Conotruncal heart malformations
disease diseaseOn this page
Also known as conotruncal cardiac defectsconotruncal heart malformations, variableCTHMTaussig-Bing syndrome or defect
Summary
Conotruncal heart malformations (MONDO:0016581) is a disease (an umbrella term covering 8 Mondo subtypes) caused by variants in NKX2-5 and TBX1, with 29 cohort genes (92 GWAS associations across 9 studies) and 3 clinical trials. The dominant Reactome pathway is Cardiogenesis (4 cohort genes). Top therapeutic interventions include calcium gluconate and sodium citrate.
At a glance
- Causal genes: NKX2-5 (GenCC Definitive), TBX1 (GenCC Definitive)
- Umbrella term: 8 Mondo subtypes
- Cohort genes: 29
- GWAS associations: 92
- ClinVar variants: 180
- Clinical trials: 3
Clinical features
No curated clinical features (Orphanet) for this disease.
Identifiers
Disease identifiers
| Field | Value |
|---|---|
| Canonical name | conotruncal heart malformations |
| Mondo ID | MONDO:0016581 |
| OMIM | 217095 |
| Orphanet | 2445 |
| SNOMED CT | 218728005 |
| UMLS | C1857586 |
| MedGen | 341803 |
| GARD | 0008189 |
| Is cancer (heuristic) | no |
Also known as: conotruncal cardiac defects · conotruncal heart malformations · conotruncal heart malformations, variable · CTHM · Taussig-Bing syndrome or defect
Data availability: 180 ClinVar variants · 92 GWAS associations (9 studies) · 8 GenCC gene-disease records.
Disease family
An umbrella term covering 8 Mondo subtypes.
Classification path: disease › human disease › disease by body system or component › cardiovascular disorder › congenital anomaly of cardiovascular system › congenital heart malformation › conotruncal heart malformations
Related subtypes (25): transposition of the great arteries, congenital left-sided heart lesions, interventricular septum aneurysm, congenital heart defects, multiple types, 2, coronary artery congenital malformation, criss-cross heart, triatrial heart, familial idiopathic dilatation of the right atrium, cardiac diverticulum, congenital mitral malformation, congenital pericardium anomaly, ectopia cordis, visceral heterotaxy, mesocardia, univentricular cardiopathy, congenital anomaly of the great arteries, Laubry-Pezzi syndrome, congenital Gerbode defect, juxtaposition of the atrial appendages, ectasia of the right atrial appendage, ectasia of the left appendage, atrial septal aneurysm, congenital acardia, congenital right-sided heart lesions, congenital heart defects, multiple types, 1, X-linked
Subtypes (8): pulmonary atresia with ventricular septal defect, tetralogy of fallot, abnormal origin of the pulmonary artery, congenital aortopulmonary window, persistent truncus arteriosus, double outlet right ventricle, double outlet left ventricle, pulmonary valve agenesis
Genetics & variants
GWAS landscape
92 GWAS associations across 9 studies. Top hits map to 30 distinct genes (as reported by GWAS).
Top associations by p-value
| rsID | p-value | Gene | Risk allele | Odds ratio |
|---|---|---|---|---|
| rs6886261 | 2e-07 | ANXA2R-OT1 | ? | 1.78 |
| rs55884872 | 2e-07 | TOX-DT - RNA5SP267 | ? | 1.2 |
| rs921541 | 2e-07 | INSYN1-AS1 - TBC1D21 | ? | |
| rs11017328 | 3e-07 | Y_RNA - MIR378C | ? | 2.87 |
| rs2517582 | 3e-07 | LINC02570 | ? | 1.17 |
| rs13353396 | 3e-07 | LINC01811 | ? | |
| rs74461473 | 4e-07 | SLC38A3 | ? | 1.25 |
| rs2108975 | 6e-07 | SHISA6 | ? | |
| rs13411840 | 6e-07 | ALK | ? | |
| rs839156 | 6e-07 | MGAT4C | ? | |
| rs13102150 | 6e-07 | INPP4B | ? | |
| rs6545278 | 8e-07 | GGCTP3 - CRTC1P1 | ? | 2.62 |
| rs17189763 | 8e-07 | SFTA2 - NAPGP2 | ? | 1.04 |
| rs78977294 | 8e-07 | LINC00536 | ? | |
| rs2813392 | 8e-07 | ADARB2 | ? | |
| rs1959122 | 9e-07 | RPL9P6 - EIF3LP1 | ? | 7.63 |
| rs2267386 | 1e-06 | KCNJ4 | ? | 3.12 |
| rs4366490 | 1e-06 | SLC22A24 - SLC22A25 | ? | 1.7 |
| rs6763159 | 1e-06 | CFAP20DC-DT | ? | 1.47 |
| rs6140038 | 1e-06 | CASC20 - LINC01713 | ? | 5.24 |
| rs146189703 | 1e-06 | ADAM29 - TSEN2P1 | ? | 1.01 |
| rs7024392 | 1e-06 | LINC03131 - JKAMPP1 | ? | 2.01 |
| rs7720206 | 1e-06 | ADGRV1 | ? | |
| rs6465387 | 1e-06 | CALCR | ? | |
| rs11012462 | 1e-06 | NEBL | ? | |
| rs6882380 | 1e-06 | ANXA2R-OT1 | ? | |
| rs6996802 | 1e-06 | RNU6-596P - RPL30P10 | ? | |
| rs3843430 | 1e-06 | LINC01182 | ? | |
| rs13177180 | 2e-06 | FEM1C - TICAM2 | ? | 1.28 |
| rs1217752 | 2e-06 | CARTPT - MAP1B | ? | 1.08 |
Top studies (by case count)
| Study | Lead author | Year | Cases | Controls | Title |
|---|---|---|---|---|---|
| GCST90026409 | Oluwafemi OO | 2021 | 913 | 0 | Genome-Wide Association Studies of Conotruncal Heart Defects with Normally Related Great Vessels in the United States. |
| GCST90570534 | Broberg M | 2024 | 404 | 392,942 | Genome-wide association studies highlight novel risk loci for septal defects and left-sided congenital heart defects. |
| GCST013176 | Agopian AJ | 2019 | 403 | 2,974 | X-chromosome association studies of congenital heart defects. |
| GCST90026410 | Oluwafemi OO | 2021 | 294 | 2,976 | Genome-Wide Association Studies of Conotruncal Heart Defects with Normally Related Great Vessels in the United States. |
| GCST90026411 | Oluwafemi OO | 2021 | 294 | 2,976 | Genome-Wide Association Studies of Conotruncal Heart Defects with Normally Related Great Vessels in the United States. |
| GCST013177 | Agopian AJ | 2019 | 0 | 0 | X-chromosome association studies of congenital heart defects. |
| GCST004720 | Agopian AJ | 2017 | 0 | 2,976 | Genome-Wide Association Studies and Meta-Analyses for Congenital Heart Defects. |
| GCST004723 | Agopian AJ | 2017 | 0 | 0 | Genome-Wide Association Studies and Meta-Analyses for Congenital Heart Defects. |
| GCST002438 | Agopian AJ | 2014 | 0 | 0 | Genome-wide association study of maternal and inherited loci for conotruncal heart defects. |
Variant details and genetic-evidence tiers
Tier distribution (top 50 variants)
| Tier | Variants |
|---|---|
| Tier 1: coding | 0 |
| Tier 2: splice/UTR | 0 |
| Tier 3: regulatory | 2 |
| Tier 4: intronic/intergenic | 48 |
MAF distribution
| Bucket | Variants |
|---|---|
| common (>=0.05) | 47 |
| low_freq (0.01-0.05) | 2 |
| rare (<0.01) | 0 |
| unknown | 1 |
Functional consequences
| Consequence | Count |
|---|---|
| intron_variant | 35 |
| intergenic_variant | 13 |
| regulatory_region_variant | 2 |
Top variants
| rsID | Chr | Pos | Alleles | MAF | Consequence | Gene | p-value | Tier |
|---|---|---|---|---|---|---|---|---|
| rs6886261 | 5 | 43022662 | T>C | 0.05 | intron_variant | ANXA2R-OT1 | 2e-07 | Tier 4: intronic/intergenic |
| rs55884872 | 8 | 59280255 | C>A,G | 0.05 | intron_variant | TOX-DT - RNA5SP267 | 2e-07 | Tier 4: intronic/intergenic |
| rs921541 | 15 | 73867762 | C>A,G,T | 0.05 | intergenic_variant | INSYN1-AS1 - TBC1D21 | 2e-07 | Tier 4: intronic/intergenic |
| rs11017328 | 10 | 130548836 | C>A,G,T | 0.05 | intergenic_variant | Y_RNA - MIR378C | 3e-07 | Tier 4: intronic/intergenic |
| rs2517582 | 6 | 30840985 | C>A,G,T | 0.05 | intron_variant | LINC02570 | 3e-07 | Tier 4: intronic/intergenic |
| rs13353396 | 3 | 34505673 | T>A,C,G | 0.05 | intron_variant | LINC01811 | 3e-07 | Tier 4: intronic/intergenic |
| rs74461473 | 3 | 50213314 | C>T | 0.05 | intron_variant | SLC38A3 | 4e-07 | Tier 4: intronic/intergenic |
| rs2108975 | 17 | 11317850 | C>A | 0.05 | intron_variant | SHISA6 | 6e-07 | Tier 4: intronic/intergenic |
| rs13411840 | 2 | 29750415 | A>C,T | 0.05 | intron_variant | ALK | 6e-07 | Tier 4: intronic/intergenic |
| rs839156 | 12 | 86201912 | A>C,G,T | 0.05 | intron_variant | MGAT4C | 6e-07 | Tier 4: intronic/intergenic |
| rs13102150 | 4 | 142548980 | C>A | 0.05 | intron_variant | INPP4B | 6e-07 | Tier 4: intronic/intergenic |
| rs6545278 | 2 | 52478914 | T>G | 0.05 | intergenic_variant | GGCTP3 - CRTC1P1 | 8e-07 | Tier 4: intronic/intergenic |
| rs17189763 | 6 | 30955750 | C>T | 0.05 | regulatory_region_variant | SFTA2 - NAPGP2 | 8e-07 | Tier 3: regulatory |
| rs78977294 | 8 | 116396904 | C>T | 0.05 | intergenic_variant | LINC00536 | 8e-07 | Tier 4: intronic/intergenic |
| rs2813392 | 10 | 1586710 | A>C,G | 0.05 | intron_variant | ADARB2 | 8e-07 | Tier 4: intronic/intergenic |
| rs1959122 | 14 | 81871321 | C>A,T | intron_variant | RPL9P6 - EIF3LP1 | 9e-07 | Tier 4: intronic/intergenic | |
| rs2267386 | 22 | 38436107 | G>A | 0.024 | intron_variant | KCNJ4 | 1e-06 | Tier 4: intronic/intergenic |
| rs4366490 | 11 | 63145382 | T>A,C | 0.05 | intergenic_variant | SLC22A24 - SLC22A25 | 1e-06 | Tier 4: intronic/intergenic |
| rs6763159 | 3 | 59663795 | T>C | 0.05 | intron_variant | CFAP20DC-DT | 1e-06 | Tier 4: intronic/intergenic |
| rs6140038 | 20 | 6601515 | C>A,T | 0.011 | intergenic_variant | CASC20 - LINC01713 | 1e-06 | Tier 4: intronic/intergenic |
| rs146189703 | 4 | 175023930 | T>A,C | 0.05 | intron_variant | ADAM29 - TSEN2P1 | 1e-06 | Tier 4: intronic/intergenic |
| rs7024392 | 9 | 12165298 | C>A,G,T | 0.05 | intergenic_variant | LINC03131 - JKAMPP1 | 1e-06 | Tier 4: intronic/intergenic |
| rs7720206 | 5 | 90772392 | C>G,T | 0.05 | intron_variant | ADGRV1 | 1e-06 | Tier 4: intronic/intergenic |
| rs6465387 | 7 | 93524748 | C>G,T | 0.05 | intron_variant | CALCR | 1e-06 | Tier 4: intronic/intergenic |
| rs11012462 | 10 | 20986424 | T>A,C | 0.05 | intron_variant | NEBL | 1e-06 | Tier 4: intronic/intergenic |
| rs6882380 | 5 | 42921599 | T>A | 0.05 | intron_variant | ANXA2R-OT1 | 1e-06 | Tier 4: intronic/intergenic |
| rs6996802 | 8 | 57380819 | T>C | 0.05 | intergenic_variant | RNU6-596P - RPL30P10 | 1e-06 | Tier 4: intronic/intergenic |
| rs3843430 | 4 | 14099649 | T>A,C | 0.05 | intron_variant | LINC01182 | 1e-06 | Tier 4: intronic/intergenic |
| rs13177180 | 5 | 115544896 | G>A,C,T | 0.05 | regulatory_region_variant | FEM1C - TICAM2 | 2e-06 | Tier 3: regulatory |
| rs1217752 | 5 | 71956619 | A>T | 0.05 | intron_variant | CARTPT - MAP1B | 2e-06 | Tier 4: intronic/intergenic |
ClinVar germline variants
180 retrieved; paginated sample, class counts are floors:
101 uncertain significance, 37 likely benign, 26 conflicting classifications of pathogenicity, 6 likely pathogenic, 3 benign, 3 benign/likely benign, 1 likely pathogenic; risk factor, 1 pathogenic/likely pathogenic, 1 not provided, 1 pathogenic
| ClinVar | Variant (HGVS) | Gene | Classification | Review |
|---|---|---|---|---|
| 2690915 | NM_005257.6(GATA6):c.729_730del (p.Gly244fs) | GATA6 | Pathogenic | criteria provided, single submitter |
| 159257 | NM_004387.4(NKX2-5):c.783del (p.Ala262fs) | NKX2-5 | Pathogenic/Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 3583188 | NM_005257.6(GATA6):c.1135+2T>C | GATA6 | Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 3899338 | NM_005257.6(GATA6):c.1135+1G>A | GATA6 | Likely pathogenic | criteria provided, single submitter |
| 1172828 | NM_001136271.3(NKX2-6):c.455dup (p.Gln153fs) | NKX2-6 | Likely pathogenic; risk factor | criteria provided, multiple submitters, no conflicts |
| 133345 | NM_001136271.3(NKX2-6):c.453_454insT (p.Lys152Ter) | NKX2-6 | Likely pathogenic | criteria provided, single submitter |
| 2432235 | NM_001136271.3(NKX2-6):c.568C>T (p.Gln190Ter) | NKX2-6 | Likely pathogenic | criteria provided, single submitter |
| 791 | NM_001136271.3(NKX2-6):c.451T>C (p.Phe151Leu) | NKX2-6 | Likely pathogenic | criteria provided, single submitter |
| 4075193 | NM_024665.7(TBL1XR1):c.1188_1205del (p.Ile397_Thr402del) | TBL1XR1 | Likely pathogenic | criteria provided, single submitter |
| 210542 | NM_153252.5(BRWD3):c.5101G>A (p.Gly1701Arg) | BRWD3 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 30210 | NM_005257.6(GATA6):c.551G>A (p.Ser184Asn) | GATA6 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 412726 | NM_005257.6(GATA6):c.1663C>G (p.Pro555Ala) | GATA6 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 999815 | NM_005257.6(GATA6):c.660C>T (p.Gly220=) | GATA6 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 424319 | NM_000214.3(JAG1):c.3467T>C (p.Val1156Ala) | JAG1 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 1019319 | NM_004387.4(NKX2-5):c.178G>C (p.Glu60Gln) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 1021433 | NM_004387.4(NKX2-5):c.169G>T (p.Ala57Ser) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 1377875 | NM_004387.4(NKX2-5):c.510G>C (p.Gln170His) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 1439076 | NM_004387.4(NKX2-5):c.370A>G (p.Lys124Glu) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 156161 | NM_004387.4(NKX2-5):c.809G>A (p.Cys270Tyr) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 372743 | NM_004387.4(NKX2-5):c.356C>A (p.Ala119Glu) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 392351 | NM_004387.4(NKX2-5):c.827C>G (p.Ala276Gly) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 505440 | NM_004387.4(NKX2-5):c.111G>A (p.Leu37=) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 850796 | NM_004387.4(NKX2-5):c.188C>T (p.Ala63Val) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 939551 | NM_004387.4(NKX2-5):c.387C>A (p.Asn129Lys) | NKX2-5 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 1311053 | NM_001136271.3(NKX2-6):c.368G>A (p.Arg123His) | NKX2-6 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 534674 | NM_001136271.3(NKX2-6):c.276G>A (p.Gln92=) | NKX2-6 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 1114796 | NM_001379200.1(TBX1):c.941G>A (p.Arg314Gln) | TBX1 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 1934268 | NM_001379200.1(TBX1):c.1004C>T (p.Ala335Val) | TBX1 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 2001091 | NM_001379200.1(TBX1):c.1342C>A (p.Pro448Thr) | TBX1 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 2086566 | NM_001379200.1(TBX1):c.170_229del (p.Pro57_Pro76del) | TBX1 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
Genes & proteins
Mendelian disease overlap and somatic drivers
GenCC: 51 · Orphanet: 51 · OMIM-shared: 0 · Dual-evidence (GWAS+Mendelian): 0
GenCC gene–disease validity (cohort genes)
the Disease column is the GenCC-asserted condition — a cohort gene’s strongest validity may be for a related predisposition syndrome.
| Gene | Classification | Inheritance | Disease | Records |
|---|---|---|---|---|
| GATA6 | Definitive | Autosomal dominant | pancreatic hypoplasia-diabetes-congenital heart disease syndrome | 16 |
| NKX2-5 | Definitive | Semidominant | conotruncal heart malformations | 17 |
| TBX1 | Definitive | Autosomal dominant | conotruncal heart malformations | 6 |
| GDF1 | Strong | Autosomal dominant | congenital heart defects, multiple types, 6 | 8 |
| NKX2-6 | Strong | Autosomal recessive | congenital heart disease | 4 |
Orphanet rare-disease linkage (cohort genes)
| Gene | Orphanet ID | Rare disease |
|---|---|---|
| TBX1 | Orphanet:1727 | 22q11.2 duplication syndrome |
| TBX1 | Orphanet:3303 | Tetralogy of Fallot |
| TBX1 | Orphanet:567 | 22q11.2 deletion syndrome |
| TBX1 | Orphanet:665044 | Common arterial trunk with aortic dominance |
| TBX1 | Orphanet:665058 | Common arterial trunk with pulmonary dominance and interrupted aortic arch |
| TBX1 | Orphanet:685017 | Combined immunodeficiency due to TBX1 deficiency |
| NKX2-5 | Orphanet:101351 | Familial isolated congenital asplenia |
| NKX2-5 | Orphanet:1479 | Atrial septal defect-atrioventricular conduction defects syndrome |
| NKX2-5 | Orphanet:1627 | Deletion 5q35 syndrome |
| NKX2-5 | Orphanet:2248 | Hypoplastic left heart syndrome |
| NKX2-5 | Orphanet:3303 | Tetralogy of Fallot |
| NKX2-5 | Orphanet:334 | Hereditary atrial fibrillation |
| NKX2-5 | Orphanet:402075 | Familial bicuspid aortic valve |
| NKX2-5 | Orphanet:871 | Hereditary progressive cardiac conduction defect |
| NKX2-5 | Orphanet:95712 | Thyroid ectopia |
| NKX2-5 | Orphanet:95713 | Athyreosis |
| NKX2-5 | Orphanet:99103 | Atrial septal defect, ostium secundum type |
| NKX2-6 | Orphanet:3303 | Tetralogy of Fallot |
| NKX2-6 | Orphanet:334 | Hereditary atrial fibrillation |
| NKX2-6 | Orphanet:3384 | Common arterial trunk |
| GATA6 | Orphanet:2140 | Congenital diaphragmatic hernia |
| GATA6 | Orphanet:2255 | Pancreatic hypoplasia-diabetes-congenital heart disease syndrome |
| GATA6 | Orphanet:3303 | Tetralogy of Fallot |
| GATA6 | Orphanet:334 | Hereditary atrial fibrillation |
| GATA6 | Orphanet:665044 | Common arterial trunk with aortic dominance |
| GATA6 | Orphanet:665058 | Common arterial trunk with pulmonary dominance and interrupted aortic arch |
| GATA6 | Orphanet:99067 | Complete atrioventricular septal defect with ventricular hypoplasia |
| GATA6 | Orphanet:99103 | Atrial septal defect, ostium secundum type |
| GDF1 | Orphanet:216718 | Isolated congenitally uncorrected transposition of the great arteries |
| GDF1 | Orphanet:3303 | Tetralogy of Fallot |
| GDF1 | Orphanet:97548 | Right isomerism |
| FOXP2 | Orphanet:209908 | Isolated childhood apraxia of speech |
| FOXP2 | Orphanet:251061 | 7q31 microdeletion syndrome |
| BRWD3 | Orphanet:528084 | Non-specific syndromic intellectual disability |
| SLC38A3 | Orphanet:442835 | Non-specific early-onset epileptic encephalopathy |
| SMCHD1 | Orphanet:2250 | Hyposmia-nasal and ocular hypoplasia-hypogonadotropic hypogonadism syndrome |
| SMCHD1 | Orphanet:269 | Facioscapulohumeral dystrophy |
| TBL1XR1 | Orphanet:487825 | Pierpont syndrome |
| TBL1XR1 | Orphanet:520 | Acute promyelocytic leukemia |
| FHIT | Orphanet:422526 | Hereditary clear cell renal cell carcinoma |
| GATA4 | Orphanet:251071 | 8p23.1 microdeletion syndrome |
| GATA4 | Orphanet:251510 | 46,XY partial gonadal dysgenesis |
| GATA4 | Orphanet:3303 | Tetralogy of Fallot |
| GATA4 | Orphanet:334 | Hereditary atrial fibrillation |
| GATA4 | Orphanet:576232 | Partial atrioventricular septal defect with ventricular hypoplasia |
| GATA4 | Orphanet:99067 | Complete atrioventricular septal defect with ventricular hypoplasia |
| GATA4 | Orphanet:99068 | Complete atrioventricular septal defect-tetralogy of Fallot |
| GATA4 | Orphanet:99103 | Atrial septal defect, ostium secundum type |
| JAG1 | Orphanet:261600 | Alagille syndrome due to 20p12 microdeletion |
| JAG1 | Orphanet:261619 | Alagille syndrome due to a JAG1 point mutation |
Cohort genes → proteins
29 cohort genes, 29 distinct canonical proteins.
Evidence partition
| Subset | Genes |
|---|---|
| gwas_only | 19 |
| multi_evidence | 10 |
Cohort genes (full)
| Symbol | HGNC | Ensembl | UniProt | Name | Evidence |
|---|---|---|---|---|---|
| TBX1 | HGNC:11592 | ENSG00000184058 | O43435 | T-box transcription factor TBX1 | gencc,clinvar |
| NKX2-5 | HGNC:2488 | ENSG00000183072 | P52952 | Homeobox protein Nkx-2.5 | gencc,clinvar |
| NKX2-6 | HGNC:32940 | ENSG00000180053 | A6NCS4 | Homeobox protein Nkx-2.6 | gencc,clinvar |
| GATA6 | HGNC:4174 | ENSG00000141448 | Q92908 | Transcription factor GATA-6 | gencc,clinvar |
| GDF1 | HGNC:4214 | ENSG00000130283 | P27539 | Embryonic growth/differentiation factor 1 | gencc |
| VARS1 | HGNC:12651 | ENSG00000204394 | P26640 | Valine–tRNA ligase | gwas |
| FOXP2 | HGNC:13875 | ENSG00000128573 | O15409 | Forkhead box protein P2 | gwas |
| ENTPD4 | HGNC:14573 | ENSG00000197217 | Q9Y227 | Ectonucleoside triphosphate diphosphohydrolase 4 | clinvar |
| SCHIP1 | HGNC:15678 | ENSG00000151967 | P0DPB3 | Schwannomin-interacting protein 1 | gwas |
| ZNF343 | HGNC:16017 | ENSG00000088876 | Q6P1L6 | Zinc finger protein 343 | gwas |
| FEM1C | HGNC:16933 | ENSG00000145780 | Q96JP0 | Protein fem-1 homolog C | gwas |
| BRWD3 | HGNC:17342 | ENSG00000165288 | Q6RI45 | Bromodomain and WD repeat-containing protein 3 | clinvar |
| SLC38A3 | HGNC:18044 | ENSG00000188338 | Q99624 | Sodium-coupled neutral amino acid transporter 3 | gwas |
| ATG2B | HGNC:20187 | ENSG00000066739 | Q96BY7 | Autophagy-related protein 2 homolog B | gwas |
| GSKIP | HGNC:20343 | ENSG00000100744 | Q9P0R6 | GSK3B-interacting protein | gwas |
| CTSG | HGNC:2532 | ENSG00000100448 | P08311 | Cathepsin G | gwas |
| SLC38A12 | HGNC:25984 | ENSG00000109066 | Q8NE00 | Putative sodium-coupled neutral amino acid transporter 12 | gwas |
| SLC22A24 | HGNC:28542 | ENSG00000197658 | Q8N4F4 | Steroid transmembrane transporter SLC22A24 | gwas |
| SMCHD1 | HGNC:29090 | ENSG00000101596 | A6NHR9 | Structural maintenance of chromosomes flexible hinge domain-containing protein 1 | gwas |
| KAZN | HGNC:29173 | ENSG00000189337 | Q674X7 | Kazrin | gwas |
| KLHL29 | HGNC:29404 | ENSG00000119771 | Q96CT2 | Kelch-like protein 29 | gwas |
| TBL1XR1 | HGNC:29529 | ENSG00000177565 | Q9BZK7 | F-box-like/WD repeat-containing protein TBL1XR1 | clinvar |
| IQCJ | HGNC:32406 | ENSG00000214216 | Q1A5X6 | IQ domain-containing protein J | gwas |
| FHIT | HGNC:3701 | ENSG00000189283 | P49789 | Bis(5’-adenosyl)-triphosphatase | gwas |
| GATA4 | HGNC:4173 | ENSG00000136574 | P43694 | Transcription factor GATA-4 | clinvar |
| GTF2H4 | HGNC:4658 | ENSG00000213780 | Q92759 | General transcription factor IIH subunit 4 | gwas |
| JAG1 | HGNC:6188 | ENSG00000101384 | P78504 | Protein jagged-1 | clinvar |
| KCNJ4 | HGNC:6265 | ENSG00000168135 | P48050 | Inward rectifier potassium channel 4 | gwas |
| PAPPA | HGNC:8602 | ENSG00000182752 | Q13219 | Pappalysin-1 | gwas |
Cohort function summary
Lead sentence per gene, UniProt-curated.
| Symbol | Protein name | Function (lead sentence) |
|---|---|---|
| TBX1 | T-box transcription factor TBX1 | Transcription factor that plays a key role in cardiovascular development by promoting pharyngeal arch segmentation during embryonic development. |
| NKX2-5 | Homeobox protein Nkx-2.5 | Transcription factor required for the development of the heart and the spleen. |
| NKX2-6 | Homeobox protein Nkx-2.6 | Acts as a transcriptional activator. |
| GATA6 | Transcription factor GATA-6 | Transcriptional activator. |
| GDF1 | Embryonic growth/differentiation factor 1 | May mediate cell differentiation events during embryonic development. |
| VARS1 | Valine–tRNA ligase | Catalyzes the attachment of valine to tRNA(Val). |
| FOXP2 | Forkhead box protein P2 | Transcriptional repressor that may play a role in the specification and differentiation of lung epithelium. |
| ENTPD4 | Ectonucleoside triphosphate diphosphohydrolase 4 | Catalyzes the hydrolysis of nucleoside triphosphates and diphosphates in a calcium- or magnesium-dependent manner, with a preference for pyrimidines. |
| ZNF343 | Zinc finger protein 343 | May be involved in transcriptional regulation. |
| FEM1C | Protein fem-1 homolog C | Substrate-recognition component of a Cul2-RING (CRL2) E3 ubiquitin-protein ligase complex of the DesCEND (destruction via C-end degrons) pathway, which recognizes a C-degron located at the extreme C terminus of target proteins, leading to… |
| BRWD3 | Bromodomain and WD repeat-containing protein 3 | Plays a role in the regulation of cell morphology and cytoskeletal organization. |
| SLC38A3 | Sodium-coupled neutral amino acid transporter 3 | Symporter that cotransports specific neutral amino acids and sodium ions, coupled to an H(+) antiporter activity. |
| ATG2B | Autophagy-related protein 2 homolog B | Lipid transfer protein required for both autophagosome formation and regulation of lipid droplet morphology and dispersion. |
| GSKIP | GSK3B-interacting protein | A-kinase anchoring protein for GSK3B and PKA that regulates or facilitates their kinase activity towards their targets. |
| CTSG | Cathepsin G | Serine protease with trypsin- and chymotrypsin-like specificity. |
| SLC22A24 | Steroid transmembrane transporter SLC22A24 | Renal transmembrane organic anion/dicarboxylate exchanger that participates in the reabsorption of conjugated steroids including estradiol-17beta-D-glucuronide (or 17beta-estradiol 17-O-(beta-D-glucuronate)), androstanediol glucuronide (or… |
| SMCHD1 | Structural maintenance of chromosomes flexible hinge domain-containing protein 1 | Non-canonical member of the structural maintenance of chromosomes (SMC) protein family that plays a key role in epigenetic silencing by regulating chromatin architecture. |
| KAZN | Kazrin | Component of the cornified envelope of keratinocytes. |
| TBL1XR1 | F-box-like/WD repeat-containing protein TBL1XR1 | F-box-like protein involved in the recruitment of the ubiquitin/19S proteasome complex to nuclear receptor-regulated transcription units. |
| FHIT | Bis(5’-adenosyl)-triphosphatase | Possesses dinucleoside triphosphate hydrolase activity. |
| GATA4 | Transcription factor GATA-4 | Transcriptional activator that binds to the consensus sequence 5’-AGATAG-3’ and plays a key role in cardiac development and function. |
| GTF2H4 | General transcription factor IIH subunit 4 | Component of the general transcription and DNA repair factor IIH (TFIIH) core complex, which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA and, when complexed to CAK, in RNA transcription… |
| JAG1 | Protein jagged-1 | Ligand for multiple Notch receptors and involved in the mediation of Notch signaling. |
| KCNJ4 | Inward rectifier potassium channel 4 | Inward rectifier potassium channels are characterized by a greater tendency to allow potassium to flow into the cell rather than out of it. |
| PAPPA | Pappalysin-1 | Metalloproteinase which specifically cleaves IGFBP-4 and IGFBP-5, resulting in release of bound IGF. |
Protein-family classification
Druggable: 6 · Difficult: 10 · Unknown: 13 · Druggable fraction: 0.21
Family distribution
Cohort families vs a genome-wide background (hypergeometric, BH-FDR; fold = observed/expected). Counts kept; sorted by enrichment, so the catch-all Other/Unknown bucket no longer leads.
| Family | Genes | Fold | FDR |
|---|---|---|---|
| Transcription factor | 7 | 2.0× | 0.376 |
| Ion channel | 1 | 3.9× | 0.410 |
| Protease | 2 | 2.5× | 0.410 |
| Scaffold/PPI | 3 | 1.8× | 0.410 |
| Transporter | 1 | 2.7× | 0.438 |
| Enzyme (other) | 2 | 0.8× | 0.827 |
| Other/Unknown | 13 | 0.8× | 0.916 |
Per-gene assignment
| Symbol | Family | Druggable? | EC | InterPro (top 3) |
|---|---|---|---|---|
| TBX1 | Transcription factor | no | TF_T-box, p53-like_TF_DNA-bd_sf, TF_T-box_CS | |
| NKX2-5 | Transcription factor | no | HD, Homeodomain-like_sf, Homeobox_CS | |
| NKX2-6 | Transcription factor | no | HD, Homeodomain-like_sf, Homeobox_CS | |
| GATA6 | Transcription factor | no | Znf_GATA, GATA_N, Znf_NHR/GATA | |
| GDF1 | Other/Unknown | no | TGF-b_C, TGF-beta-like, TGFb_CS | |
| VARS1 | Enzyme (other) | yes | 6.1.1.9 | aa-tRNA-synth_I_CS, aa-tRNA-synth_Ia, Valyl-tRNA_ligase |
| FOXP2 | Transcription factor | no | Fork_head_dom, TF_fork_head_CS_2, FOXP-CC | |
| ENTPD4 | Other/Unknown | no | GDA1_CD39_NTPase | |
| SCHIP1 | Other/Unknown | no | SCHIP_1_C, SCHIP_1 | |
| ZNF343 | Transcription factor | no | KRAB, Znf_C2H2_type, KRAB_dom_sf | |
| FEM1C | Scaffold/PPI | no | Ankyrin_rpt, TPR-like_helical_dom_sf, Ankyrin_rpt-contain_sf | |
| BRWD3 | Scaffold/PPI | no | Bromodomain, WD40_rpt, WD40/YVTN_repeat-like_dom_sf | |
| SLC38A3 | Other/Unknown | no | AA_transpt_TM | |
| ATG2B | Other/Unknown | no | ATG2 | |
| GSKIP | Other/Unknown | no | GSKIP_dom, GSKIP_dom_sf, GSKIP | |
| CTSG | Protease | yes | 3.4.21.20 | Trypsin_dom, Peptidase_S1A, Peptidase_S1_PA |
| SLC38A12 | Other/Unknown | no | AA_transpt_TM | |
| SLC22A24 | Transporter | yes | MFS_sugar_transport-like, MFS_dom, MFS_trans_sf | |
| SMCHD1 | Other/Unknown | no | SMC_hinge, SMC_hinge_sf, HATPase_C_sf | |
| KAZN | Other/Unknown | no | SAM, SAM/pointed_sf, Kazrin_SAM_rpt_1 | |
| KLHL29 | Other/Unknown | no | BTB/POZ_dom, Kelch_1, SKP1/BTB/POZ_sf | |
| TBL1XR1 | Scaffold/PPI | no | WD40_rpt, LisH, WD40/YVTN_repeat-like_dom_sf | |
| IQCJ | Other/Unknown | no | IQCJ-SCHIP1_N, IQ_domain_protein | |
| FHIT | Enzyme (other) | yes | 3.6.1.29 | HIT-like, Histidine_triad_CS, HIT-like_sf |
| GATA4 | Transcription factor | no | Znf_GATA, GATA_N, Znf_NHR/GATA | |
| GTF2H4 | Other/Unknown | no | TFIIH_p52/Tfb2, Tfb2_C | |
| JAG1 | Other/Unknown | no | EGF-type_Asp/Asn_hydroxyl_site, EGF, VWF_dom | |
| KCNJ4 | Ion channel | yes | K_chnl_inward-rec_Kir2.3, K_chnl_inward-rec_Kir_cyto, Ig_E-set | |
| PAPPA | Protease | yes | 3.4.24.79 | Sushi_SCR_CCP_dom, Notch_dom, LamG-like |
Expression context
Cohort genes with no expression data: 0.
24 cohort genes are a single-cell marker in ≥1 SCXA experiment.
Breadth distribution (Bgee present_calls)
| Bucket | Genes |
|---|---|
| narrow (1-5 tissues) | 0 |
| moderate (6-20) | 2 |
| broad (>20) | 27 |
| unknown | 0 |
Top tissues across cohort
| Tissue | Cohort genes |
|---|---|
| middle temporal gyrus | 4 |
| calcaneal tendon | 4 |
| right atrium auricular region | 3 |
| buccal mucosa cell | 3 |
| tibia | 3 |
| hindlimb stylopod muscle | 2 |
| jejunal mucosa | 2 |
| sural nerve | 2 |
| tibialis anterior | 2 |
| Brodmann (1909) area 23 | 2 |
| secondary oocyte | 2 |
| sperm | 2 |
| right lobe of liver | 2 |
| upper leg skin | 2 |
| gastrocnemius | 1 |
| muscle of leg | 1 |
| apex of heart | 1 |
| cardiac atrium | 1 |
| minor salivary gland | 1 |
| saliva-secreting gland | 1 |
Per-gene tissue summary (top 30)
| Symbol | Bgee breadth | FANTOM5 breadth | SCXA | Top tissues |
|---|---|---|---|---|
| TBX1 | 220 | broad | marker | hindlimb stylopod muscle, gastrocnemius, muscle of leg |
| NKX2-5 | 98 | broad | yes | apex of heart, right atrium auricular region, cardiac atrium |
| NKX2-6 | 13 | tissue_specific | yes | right atrium auricular region, minor salivary gland, saliva-secreting gland |
| GATA6 | 204 | ubiquitous | marker | germinal epithelium of ovary, parietal pleura, jejunal mucosa |
| GDF1 | 34 | ubiquitous | yes | primary visual cortex, sural nerve, superior frontal gyrus |
| VARS1 | 134 | ubiquitous | marker | right testis, left testis, testis |
| FOXP2 | 237 | broad | marker | buccal mucosa cell, tibialis anterior, mucosa of paranasal sinus |
| ENTPD4 | 291 | ubiquitous | marker | Brodmann (1909) area 23, middle temporal gyrus, tibia |
| SCHIP1 | 133 | ubiquitous | marker | ventricular zone, prefrontal cortex, Brodmann (1909) area 9 |
| ZNF343 | 206 | ubiquitous | marker | tibialis anterior, secondary oocyte, calcaneal tendon |
| FEM1C | 259 | ubiquitous | marker | sperm, male germ cell, skeletal muscle tissue of biceps brachii |
| BRWD3 | 223 | ubiquitous | marker | tendon of biceps brachii, epithelial cell of pancreas, calcaneal tendon |
| SLC38A3 | 164 | broad | marker | right lobe of liver, hindlimb stylopod muscle, liver |
| ATG2B | 282 | ubiquitous | marker | Brodmann (1909) area 23, middle temporal gyrus, sperm |
| GSKIP | 255 | ubiquitous | marker | secondary oocyte, ileal mucosa, jejunal mucosa |
| CTSG | 194 | broad | marker | trabecular bone tissue, bone marrow cell, bone marrow |
| SLC38A12 | 211 | ubiquitous | marker | stromal cell of endometrium, granulocyte, monocyte |
| SLC22A24 | 11 | marker | buccal mucosa cell, adult mammalian kidney, upper leg skin | |
| SMCHD1 | 290 | ubiquitous | marker | calcaneal tendon, colonic epithelium, blood |
| KAZN | 277 | ubiquitous | marker | cerebellar vermis, inferior vagus X ganglion, esophagus squamous epithelium |
| KLHL29 | 256 | ubiquitous | marker | tibia, middle temporal gyrus, sural nerve |
| TBL1XR1 | 284 | ubiquitous | marker | calcaneal tendon, nipple, tibia |
| IQCJ | 46 | tissue_specific | marker | male germ line stem cell (sensu Vertebrata) in testis, primordial germ cell in gonad, corpus callosum |
| FHIT | 188 | ubiquitous | marker | right adrenal gland, right adrenal gland cortex, left adrenal gland cortex |
| GATA4 | 85 | broad | marker | right atrium auricular region, heart left ventricle, duodenum |
| GTF2H4 | 139 | ubiquitous | yes | right lobe of liver, pituitary gland, metanephros cortex |
| JAG1 | 297 | ubiquitous | marker | upper leg skin, skin of hip, blood vessel layer |
| KCNJ4 | 119 | yes | endothelial cell, middle temporal gyrus, Brodmann (1909) area 10 | |
| PAPPA | 244 | broad | marker | decidua, placenta, buccal mucosa cell |
Protein interactions among cohort
Intra-cohort edges: 7.
Hub genes (top 10 by interactor count)
| Symbol | Interactor count |
|---|---|
| VARS1 | 5,848 |
| GATA4 | 4,994 |
| JAG1 | 4,405 |
| TBL1XR1 | 4,066 |
| BRWD3 | 2,714 |
| FOXP2 | 2,557 |
| CTSG | 2,478 |
| NKX2-5 | 2,355 |
| KCNJ4 | 1,894 |
| SMCHD1 | 1,888 |
Intra-cohort edges
| A | B | Sources |
|---|---|---|
| ATG2B | GSKIP | string_interaction |
| GATA4 | NKX2-5 | biogrid_interaction, intact, string_interaction |
| GATA4 | NKX2-6 | string_interaction |
| GDF1 | NKX2-6 | string_interaction |
| NKX2-5 | TBX1 | string_interaction |
| NKX2-6 | TBX1 | string_interaction |
| SLC22A24 | ZNF343 | string_interaction |
Structural data
PDB: 15 · AlphaFold-only: 14 · No structure: 0
Cohort genes with PDB structures (top 30)
| Symbol | UniProt | PDB entries |
|---|---|---|
| GTF2H4 | Q92759 | 51 |
| CTSG | P08311 | 16 |
| FEM1C | Q96JP0 | 12 |
| FHIT | P49789 | 9 |
| PAPPA | Q13219 | 8 |
| JAG1 | P78504 | 7 |
| NKX2-5 | P52952 | 4 |
| GATA4 | P43694 | 3 |
| FOXP2 | O15409 | 2 |
| TBX1 | O43435 | 1 |
| ENTPD4 | Q9Y227 | 1 |
| GSKIP | Q9P0R6 | 1 |
| SMCHD1 | A6NHR9 | 1 |
| TBL1XR1 | Q9BZK7 | 1 |
| KCNJ4 | P48050 | 1 |
AlphaFold-only cohort genes (top 30 by pLDDT)
| Symbol | UniProt | pLDDT |
|---|---|---|
| VARS1 | P26640 | 88.12 |
| SLC22A24 | Q8N4F4 | 87.62 |
| SLC38A12 | Q8NE00 | 81.33 |
| SLC38A3 | Q99624 | 78.62 |
| GDF1 | P27539 | 74.44 |
| KLHL29 | Q96CT2 | 71.27 |
| KAZN | Q674X7 | 71.09 |
| ZNF343 | Q6P1L6 | 67.58 |
| ATG2B | Q96BY7 | 65.72 |
| BRWD3 | Q6RI45 | 65.11 |
| NKX2-6 | A6NCS4 | 64.31 |
| SCHIP1 | P0DPB3 | 61.13 |
| GATA6 | Q92908 | 53.48 |
| IQCJ | Q1A5X6 | 49.01 |
Function
Pathway analysis
Distinct Reactome pathways touched by cohort: 186. Enrichment computed across 29 evidence-associated genes (18 with Reactome annotation).
Pathways by enrichment
Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 18 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.
| Pathway | Cohort genes | Fold | FDR | Sample cohort genes |
|---|---|---|---|---|
| Cardiogenesis | 4 | 94.0× | 1e-05 | TBX1, NKX2-5, GATA6, GATA4 |
| YAP1- and WWTR1 (TAZ)-stimulated gene expression | 2 | 84.6× | 0.015 | NKX2-5, GATA4 |
| Formation of definitive endoderm | 2 | 79.3× | 0.015 | GATA6, GATA4 |
| Physiological factors | 2 | 74.6× | 0.015 | NKX2-5, GATA4 |
| Developmental Lineage of Multipotent Pancreatic Progenitor Cells | 2 | 66.8× | 0.015 | GATA6, GATA4 |
| Signaling by NOTCH1 PEST Domain Mutants in Cancer | 2 | 45.3× | 0.020 | TBL1XR1, JAG1 |
| Signaling by NOTCH1 in Cancer | 2 | 45.3× | 0.020 | TBL1XR1, JAG1 |
| Signaling by NOTCH1 HD+PEST Domain Mutants in Cancer | 2 | 45.3× | 0.020 | TBL1XR1, JAG1 |
| Signaling by NOTCH1 | 2 | 39.6× | 0.023 | TBL1XR1, JAG1 |
| Constitutive Signaling by NOTCH1 PEST Domain Mutants | 2 | 21.9× | 0.062 | TBL1XR1, JAG1 |
| Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants | 2 | 21.9× | 0.062 | TBL1XR1, JAG1 |
| Signaling by NOTCH | 2 | 19.5× | 0.071 | TBL1XR1, JAG1 |
| Classical Kir channels | 1 | 158.6× | 0.084 | KCNJ4 |
| Signaling by NOTCH1 t(7;9)(NOTCH1:M1580_K2555) Translocation Mutant | 1 | 158.6× | 0.084 | JAG1 |
| Formation of lateral plate mesoderm | 1 | 126.9× | 0.097 | GATA4 |
| Constitutive Signaling by NOTCH1 t(7;9)(NOTCH1:M1580_K2555) Translocation Mutant | 1 | 90.6× | 0.097 | JAG1 |
| Loss of MECP2 binding ability to the NCoR/SMRT complex | 1 | 90.6× | 0.097 | TBL1XR1 |
| Suppression of apoptosis | 1 | 90.6× | 0.097 | CTSG |
| Phosphate bond hydrolysis by NTPDase proteins | 1 | 79.3× | 0.097 | ENTPD4 |
| Loss of function of MECP2 in Rett syndrome | 1 | 79.3× | 0.097 | TBL1XR1 |
| Pervasive developmental disorders | 1 | 79.3× | 0.097 | TBL1XR1 |
| Response of Mtb to phagocytosis | 1 | 79.3× | 0.097 | CTSG |
| Disorders of Developmental Biology | 1 | 79.3× | 0.097 | TBL1XR1 |
| Disorders of Nervous System Development | 1 | 79.3× | 0.097 | TBL1XR1 |
| Signaling by NOTCH1 HD Domain Mutants in Cancer | 1 | 70.5× | 0.097 | JAG1 |
| Interleukin-1 processing | 1 | 70.5× | 0.097 | CTSG |
| G protein gated Potassium channels | 1 | 63.4× | 0.097 | KCNJ4 |
| POU5F1 (OCT4), SOX2, NANOG repress genes related to differentiation | 1 | 63.4× | 0.097 | GATA6 |
| Infection with Mycobacterium tuberculosis | 1 | 63.4× | 0.097 | CTSG |
| Cell recruitment (pro-inflammatory response) | 1 | 63.4× | 0.097 | CTSG |
GO biological processes by enrichment
Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 27 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.
| GO term | Cohort genes | Fold | FDR | Sample cohort genes |
|---|---|---|---|---|
| atrioventricular node development | 3 | 312.1× | 2e-05 | NKX2-5, GATA6, GATA4 |
| atrial cardiac muscle cell development | 2 | 416.1× | 8e-04 | NKX2-5, NKX2-6 |
| pharyngeal system development | 3 | 89.2× | 8e-04 | TBX1, NKX2-5, NKX2-6 |
| outflow tract septum morphogenesis | 3 | 72.0× | 8e-04 | TBX1, NKX2-5, GATA6 |
| epithelial cell differentiation | 4 | 26.0× | 0.001 | TBX1, NKX2-5, NKX2-6, GATA6 |
| aortic valve morphogenesis | 3 | 48.0× | 0.002 | NKX2-5, GATA4, JAG1 |
| atrioventricular canal development | 2 | 113.5× | 0.005 | GATA6, GATA4 |
| ventricular cardiac muscle cell development | 2 | 113.5× | 0.005 | NKX2-5, NKX2-6 |
| intestinal epithelial cell differentiation | 2 | 113.5× | 0.005 | GATA6, GATA4 |
| cardiac right ventricle morphogenesis | 2 | 104.0× | 0.005 | GATA4, JAG1 |
| atrial septum morphogenesis | 2 | 96.0× | 0.005 | NKX2-5, GATA4 |
| cardiac septum morphogenesis | 2 | 89.2× | 0.005 | NKX2-5, JAG1 |
| negative regulation of epithelial cell apoptotic process | 2 | 89.2× | 0.005 | NKX2-5, NKX2-6 |
| positive regulation of epithelial cell proliferation | 3 | 27.1× | 0.005 | TBX1, NKX2-5, NKX2-6 |
| positive regulation of transcription by RNA polymerase II | 8 | 4.4× | 0.006 | TBX1, NKX2-5, NKX2-6, GATA6, SLC38A3, TBL1XR1, GATA4, JAG1 |
| aorta morphogenesis | 2 | 65.7× | 0.008 | TBX1, JAG1 |
| epithelial cell apoptotic process | 2 | 62.4× | 0.009 | NKX2-5, NKX2-6 |
| embryonic heart tube development | 2 | 56.7× | 0.010 | NKX2-5, NKX2-6 |
| Purkinje myocyte differentiation | 1 | 624.1× | 0.013 | NKX2-5 |
| septum secundum development | 1 | 624.1× | 0.013 | NKX2-5 |
| diadenosine triphosphate catabolic process | 1 | 624.1× | 0.013 | FHIT |
| caudate nucleus development | 1 | 624.1× | 0.013 | FOXP2 |
| putamen development | 1 | 624.1× | 0.013 | FOXP2 |
| negative regulation of transforming growth factor beta2 production | 1 | 624.1× | 0.013 | GATA6 |
| tube morphogenesis | 1 | 624.1× | 0.013 | GATA6 |
| sterol transmembrane transport | 1 | 624.1× | 0.013 | SLC22A24 |
| endocardial cushion cell development | 1 | 624.1× | 0.013 | JAG1 |
| regulation of transmembrane receptor protein serine/threonine kinase signaling pathway | 1 | 624.1× | 0.013 | GDF1 |
| biofilm matrix disassembly | 1 | 624.1× | 0.013 | CTSG |
| L-asparagine import across plasma membrane | 1 | 624.1× | 0.013 | SLC38A3 |
Therapeutics
Drug target analysis
Approved (phase 4): 1 · Phase ≥3: 2 · Phased (≥1): 3 · Undrugged: 26
Druggability breadth: 11 of 29 evidence-associated genes (38%) have a ChEMBL target (buckets above are over the deeply-mined display cohort).
Genes with an approved drug
The molecule shown is one approved compound that hits the gene — not necessarily a drug of choice or one indicated for this disease.
| Symbol | Example approved molecule |
|---|---|
| CTSG | BORTEZOMIB |
Top cohort targets by molecule count
| Symbol | Molecules | Max phase |
|---|---|---|
| CTSG | 5 | 4 |
| SMCHD1 | 1 | 2 |
| FHIT | 1 | 3 |
| TBX1 | 0 | 0 |
| NKX2-5 | 0 | 0 |
| NKX2-6 | 0 | 0 |
| GATA6 | 0 | 0 |
| GDF1 | 0 | 0 |
| VARS1 | 0 | 0 |
| FOXP2 | 0 | 0 |
Drugs targeting cohort genes (top 30)
| Molecule | Max phase | Targets in cohort |
|---|---|---|
| BORTEZOMIB | 4 | CTSG |
| TRIAMTERENE | 4 | CTSG |
| SURAMIN | 3 | FHIT |
| DELANZOMIB | 2 | CTSG |
| FULACIMSTAT | 2 | CTSG |
| ALOXISTATIN | 2 | CTSG |
| MOLIBRESIB | 2 | SMCHD1 |
Bioactivity and enzyme data
Enzyme cohort genes (≥1 EC): 4.
Cohort genes with ChEMBL bioactivity (full, sorted by assay count)
| Symbol | Assays | Type breakdown |
|---|---|---|
| CTSG | 160 | Binding:155, ADMET:4, Toxicity:1 |
| FHIT | 21 | Binding:19, ADMET:2 |
| VARS1 | 7 | Binding:7 |
| SMCHD1 | 7 | Binding:7 |
| KCNJ4 | 7 | Binding:7 |
| BRWD3 | 5 | Binding:5 |
| GATA4 | 5 | Binding:5 |
| TBL1XR1 | 2 | Binding:2 |
| ENTPD4 | 1 | ADMET:1 |
| GSKIP | 1 | Binding:1 |
| JAG1 | 1 | Binding:1 |
Cohort enzymes (BRENDA EC)
| Symbol | EC numbers | Names |
|---|---|---|
| VARS1 | 6.1.1.9 | valine-tRNA ligase |
| CTSG | 3.4.21.20 | cathepsin G |
| FHIT | 3.6.1.29 | bis(5’-adenosyl)-triphosphatase |
| PAPPA | 3.4.24.79 | pappalysin-1 |
Cohort genes with high screening signal
≥100 ChEMBL assays — a studied-ness signal; see Therapeutics for approved-drug status.
| Symbol | ChEMBL assays |
|---|---|
| CTSG | 160 |
Pharmacogenomics
Cohort genes with a PharmGKB record: 29; with CPIC/DPWG dosing guidelines: 0.
No cohort gene has a CPIC/DPWG genotype-guided dosing guideline (PharmGKB).
Chemical tractability of cohort targets
7 approved/phased compounds have measured bioactivity against a cohort gene (and aren’t yet in disease-level trials). This is a research / tractability signal, NOT a therapeutic recommendation — a bioactivity row often reflects off-target or screening binding (e.g. promiscuous kinase inhibitors against a cohort kinase), implying no disease mechanism.
| Compound | Max phase | Cohort target (bioactivity) |
|---|---|---|
| BORTEZOMIB | 4 | CTSG |
| TRIAMTERENE | 4 | CTSG |
| SURAMIN | 3 | FHIT |
| DELANZOMIB | 2 | CTSG |
| FULACIMSTAT | 2 | CTSG |
| ALOXISTATIN | 2 | CTSG |
| MOLIBRESIB | 2 | SMCHD1 |
Druggability pyramid
Cohort genes binned by druggability tier (high → low):
| Tier | Definition | Genes | Symbols |
|---|---|---|---|
| A | Approved (phase 4 drug) | 1 | CTSG |
| B | Phased (≥1) drug, not yet approved | 2 | SMCHD1, FHIT |
| C | Druggable family + PDB, no drug | 2 | KCNJ4, PAPPA |
| D | Druggable family + AlphaFold only, no drug | 2 | VARS1, SLC22A24 |
| E | Difficult family or no structure, no drug | 22 | TBX1, NKX2-5, NKX2-6, GATA6, GDF1, FOXP2, ENTPD4, SCHIP1, ZNF343, FEM1C (+12 more) |
Undrugged target profiles
26 cohort genes are undrugged. Ranked by ‘starting-point quality’ (assay depth + drugged-partner adjacency).
| Symbol | ChEMBL assays | Drugged partners (top 3) |
|---|---|---|
| TBX1 | 0 | — |
| NKX2-5 | 0 | — |
| NKX2-6 | 0 | — |
| GATA6 | 0 | — |
| GDF1 | 0 | — |
| VARS1 | 7 | — |
| FOXP2 | 0 | — |
| ENTPD4 | 1 | — |
| SCHIP1 | 0 | — |
| ZNF343 | 0 | — |
| FEM1C | 0 | — |
| BRWD3 | 5 | — |
| SLC38A3 | 0 | — |
| ATG2B | 0 | — |
| GSKIP | 1 | — |
| SLC38A12 | 0 | — |
| SLC22A24 | 0 | — |
| KAZN | 0 | — |
| KLHL29 | 0 | — |
| TBL1XR1 | 2 | — |
| IQCJ | 0 | — |
| GATA4 | 5 | — |
| GTF2H4 | 0 | — |
| JAG1 | 1 | — |
| KCNJ4 | 7 | — |
| PAPPA | 0 | — |
Clinical trials & evidence
Clinical trials
Clinical trials: 3.
Phase distribution (across all retrieved trials)
| Phase | Trials |
|---|---|
| Not specified | 3 |
Top trials by phase / activity
| NCT | Phase | Status | Title |
|---|---|---|---|
| NCT00004361 | Not specified | COMPLETED | Study of the Relationship Between Calcium Levels and Intact Parathyroid Hormone (iPTH) in Adults With Repaired or Palliated Conotruncal Cardiac Defects |
| NCT00005102 | Not specified | UNKNOWN | Immunologic Evaluation in Patients With DiGeorge Syndrome or Velocardiofacial Syndrome |
| NCT01460316 | Not specified | COMPLETED | Conotruncal Cardiac Defects and Nutrigenetic Etiopathogeny |
Drugs tested across these trials (top 30)
| Molecule | Max phase | Trials referencing |
|---|---|---|
| CALCIUM GLUCONATE | 4 | 1 |
| SODIUM CITRATE | 4 | 1 |