| 1 | Patent foramen ovale | Enrichment | GATA4, GATA6, NKX2-5, PTPN11, TBX20, TBX5 | 10.70 |
| 2 | Tetralogy of fallot | Enrichment | GATA4, GATA6, HEY2, NKX2-5, NOTCH1, TBX1 | 9.58 |
| 3 | Ventricular septal defect 1 | Enrichment | BMP2, GATA4, IRX4 | 6.41 |
| 4 | Persistent truncus arteriosus | Enrichment | GATA6, NKX2-5, TBX1 | 6.41 |
| 5 | Conotruncal heart malformations | Enrichment | GATA6, NKX2-5, TBX1 | 6.11 |
| 6 | Familial atrial fibrillation | Enrichment | GATA4, GATA6, NKX2-5, PITX2 | 5.89 |
| 7 | Hypoplastic left heart syndrome | Enrichment | NKX2-5, NOTCH1, TBX20 | 5.67 |
| 8 | Peters-plus syndrome | Enrichment | BMP4, FOXC1, PITX2 | 5.34 |
| 9 | Axenfeld-rieger anomaly with partially absent eye muscles, distinctive face, hydrocephaly, and skeletal abnormalities | Enrichment | FOXC1, PITX2 | 4.93 |
| 10 | Axenfeld-rieger syndrome | Enrichment | FOXC1, PITX2 | 4.93 |
| 11 | Heart disease | Enrichment | GATA4, NKX2-5, TBX5 | 4.86 |
| 12 | Septopreoptic holoprosencephaly | Enrichment | FGF8, FOXH1, SHH | 4.76 |
| 13 | Midline interhemispheric variant of holoprosencephaly | Enrichment | FGF8, FOXH1, SHH | 4.76 |
| 14 | Microform holoprosencephaly | Enrichment | FGF8, FOXH1, SHH | 4.67 |
| 15 | Lobar holoprosencephaly | Enrichment | FGF8, FOXH1, SHH | 4.67 |
| 16 | Alobar holoprosencephaly | Enrichment | FGF8, FOXH1, SHH | 4.59 |
| 17 | Heart, malformation of | Enrichment | GATA4, MAPK1, TBX5 | 4.51 |
| 18 | Semilobar holoprosencephaly | Enrichment | FGF8, FOXH1, SHH | 4.51 |
| 19 | Juvenile polyposis syndrome | Enrichment | BMPR1A, SMAD4 | 4.45 |
| 20 | Congenital heart defects, multiple types, 4 | Enrichment | GATA4, GATA6 | 3.93 |
| 21 | Generalized juvenile polyposis/juvenile polyposis coli | Enrichment | BMPR1A, SMAD4 | 3.93 |
| 22 | Atrial septal defect 1 | Enrichment | BMP2, TBX5 | 3.76 |
| 23 | Gallbladder cancer | Enrichment | CTNNB1, SMAD4 | 3.61 |
| 24 | Familial thoracic aortic aneurysm and aortic dissection | Enrichment | HEY2, NOTCH1, SMAD4 | 3.33 |
| 25 | Atrial heart septal defect | Enrichment | NKX2-5, TBX5 | 3.20 |
| 26 | Interatrial communication | Enrichment | NKX2-5, TBX5 | 3.20 |
| 27 | Specific learning disability | Enrichment | MAPK1, PTPN11 | 3.20 |
| 28 | Aortic valve disease 1 | Enrichment | NKX2-5, NOTCH1 | 3.05 |
| 29 | Male infertility with azoospermia or oligozoospermia due to single gene mutation | Enrichment | FGF8, GATA4, PTPN11 | 3.02 |
| 30 | Aortic aneurysm, familial thoracic 1 | Enrichment | GATA4, NOTCH1 | 2.98 |
| 31 | Anterior segment dysgenesis | Enrichment | FOXC1, PITX2 | 2.92 |
| 32 | Cardiomyopathy, dilated, 1a | Enrichment | HAND2, NFATC2 | 2.63 |
| 33 | Dilated cardiomyopathy | Enrichment | GATA6, NKX2-5, TBX5 | 2.58 |
| 34 | Holoprosencephaly 3 | Enrichment | SHH | 2.46 |
| 35 | Erythroleukemia, familial | Enrichment | ERBB3 | 2.46 |
| 36 | Atrial septal defect 7 with or without atrioventricular conduction defects | Enrichment | NKX2-5 | 2.46 |
| 37 | Metachondromatosis | Enrichment | PTPN11 | 2.46 |
| 38 | Velocardiofacial syndrome | Enrichment | TBX1 | 2.46 |
| 39 | Axenfeld-rieger syndrome, type 1 | Enrichment | PITX2 | 2.46 |
| 40 | Hypertelorism and tetralogy of fallot | Enrichment | FOXC1 | 2.46 |
| 41 | Hypothyroidism, congenital, nongoitrous, 5 | Enrichment | NKX2-5 | 2.46 |
| 42 | Polyposis syndrome, hereditary mixed, 2 | Enrichment | BMPR1A | 2.46 |
| 43 | Holt-oram syndrome | Enrichment | TBX5 | 2.46 |
| 44 | Leopard syndrome 1 | Enrichment | PTPN11 | 2.46 |
| 45 | Microphthalmia/coloboma 5 | Enrichment | SHH | 2.46 |
| 46 | Anterior segment dysgenesis 4 | Enrichment | PITX2 | 2.46 |
| 47 | Ring dermoid of cornea | Enrichment | PITX2 | 2.46 |
| 48 | Lethal congenital contracture syndrome 2 | Enrichment | ERBB3 | 2.46 |
| 49 | Atrioventricular septal defect 4 | Enrichment | GATA4 | 2.46 |
| 50 | Atrioventricular septal defect 5 | Enrichment | GATA6 | 2.46 |
| 51 | Aplasia of lacrimal and salivary glands | Enrichment | FGF10 | 2.46 |
| 52 | Noonan syndrome 13 | Enrichment | MAPK1 | 2.46 |
| 53 | Hereditary lymphedema id | Enrichment | VEGFC | 2.46 |
| 54 | Microphthalmia, syndromic 6 | Enrichment | BMP4 | 2.46 |
| 55 | Orofacial cleft 11 | Enrichment | BMP4 | 2.46 |
| 56 | Lymphatic malformation 4 | Enrichment | VEGFC | 2.46 |
| 57 | Hypoplastic right heart syndrome | Enrichment | TBX20 | 2.46 |
| 58 | Neurodevelopmental disorder with hypotonia, stereotypic hand movements, and impaired language | Enrichment | MEF2C | 2.46 |
| 59 | Lacrimoauriculodentodigital syndrome 3 | Enrichment | FGF10 | 2.46 |
| 60 | Microvascular complications of diabetes 1 | Enrichment | VEGFA | 2.46 |
| 61 | Atrial septal defect 4 | Enrichment | TBX20 | 2.46 |
| 62 | Atrial septal defect 2 | Enrichment | GATA4 | 2.46 |
| 63 | Ventricular septal defect 3 | Enrichment | NKX2-5 | 2.46 |
| 64 | Testicular anomalies with or without congenital heart disease | Enrichment | GATA4 | 2.46 |
| 65 | Hypogonadotropic hypogonadism 6 with or without anosmia | Enrichment | FGF8 | 2.46 |
| 66 | Hypoplastic left heart syndrome 2 | Enrichment | NKX2-5 | 2.46 |
| 67 | Atrial septal defect 9 | Enrichment | GATA6 | 2.46 |
| 68 | 20p12.3 microdeletion syndrome | Enrichment | BMP2 | 2.46 |
| 69 | 8p23.1 microdeletion syndrome | Enrichment | GATA4 | 2.46 |
| 70 | Short stature, facial dysmorphism, and skeletal anomalies with or without cardiac anomalies 1 | Enrichment | BMP2 | 2.46 |
| 71 | Adenoid ameloblastoma | Enrichment | CTNNB1 | 2.46 |
| 72 | Heritable thoracic aortic disease | Enrichment | SMAD4 | 2.46 |
| 73 | Non-acquired combined pituitary hormone deficiency | Enrichment | FOXA2 | 2.46 |
| 74 | 5q14.3 microdeletion syndrome | Enrichment | MEF2C | 2.46 |
| 75 | Aortic arch interruption | Enrichment | NKX2-5 | 2.46 |
| 76 | Primary pulmonary hypertension | Enrichment | BMPR2 | 2.46 |
| 77 | Pulmonary hypertension | Enrichment | BMPR2 | 2.46 |
| 78 | Complete atrioventricular septal defect without ventricular hypoplasia | Enrichment | MEF2C | 2.46 |
| 79 | Drug- or toxin-induced pulmonary arterial hypertension | Enrichment | BMPR2 | 2.46 |
| 80 | Atrial heart septal defect 7 | Enrichment | NKX2-5 | 2.46 |
| 81 | Congenital primary lymphedema of gordon | Enrichment | VEGFC | 2.46 |
| 82 | Partial atrioventricular septal defect with ventricular hypoplasia | Enrichment | GATA4 | 2.46 |
| 83 | Mef2c-related disorder | Enrichment | MEF2C | 2.46 |
| 84 | Interstitial lung disease specific to childhood | Enrichment | FGF10 | 2.46 |
| 85 | Microcystic stromal tumor | Enrichment | CTNNB1 | 2.46 |
| 86 | Autosomal dominant preaxial polydactyly-upperback hypertrichosis syndrome | Enrichment | SHH | 2.46 |
| 87 | Malignant astrocytoma | Enrichment | PTPN11 | 2.46 |
| 88 | Hydrops fetalis, nonimmune | Enrichment | FOXC2, PTPN11 | 2.44 |
| 89 | Bladder cancer | Enrichment | CTNNB1, ERBB3 | 2.35 |
| 90 | Long qt syndrome 1 | Enrichment | PTPN11, TBX5 | 2.32 |
| 91 | Non-immune hydrops fetalis | Enrichment | FOXC2, PTPN11 | 2.29 |
| 92 | Left ventricular noncompaction | Enrichment | NKX2-5, TBX20 | 2.19 |
| 93 | Myhre syndrome | Enrichment | SMAD4 | 2.16 |
| 94 | Visceral neuropathy, familial, 1, autosomal recessive | Enrichment | ERBB3 | 2.16 |
| 95 | Thumb deformity | Enrichment | TBX5 | 2.16 |
| 96 | Pulmonary venoocclusive disease 1, autosomal dominant | Enrichment | BMPR2 | 2.16 |
| 97 | Osteopathia striata with cranial sclerosis | Enrichment | CTNNB1 | 2.16 |
| 98 | Pulmonary hypoplasia, primary | Enrichment | FGF10 | 2.16 |
| 99 | Axenfeld-rieger syndrome, type 3 | Enrichment | FOXC1 | 2.16 |
| 100 | Atrial fibrillation, familial, 1 | Enrichment | PITX2 | 2.16 |
| 101 | Chromosome 22q11.2 duplication syndrome | Enrichment | TBX1 | 2.16 |
| 102 | Juvenile polyposis/hereditary hemorrhagic telangiectasia syndrome | Enrichment | SMAD4 | 2.16 |
| 103 | Lymphedema-distichiasis syndrome | Enrichment | FOXC2 | 2.16 |
| 104 | Solitary median maxillary central incisor | Enrichment | SHH | 2.16 |
| 105 | Fibrodysplasia ossificans progressiva | Enrichment | BMPR2 | 2.16 |
| 106 | Adams-oliver syndrome 5 | Enrichment | NOTCH1 | 2.16 |
| 107 | Neutropenia, severe congenital, 8, autosomal dominant | Enrichment | GATA6 | 2.16 |
| 108 | Anterior segment dysgenesis 3 | Enrichment | FOXC1 | 2.16 |
| 109 | Werner syndrome | Enrichment | PTPN11 | 2.16 |
| 110 | Pulmonary venoocclusive disease 1 | Enrichment | BMPR2 | 2.16 |
| 111 | Vertebral anomalies and variable endocrine and t-cell dysfunction | Enrichment | TBX2 | 2.16 |
| 112 | Childhood hepatocellular carcinoma | Enrichment | CTNNB1 | 2.16 |
| 113 | Bladder exstrophy | Enrichment | ISL1 | 2.16 |
| 114 | 46,xy sex reversal 3 | Enrichment | GATA4 | 2.16 |
| 115 | Aortic valve disease 2 | Enrichment | TBX5 | 2.16 |
| 116 | Craniosynostosis 7 | Enrichment | BMP2 | 2.16 |
| 117 | Hereditary mixed polyposis syndrome | Enrichment | BMPR1A | 2.16 |
| 118 | Familial isolated congenital asplenia | Enrichment | NKX2-5 | 2.16 |
| 119 | Juvenile nasopharyngeal angiofibroma | Enrichment | CTNNB1 | 2.16 |
| 120 | Joint contractures, osteochondromas, and b-cell lymphoma | Enrichment | NFATC2 | 2.16 |
| 121 | Deletion 5q35 | Enrichment | NKX2-5 | 2.16 |
| 122 | Pulmonary venoocclusive disease | Enrichment | BMPR2 | 2.16 |
| 123 | Teratoma | Enrichment | CTNNB1 | 2.16 |
| 124 | Juvenile polyposis of infancy | Enrichment | BMPR1A | 2.16 |
| 125 | Isolated radial hemimelia | Enrichment | SHH | 2.16 |
| 126 | Idiopathic/heritable pulmonary arterial hypertension | Enrichment | BMPR2 | 2.16 |
| 127 | Microcephaly | Enrichment | CTNNB1, MAPK1, PTPN11 | 2.05 |
| 128 | Desmoid disease, hereditary | Enrichment | CTNNB1 | 1.98 |
| 129 | Lacrimoauriculodentodigital syndrome 1 | Enrichment | FGF10 | 1.98 |
| 130 | Syndactyly, type iv | Enrichment | SHH | 1.98 |
| 131 | Heart defects, congenital, and other congenital anomalies | Enrichment | GATA6 | 1.98 |
| 132 | Transposition of the great arteries, dextro-looped | Enrichment | BMP2 | 1.98 |
| 133 | Neurodevelopmental disorder with spastic diplegia and visual defects | Enrichment | CTNNB1 | 1.98 |
| 134 | Anus, imperforate | Enrichment | CTNNB1 | 1.98 |
| 135 | Exudative vitreoretinopathy 7 | Enrichment | CTNNB1 | 1.98 |
| 136 | Desmoid tumor | Enrichment | CTNNB1 | 1.98 |
| 137 | Hypoplastic or aplastic tibia with polydactyly | Enrichment | SHH | 1.98 |
| 138 | Tricuspid valve insufficiency | Enrichment | PTPN11 | 1.98 |
| 139 | Pulmonary arterial hypertension associated with congenital heart disease | Enrichment | BMPR2 | 1.98 |
| 140 | Keratoacanthoma | Enrichment | NOTCH1 | 1.98 |
| 141 | Inherited cancer-predisposing syndrome | Enrichment | BMPR1A, PTPN11, SMAD4 | 1.97 |
| 142 | Thrombocytopenia | Enrichment | PTPN11, SMAD4 | 1.92 |
| 143 | Brachydactyly, type a2 | Enrichment | BMP2 | 1.86 |
| 144 | Polydactyly, preaxial ii | Enrichment | SHH | 1.86 |
| 145 | Schizencephaly | Enrichment | SHH | 1.86 |
| 146 | Chromosome 22q11.2 deletion syndrome, distal | Enrichment | MAPK1 | 1.86 |
| 147 | Pilomatrixoma | Enrichment | CTNNB1 | 1.86 |
| 148 | Alazami syndrome | Enrichment | CTNNB1 | 1.86 |
| 149 | Craniopharyngioma | Enrichment | CTNNB1 | 1.86 |
| 150 | Noonan syndrome-like disorder with or without juvenile myelomonocytic leukemia | Enrichment | PTPN11 | 1.86 |
| 151 | Noonan syndrome with multiple lentigines | Enrichment | PTPN11 | 1.86 |
| 152 | Hereditary progressive cardiac conduction defect | Enrichment | NKX2-5 | 1.86 |
| 153 | Mitral valve insufficiency | Enrichment | TBX5 | 1.86 |
| 154 | Transposition of the great arteries | Enrichment | GATA4 | 1.86 |
| 155 | Middle aortic syndrome | Enrichment | GATA6 | 1.86 |
| 156 | Kbg syndrome | Enrichment | TBX1 | 1.76 |
| 157 | Exudative vitreoretinopathy 1 | Enrichment | CTNNB1 | 1.76 |
| 158 | Atrioventricular septal defect | Enrichment | TBX5 | 1.76 |
| 159 | Lymphoma | Enrichment | PTPN11 | 1.76 |
| 160 | Holoprosencephaly | Enrichment | FGF8 | 1.76 |
| 161 | Juvenile glaucoma | Enrichment | FOXC1 | 1.76 |
| 162 | Aniridia | Enrichment | FOXC1 | 1.76 |
| 163 | Weyers acrofacial dysostosis | Enrichment | CTNNB1 | 1.69 |
| 164 | Holoprosencephaly 1 | Enrichment | FGF8 | 1.69 |
| 165 | Anterior segment dysgenesis 5 | Enrichment | BMP4 | 1.69 |
| 166 | Patent ductus arteriosus | Enrichment | PTPN11 | 1.69 |
| 167 | Adrenocortical carcinoma | Enrichment | CTNNB1 | 1.69 |
| 168 | Double outlet right ventricle | Enrichment | NKX2-5 | 1.69 |
| 169 | Hypothyroidism, congenital, nongoitrous, 2 | Enrichment | NKX2-5 | 1.62 |
| 170 | Noonan syndrome 3 | Enrichment | PTPN11 | 1.62 |
| 171 | Adams-oliver syndrome | Enrichment | NOTCH1 | 1.62 |
| 172 | Hereditary hemorrhagic telangiectasia | Enrichment | SMAD4 | 1.62 |
| 173 | Hemochromatosis, type 1 | Enrichment | BMP2 | 1.56 |
| 174 | Exudative vitreoretinopathy | Enrichment | CTNNB1 | 1.56 |
| 175 | Combined pituitary hormone deficiency | Enrichment | FOXA2 | 1.56 |
| 176 | Tooth agenesis, selective, 1 | Enrichment | BMPR2 | 1.51 |
| 177 | Orofacial cleft 1 | Enrichment | FGF10 | 1.51 |
| 178 | Adult hepatocellular carcinoma | Enrichment | CTNNB1 | 1.51 |
| 179 | Ventricular septal defect | Enrichment | TBX5 | 1.51 |
| 180 | Stickler syndrome | Enrichment | BMP4 | 1.47 |
| 181 | Colorectal cancer | Enrichment | CTNNB1, SMAD4 | 1.44 |
| 182 | Pectus excavatum | Enrichment | PTPN11 | 1.43 |
| 183 | Heritable pulmonary arterial hypertension | Enrichment | BMPR2 | 1.43 |
| 184 | Familial colorectal cancer type x | Enrichment | BMPR1A | 1.43 |
| 185 | Epicanthus | Enrichment | PTPN11 | 1.39 |
| 186 | Septooptic dysplasia | Enrichment | SHH | 1.39 |
| 187 | Digeorge syndrome | Enrichment | TBX1 | 1.39 |
| 188 | Juvenile myelomonocytic leukemia | Enrichment | PTPN11 | 1.39 |
| 189 | Renal hypodysplasia/aplasia 3 | Enrichment | BMP4 | 1.39 |
| 190 | Congenital long qt syndrome | Enrichment | PTPN11 | 1.39 |
| 191 | Diaphragmatic hernia, congenital | Enrichment | GATA6 | 1.36 |
| 192 | Pulmonary hypertension, primary, 1 | Enrichment | BMPR2 | 1.36 |
| 193 | Medulloblastoma | Enrichment | CTNNB1 | 1.32 |
| 194 | Lung cancer susceptibility 3 | Enrichment | FGF10 | 1.32 |
| 195 | Cleft lip/palate | Enrichment | BMP4 | 1.32 |
| 196 | 46,xy partial gonadal dysgenesis | Enrichment | GATA4 | 1.32 |
| 197 | Ovarian cancer | Enrichment | BMPR1A, CTNNB1 | 1.32 |
| 198 | Noonan syndrome and noonan-related syndrome | Enrichment | PTPN11 | 1.29 |
| 199 | Wolff-parkinson-white syndrome | Enrichment | TBX20 | 1.27 |
| 200 | Autism spectrum disorder | Enrichment | MEF2C, PTPN11 | 1.26 |
| 201 | Polycystic liver disease | Enrichment | CTNNB1 | 1.24 |
| 202 | Autosomal dominant polycystic liver disease | Enrichment | CTNNB1 | 1.24 |
| 203 | Normosmic congenital hypogonadotropic hypogonadism | Enrichment | FGF8 | 1.22 |
| 204 | Macs syndrome | Enrichment | SHH | 1.17 |
| 205 | Hepatoblastoma | Enrichment | CTNNB1 | 1.15 |
| 206 | Hepatocellular carcinoma | Enrichment | CTNNB1 | 1.13 |
| 207 | Noonan syndrome 1 | Enrichment | PTPN11 | 1.11 |
| 208 | Kallmann syndrome | Enrichment | FGF8 | 1.11 |
| 209 | Scoliosis | Enrichment | PTPN11 | 1.10 |
| 210 | Pancreatic cancer | Enrichment | SMAD4 | 1.08 |
| 211 | Rasopathy | Enrichment | PTPN11 | 1.06 |
| 212 | Strabismus | Enrichment | PTPN11 | 1.05 |
| 213 | Hirschsprung disease 1 | Enrichment | ERBB3 | 1.02 |
| 214 | Connective tissue disease | Enrichment | NOTCH1 | 0.98 |
| 215 | Cakut | Enrichment | FOXC1 | 0.95 |
| 216 | Gastric cancer | Enrichment | SMAD4 | 0.86 |
| 217 | Hypertrophic cardiomyopathy | Enrichment | PTPN11 | 0.86 |
| 218 | Familial isolated dilated cardiomyopathy | Enrichment | HAND2 | 0.77 |
| 219 | Frontotemporal dementia and/or amyotrophic lateral sclerosis 7 | Enrichment | MEF2C | 0.74 |
| 220 | Autism | Enrichment | SHH | 0.65 |
| 221 | Congenital nervous system abnormality | Enrichment | CTNNB1 | 0.51 |
| 222 | Nervous system disease | Enrichment | CTNNB1 | 0.51 |