and 60,706 reference samples. Genet Med. 2016 doi:10.1038/gim.2016.90.

2. Alfares AA, Kelly MA, McDermott G, Funke BH, Lebo MS, Baxter SB, Shen J, McLaughlin HM, Clark EH, Babb LJ, Cox SW, DePalma SR, Ho CY, Seidman JG, Seidman CE, Rehm HL. Results of clinical genetic testing of 2,912 probands with hypertrophic cardiomyopathy: expanded panels offer limited additional sensitivity. Genet Med. 2015 Nov;17(11):880-8.