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Table 1 De novo coding variants in known disease-risk genes

From: De novo and inherited variants in coding and regulatory regions in genetic cardiomyopathies

Family ID

Disease

HPO terms

Genomic position (GRCh38)

Gene

Exomiser score

Consequence

cDNA

Variation

rsID

ClinVar

Fam451

LVNC

Triangular face; astigmatism; downslanted palpebral fissures; intellectual disability; small for gestational age; bicuspid aortic valve; inability to walk; proportionate short stature; abnormal vena cava morphology; proportionate shortening of all digits; feeding difficulties in infant; short proximal phalanx of thumb; low hanging columella; broad hallux; keloids; and delayed fine motor development

chr16:89,280,358 GC > G

ANKRD11

0.8794

Frameshift

c.6183del

p.Leu2062TrpfsTer25

–

–

Fam010

HCM

Depressivity; lethargy; palpitations; and pedal oedema

chr2:219,425,734 C > T

DES

0.9500

Missense

c.1360C > T

p.Arg454Trp

rs267607490

P/LP

Fam208

DCM

Flexion contracture; congestive heart failure; Achilles tendon contracture; restrictive deficit on pulmonary function testing; skeletal muscle atrophy; progressive muscle weakness; limb muscle weakness; scapular winging; myofibrillar myopathy; skeletal myopathy; knee flexion contracture; limb–girdle muscular dystrophy; and distal lower limb amyotrophy

chr1:156,134,479 T > C

LMNA

0.9878

Missense

c.590 T > C

p.Leu197Pro

–

–

Fam520

HCM

Hypothyroidism; congestive heart failure; palpitations; and dyspnoea

chr22:20,987,543 C > A

LZTR1

0.8979

Missense

c.360C > A

p.His120Gln

rs1249605552

US

Fam491

HCM

Congestive heart failure; sudden cardiac death; dyspnoea; and arrhythmia

chr14:23,425,285 C > G

MYH7

0.9936

Missense

c.2420G > C

p.Arg807Pro

rs141414377

LP

Fam798

HCM

Restrictive cardiomyopathy

chr14:23,429,004 C > T

MYH7

0.9209

Missense

c.1358G > A

p.Arg453His

rs397516101

P

Fam268

HCM

Angina pectoris; palpitations

chr14:23,425,970 C > T

MYH7

0.9761

Missense

c.2156G > A

p.Arg719Gln

rs121913641

P

Fam659

LVNC

Atrial septal defect; atrioventricular block; asthma; and abnormal ventricular septum morphology

chr5:173,232,976 G > T

NKX2-5

0.9684

Missense

c.568C > A

p.Arg190Ser

rs104893906

–

Fam828

HCM

Intellectual disability; failure to thrive; right ventricular cardiomyopathy; and left ventricular non-compaction cardiomyopathy

chr12:112,473,023 A > G

PTPN11

0.9609

Missense

c.836A > G

p.Tyr279Cys

rs121918456

P/LP

Fam478

HCM

Palpitations

chr3:12,604,188 G > A

RAF1

0.9782

Missense

c.782C > T

p.Pro261Leu

rs397516828

P

Fam794

ARVC

Cardiac arrest; palpitations

chr1:237,756,289 A > G

RYR2

0.9958

Missense, splice region

c.11147A > G

p.Glu3716Gly

–

–

Fam231

HCM

Syncope; restrictive cardiomyopathy

chr1:201,365,291 C > T

TNNT2

0.8760

Missense

c.311G > A

p.Arg104His

rs397516457

P

Fam112

DCM

–

chr2:178,741,570 C > T

TTN

0.9981

Missense

c.11663G > A

p.Gly3888Glu

–

–

  1. The overall Exomiser score (from 0 to 1) is obtained from the variant score and phenotypic score within a logistic regression classifier framework and used for variant prioritisation. Exomiser correctly ranked the causal variant as first in all cases in this list. LP = likely pathogenic; P = pathogenic; and US = uncertain significance