Costello syndrome
diseaseOn this page
Also known as congenital myopathy with excess of muscle spindlesCSTLOfaciocutaneoskeletal syndromeFCS syndrome
Summary
Costello syndrome (MONDO:0009026) is a disease caused by HRAS (GenCC Definitive), with 13 cohort genes and 8 clinical trials. The dominant Reactome pathway is RAF activation (7 cohort genes).
At a glance
- Prevalence: <1 / 1 000 000 (Worldwide) [Orphanet-validated]
- Causal gene: HRAS (GenCC Definitive)
- Cohort genes: 13
- ClinVar variants: 597
- Phenotypes (HPO): 55
- Clinical trials: 8
Clinical features
Epidemiology
Prevalence records
3 prevalence record(s), Orphanet:
| Type | Class | Value | Geography | Validation |
|---|---|---|---|---|
| Cases/families | 300 | Worldwide | Validated | |
| Point prevalence | <1 / 1 000 000 | Worldwide | Validated | |
| Point prevalence | <1 / 1 000 000 | 0.08 | Japan | Validated |
Signs & symptoms
Clinical features (HPO)
55 HPO clinical features (Orphanet curated; top 50 by frequency):
| HPO ID | Term | Frequency |
|---|---|---|
| HP:0000189 | Narrow palate | Very frequent (80-99%) |
| HP:0000256 | Macrocephaly | Very frequent (80-99%) |
| HP:0000470 | Short neck | Very frequent (80-99%) |
| HP:0000508 | Ptosis | Very frequent (80-99%) |
| HP:0000951 | Abnormality of the skin | Very frequent (80-99%) |
| HP:0000956 | Acanthosis nigricans | Very frequent (80-99%) |
| HP:0000962 | Hyperkeratosis | Very frequent (80-99%) |
| HP:0001231 | Abnormal fingernail morphology | Very frequent (80-99%) |
| HP:0001531 | Failure to thrive in infancy | Very frequent (80-99%) |
| HP:0001582 | Redundant skin | Very frequent (80-99%) |
| HP:0001598 | Concave nail | Very frequent (80-99%) |
| HP:0001629 | Ventricular septal defect | Very frequent (80-99%) |
| HP:0001642 | Pulmonic stenosis | Very frequent (80-99%) |
| HP:0001814 | Deep-set nails | Very frequent (80-99%) |
| HP:0002224 | Woolly hair | Very frequent (80-99%) |
| HP:0002750 | Delayed skeletal maturation | Very frequent (80-99%) |
| HP:0004322 | Short stature | Very frequent (80-99%) |
| HP:0005280 | Depressed nasal bridge | Very frequent (80-99%) |
| HP:0008872 | Feeding difficulties in infancy | Very frequent (80-99%) |
| HP:0100679 | Lack of skin elasticity | Very frequent (80-99%) |
| HP:0000486 | Strabismus | Frequent (30-79%) |
| HP:0000028 | Cryptorchidism | Frequent (30-79%) |
| HP:0000158 | Macroglossia | Frequent (30-79%) |
| HP:0000164 | Abnormality of the dentition | Frequent (30-79%) |
| HP:0000179 | Thick lower lip vermilion | Frequent (30-79%) |
| HP:0000286 | Epicanthus | Frequent (30-79%) |
| HP:0000293 | Full cheeks | Frequent (30-79%) |
| HP:0000474 | Thickened nuchal skin fold | Frequent (30-79%) |
| HP:0000483 | Astigmatism | Frequent (30-79%) |
| HP:0000543 | Optic disc pallor | Frequent (30-79%) |
| HP:0000545 | Myopia | Frequent (30-79%) |
| HP:0000563 | Keratoconus | Frequent (30-79%) |
| HP:0000639 | Nystagmus | Frequent (30-79%) |
| HP:0000682 | Abnormality of dental enamel | Frequent (30-79%) |
| HP:0001249 | Intellectual disability | Frequent (30-79%) |
| HP:0001382 | Joint hypermobility | Frequent (30-79%) |
| HP:0001561 | Polyhydramnios | Frequent (30-79%) |
| HP:0001634 | Mitral valve prolapse | Frequent (30-79%) |
| HP:0001639 | Hypertrophic cardiomyopathy | Frequent (30-79%) |
| HP:0001800 | Hypoplastic toenails | Frequent (30-79%) |
| HP:0002020 | Gastroesophageal reflux | Frequent (30-79%) |
| HP:0002120 | Cerebral cortical atrophy | Frequent (30-79%) |
| HP:0004690 | Thickened Achilles tendon | Frequent (30-79%) |
| HP:0007477 | Abnormal dermatoglyphics | Frequent (30-79%) |
| HP:0009465 | Ulnar deviation of finger | Frequent (30-79%) |
| HP:0012740 | Papilloma | Frequent (30-79%) |
| HP:0000280 | Coarse facial features | Occasional (5-29%) |
| HP:0000358 | Posteriorly rotated ears | Occasional (5-29%) |
| HP:0000540 | Hypermetropia | Occasional (5-29%) |
| HP:0001595 | Abnormality of the hair | Occasional (5-29%) |
Identifiers
Disease identifiers
| Field | Value |
|---|---|
| Canonical name | Costello syndrome |
| Mondo ID | MONDO:0009026 |
| MeSH | D056685 |
| OMIM | 218040 |
| Orphanet | 3071 |
| DOID | DOID:0050469 |
| ICD-11 | 1946512039 |
| NCIT | C84652 |
| SNOMED CT | 309776008 |
| UMLS | C0587248 |
| MedGen | 108454 |
| GARD | 0001550 |
| MedDRA | 10067380 |
| NORD | 1011 |
| Is cancer (heuristic) | no |
Also known as: congenital myopathy with excess of muscle spindles · Costello syndrome · CSTLO · faciocutaneoskeletal syndrome · FCS syndrome
Data availability: 597 ClinVar variants · 4 ClinGen variant curations · 14 GenCC gene-disease records · 4 cell lines.
Disease family
Classification path: disease › human disease › disease by etiologic mechanism › disease of genetic or genomic mechanism › hereditary disease › autosomal genetic disease › autosomal dominant disease › Costello syndrome
Related subtypes (191): autosomal dominant polycystic liver disease, cerebral arteriopathy, autosomal dominant, with subcortical infarcts and leukoencephalopathy, type 1, tuberous sclerosis, Treacher-Collins syndrome, hereditary breast ovarian cancer syndrome, autosomal dominant polycystic kidney disease, Lynch syndrome, branchio-oto-renal syndrome, autosomal dominant Aarskog syndrome, acroosteolysis dominant type, ADULT syndrome, autosomal dominant Alport syndrome, amelogenesis imperfecta type 1B, Townes-Brocks syndrome, nevoid basal cell carcinoma syndrome, blepharophimosis, ptosis, and epicanthus inversus syndrome, autosomal dominant brachyolmia, branchiooculofacial syndrome, pheochromocytoma/paraganglioma syndrome 4, cataract-aberrant oral frenula-growth delay syndrome, cherubism, autosomal dominant chondrodysplasia punctata, autosomal dominant popliteal pterygium syndrome, blepharocheilodontic syndrome, cochleosaccular degeneration-cataract syndrome, renal coloboma syndrome, Beare-Stevenson cutis gyrata syndrome, autosomal dominant vibratory urticaria, neurohypophyseal diabetes insipidus, autosomal dominant Kenny-Caffey syndrome, Rapp-Hodgkin syndrome, Ehlers-Danlos syndrome, classic type, autosomal dominant Ehlers-Danlos syndrome, vascular type, multiple endocrine neoplasia type 1, Coffin-Siris syndrome 1, isolated congenital adermatoglyphia, Flynn-Aird syndrome, Frasier syndrome, hand-foot-genital syndrome, Holt-Oram syndrome, hyperkeratosis-hyperpigmentation syndrome, autosomal dominant ichthyosis vulgaris, hyper-IgE recurrent infection syndrome 1, autosomal dominant, autosomal dominant keratitis, autosomal dominant keratitis-ichthyosis-hearing loss syndrome, LADD syndrome, trichorhinophalangeal syndrome type II, Noonan syndrome with multiple lentigines, microcephaly with or without chorioretinopathy, lymphedema, or intellectual disability, Marfan syndrome, melanoma, cutaneous malignant, susceptibility to, 2, autosomal dominant primary microcephaly, autosomal dominant progressive external ophthalmoplegia, monilethrix, Muir-Torre syndrome, autosomal dominant myoglobinuria, autosomal dominant centronuclear myopathy, nail-patella syndrome, multiple endocrine neoplasia type 2B, autosomal dominant omodysplasia, pheochromocytoma/paraganglioma syndrome 1, Pelger-Huet anomaly, multiple endocrine neoplasia type 2A, piebaldism, autosomal dominant medullary cystic kidney disease with or without hyperuricemia, generalized juvenile polyposis/juvenile polyposis coli, juvenile polyposis/hereditary hemorrhagic telangiectasia syndrome, Peutz-Jeghers syndrome, contractures, pterygia, and spondylocarpotarsal fusion syndrome 1A, autosomal dominant distal renal tubular acidosis, retinoschisis, autosomal dominant, autosomal dominant Robinow syndrome, scapuloperoneal spinal muscular atrophy, autosomal dominant, autosomal dominant sideroblastic anemia, spondyloepiphyseal dysplasia tarda, autosomal dominant, proximal symphalangism, calcaneonavicular coalition, thanatophoric dysplasia type 1, trichorhinophalangeal syndrome type I, Muckle-Wells syndrome, autosomal dominant hypophosphatemic rickets, von Hippel-Lindau disease, Denys-Drash syndrome, autosomal dominant severe congenital neutropenia, EEC syndrome, multiple cutaneous and mucosal venous malformations, diffuse nonepidermolytic palmoplantar keratoderma, Timothy syndrome, pheochromocytoma/paraganglioma syndrome 2, spondyloepimetaphyseal dysplasia with multiple dislocations, Brooke-Spiegler syndrome, macrocephaly-autism syndrome, pheochromocytoma/paraganglioma syndrome 3, Duane-radial ray syndrome, PCWH syndrome, heart-hand syndrome, Slovenian type, congenital stationary night blindness autosomal dominant 3, mandibulofacial dysostosis-microcephaly syndrome, multiple endocrine neoplasia type 4, juvenile cataract-microcornea-renal glucosuria syndrome, Crouzon syndrome-acanthosis nigricans syndrome, Birk-Barel syndrome, thrombophilia due to protein S deficiency, autosomal dominant, dyskeratosis congenita, autosomal dominant 2, dyskeratosis congenita, autosomal dominant 3, colorectal cancer, hereditary nonpolyposis, type 6, colorectal cancer, hereditary nonpolyposis, type 7, brain small vessel disease 2A, autosomal dominant, intellectual disability, autosomal dominant 14, intellectual disability, autosomal dominant 15, intellectual disability, autosomal dominant 16, hypopigmentation-punctate palmoplantar keratoderma syndrome, intellectual disability-facial dysmorphism syndrome due to SETD5 haploinsufficiency, postaxial polydactyly-anterior pituitary anomalies-facial dysmorphism syndrome, intellectual developmental disorder with microcephaly and with or without ocular malformations or hypogonadotropic hypogonadism, intellectual disability, autosomal dominant 29, intellectual disability, autosomal dominant 30, Houge-Janssens syndrome 2, severe achondroplasia-developmental delay-acanthosis nigricans syndrome, dyskeratosis congenita, autosomal dominant 6, epidermolysis bullosa simplex 6, generalized, with scarring and hair loss, autosomal dominant complex spastic paraplegia, early-onset autosomal dominant Alzheimer disease, muscular dystrophy, limb-girdle, autosomal dominant, Feingold syndrome, Carney complex, neuronopathy, distal hereditary motor, autosomal dominant, autosomal dominant coarctation of aorta, autosomal dominant spondylocostal dysostosis, autosomal dominant hypohidrotic ectodermal dysplasia, Cowden disease, autosomal dominant distal myopathy, autosomal dominant rhegmatogenous retinal detachment, palmoplantar keratoderma-spastic paralysis syndrome, Alagille syndrome due to a JAG1 point mutation, PTEN hamartoma tumor syndrome, gastric adenocarcinoma and proximal polyposis of the stomach, autosomal dominant proximal renal tubular acidosis, autosomal dominant spastic ataxia, Waardenburg syndrome, hereditary retinoblastoma, autosomal dominant hypocalcemia, Li-Fraumeni syndrome, Loeys-Dietz syndrome, hereditary hemorrhagic telangiectasia, hereditary inclusion body myopathy-joint contractures-ophthalmoplegia syndrome, microcephalic osteodysplastic dysplasia, Saul-Wilson type, autosomal dominant intermediate Charcot-Marie-Tooth disease, autosomal dominant cutis laxa, autosomal dominant nonsyndromic hearing loss, autosomal dominant optic atrophy, autosomal dominant Emery-Dreifuss muscular dystrophy, autosomal dominant cerebellar ataxia, autosomal dominant osteopetrosis, autosomal dominant epidermolytic ichthyosis, ventricular arrhythmias due to cardiac ryanodine receptor calcium release deficiency syndrome, distal arthrogryposis type 2B1, neurofibromatosis, autosomal dominant cataract, arthrogryposis, distal, type 2B2, arthrogryposis, distal, type 2B3, Charcot-Marie-Tooth disease, demyelinating, type 1G, Delpire-McNeill syndrome, LAMA5-related multisystemic syndrome, autosomal dominant oculocutaneous albinism, Charcot-Marie-tooth disease, axonal, type 2DD, Pilarowski-Bjornsson syndrome, intellectual disability, autosomal dominant, fatty acyl-CoA reductase 1 upregulation, GUCY2D-related dominant retinopathy, RPE65-related dominant retinopathy, autosomal dominant titinopathy, NOG-related symphalangism spectrum disorder, ALPL-related autosomal dominant hypophosphatasia, MYH10-related neurodevelopmental disorder with congenital anomalies, spastic paraplegia 30A, autosomal dominant, TMEM127-related tumor predisposition, MAX-related tumor predisposition, BMPR1A-related juvenile polyposis syndrome, RP1-related dominant retinopathy, Birt-Hogg-Dube syndrome, inclusion body myopathy and brain white matter abnormalities, KINSSHIP syndrome, autosomal dominant nebulin-related myopathy, IMPG1-related dominant retinopathy, PROM1-related dominant retinopathy, PURA-related severe neonatal hypotonia-seizures-encephalopathy syndrome, ALG8-related autosomal dominant polycystic kidney and/or liver disease, NOTCH1-related AOS spectrum disorder, FLNB-associated autosomal dominant filamin related bone disorder, familial antiphospholipid syndrome
Genetics & variants
GWAS landscape
No GWAS associations recorded — common-variant (GWAS) studies don’t cover this disease (typical for Mendelian / rare diseases). See the curated gene cohort and Mendelian overlap below.
Variant details and genetic-evidence tiers
ClinVar germline variants
597 retrieved; paginated sample, class counts are floors:
274 uncertain significance, 245 likely benign, 25 conflicting classifications of pathogenicity, 17 pathogenic, 13 likely pathogenic, 12 benign, 6 benign/likely benign, 5 pathogenic/likely pathogenic
| ClinVar | Variant (HGVS) | Gene | Classification | Review |
|---|---|---|---|---|
| 1209208 | NM_005343.4(HRAS):c.35_36delinsTT (p.Gly12Val) | HRAS | Pathogenic | criteria provided, multiple submitters, no conflicts |
| 12600 | NM_005343.4(HRAS):c.35G>T (p.Gly12Val) | HRAS | Pathogenic | criteria provided, multiple submitters, no conflicts |
| 12602 | NM_005343.4(HRAS):c.34G>A (p.Gly12Ser) | HRAS | Pathogenic | reviewed by expert panel |
| 12603 | NM_005343.4(HRAS):c.35G>C (p.Gly12Ala) | HRAS | Pathogenic | criteria provided, multiple submitters, no conflicts |
| 12604 | NM_005343.4(HRAS):c.38G>A (p.Gly13Asp) | HRAS | Pathogenic | criteria provided, multiple submitters, no conflicts |
| 12605 | NM_005343.4(HRAS):c.350A>G (p.Lys117Arg) | HRAS | Pathogenic | reviewed by expert panel |
| 12606 | NM_005343.4(HRAS):c.37G>T (p.Gly13Cys) | HRAS | Pathogenic | reviewed by expert panel |
| 12607 | NM_005343.4(HRAS):c.436G>A (p.Ala146Thr) | HRAS | Pathogenic | no assertion criteria provided |
| 12608 | NM_005343.4(HRAS):c.187G>A (p.Glu63Lys) | HRAS | Pathogenic | criteria provided, multiple submitters, no conflicts |
| 12610 | NM_005343.4(HRAS):c.173C>T (p.Thr58Ile) | HRAS | Pathogenic | reviewed by expert panel |
| 12612 | NM_005343.4(HRAS):c.35G>A (p.Gly12Asp) | HRAS | Pathogenic/Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 12613 | NM_005343.4(HRAS):c.34G>T (p.Gly12Cys) | HRAS | Pathogenic | criteria provided, multiple submitters, no conflicts |
| 1321186 | NM_176795.5(HRAS):c.488_497del (p.Leu163fs) | HRAS | Pathogenic/Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 1327492 | NM_005343.4(HRAS):c.466T>C (p.Phe156Leu) | HRAS | Pathogenic | criteria provided, single submitter |
| 163690 | NM_005343.4(HRAS):c.35_36delinsAA (p.Gly12Glu) | HRAS | Pathogenic/Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 29911 | NM_005343.4(HRAS):c.110_111+1dup | HRAS | Pathogenic | no assertion criteria provided |
| 29912 | NM_005343.4(HRAS):c.108_110dup (p.Glu37dup) | HRAS | Pathogenic | no assertion criteria provided |
| 35554 | NM_005343.4(HRAS):c.37G>C (p.Gly13Arg) | HRAS | Pathogenic/Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 391700 | NM_005343.4(HRAS):c.179G>T (p.Gly60Val) | HRAS | Pathogenic | criteria provided, multiple submitters, no conflicts |
| 40436 | NM_005343.4(HRAS):c.179G>A (p.Gly60Asp) | HRAS | Pathogenic | criteria provided, multiple submitters, no conflicts |
| 462149 | NM_005343.4(HRAS):c.186_206dup (p.Glu62_Arg68dup) | HRAS | Pathogenic | criteria provided, single submitter |
| 180848 | NM_005343.4(HRAS):c.38G>T (p.Gly13Val) | LRRC56 | Pathogenic/Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 4072207 | NM_004333.6(BRAF):c.1082A>T (p.Asp361Val) | BRAF | Likely pathogenic | criteria provided, single submitter |
| 120223 | NM_005343.4(HRAS):c.187_207dup (p.Glu63_Asp69dup) | HRAS | Likely pathogenic | criteria provided, single submitter |
| 12609 | NM_005343.4(HRAS):c.64C>A (p.Gln22Lys) | HRAS | Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 12611 | NM_005343.4(HRAS):c.437C>T (p.Ala146Val) | HRAS | Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 1478514 | NM_005343.4(HRAS):c.171_185dup (p.Asp57_Gln61dup) | HRAS | Likely pathogenic | criteria provided, single submitter |
| 160364 | NM_005343.4(HRAS):c.182A>G (p.Gln61Arg) | HRAS | Likely pathogenic | criteria provided, multiple submitters, no conflicts |
| 179260 | NM_005343.4(HRAS):c.175_176delinsCT (p.Ala59Leu) | HRAS | Likely pathogenic | criteria provided, single submitter |
| 375961 | NM_005343.4(HRAS):c.34G>C (p.Gly12Arg) | HRAS | Likely pathogenic | criteria provided, single submitter |
Genes & proteins
Mendelian disease overlap and somatic drivers
GenCC: 125 · Orphanet: 54 · 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 |
|---|---|---|---|---|
| HRAS | Definitive | Autosomal dominant | Costello syndrome | 8 |
| NRAS | Limited | Autosomal dominant | Costello syndrome | 10 |
| BRAF | Disputed Evidence | Autosomal dominant | Costello syndrome | 23 |
| KRAS | Disputed Evidence | Autosomal dominant | Costello syndrome | 17 |
| MAP2K1 | Disputed Evidence | Autosomal dominant | Costello syndrome | 11 |
| PTPN11 | Disputed Evidence | Autosomal dominant | Costello syndrome | 19 |
| RAF1 | Disputed Evidence | Autosomal dominant | Costello syndrome | 18 |
| SHOC2 | Disputed Evidence | Autosomal dominant | Costello syndrome | 9 |
| SOS1 | Disputed Evidence | Autosomal dominant | Costello syndrome | 10 |
Orphanet rare-disease linkage (cohort genes)
| Gene | Orphanet ID | Rare disease |
|---|---|---|
| BRAF | Orphanet:1340 | Cardiofaciocutaneous syndrome |
| BRAF | Orphanet:146 | Differentiated thyroid carcinoma |
| BRAF | Orphanet:251615 | Pilomyxoid astrocytoma |
| BRAF | Orphanet:389 | Langerhans cell histiocytosis |
| BRAF | Orphanet:500 | Noonan syndrome with multiple lentigines |
| BRAF | Orphanet:54595 | Craniopharyngioma |
| BRAF | Orphanet:58017 | Classic hairy cell leukemia |
| BRAF | Orphanet:626 | Large/giant congenital melanocytic nevus |
| BRAF | Orphanet:648 | Noonan syndrome |
| BRAF | Orphanet:840 | Syringocystadenoma papilliferum |
| BRAF | Orphanet:96253 | Cushing disease |
| HRAS | Orphanet:146 | Differentiated thyroid carcinoma |
| HRAS | Orphanet:2612 | Linear nevus sebaceus syndrome |
| HRAS | Orphanet:2874 | Phakomatosis pigmentokeratotica |
| HRAS | Orphanet:3071 | Costello syndrome |
| HRAS | Orphanet:79414 | Woolly hair nevus |
| SOS1 | Orphanet:2024 | Hereditary gingival fibromatosis |
| SOS1 | Orphanet:648 | Noonan syndrome |
| SHOC2 | Orphanet:2701 | Noonan syndrome-like disorder with loose anagen hair |
| KRAS | Orphanet:1333 | Familial pancreatic carcinoma |
| KRAS | Orphanet:1340 | Cardiofaciocutaneous syndrome |
| KRAS | Orphanet:144 | Lynch syndrome |
| KRAS | Orphanet:146 | Differentiated thyroid carcinoma |
| KRAS | Orphanet:2396 | Encephalocraniocutaneous lipomatosis |
| KRAS | Orphanet:251615 | Pilomyxoid astrocytoma |
| KRAS | Orphanet:2612 | Linear nevus sebaceus syndrome |
| KRAS | Orphanet:268114 | RAS-associated autoimmune leukoproliferative disease |
| KRAS | Orphanet:3339 | Oculoectodermal syndrome |
| KRAS | Orphanet:648 | Noonan syndrome |
| KRAS | Orphanet:86834 | Juvenile myelomonocytic leukemia |
| MAP2K1 | Orphanet:1340 | Cardiofaciocutaneous syndrome |
| MAP2K1 | Orphanet:389 | Langerhans cell histiocytosis |
| NRAS | Orphanet:146 | Differentiated thyroid carcinoma |
| NRAS | Orphanet:2612 | Linear nevus sebaceus syndrome |
| NRAS | Orphanet:268114 | RAS-associated autoimmune leukoproliferative disease |
| NRAS | Orphanet:389 | Langerhans cell histiocytosis |
| NRAS | Orphanet:626 | Large/giant congenital melanocytic nevus |
| NRAS | Orphanet:648 | Noonan syndrome |
| NRAS | Orphanet:86834 | Juvenile myelomonocytic leukemia |
| PTPN11 | Orphanet:2499 | Metachondromatosis |
| PTPN11 | Orphanet:500 | Noonan syndrome with multiple lentigines |
| PTPN11 | Orphanet:648 | Noonan syndrome |
| PTPN11 | Orphanet:86834 | Juvenile myelomonocytic leukemia |
| RAF1 | Orphanet:154 | Familial isolated dilated cardiomyopathy |
| RAF1 | Orphanet:251615 | Pilomyxoid astrocytoma |
| RAF1 | Orphanet:500 | Noonan syndrome with multiple lentigines |
| RAF1 | Orphanet:626 | Large/giant congenital melanocytic nevus |
| RAF1 | Orphanet:648 | Noonan syndrome |
| TNNT2 | Orphanet:154 | Familial isolated dilated cardiomyopathy |
| TNNT2 | Orphanet:54260 | Left ventricular noncompaction |
Cohort genes → proteins
13 cohort genes, 13 distinct canonical proteins.
Evidence partition
| Subset | Genes |
|---|---|
| multi_evidence | 13 |
Cohort genes (full)
| Symbol | HGNC | Ensembl | UniProt | Name | Evidence |
|---|---|---|---|---|---|
| BRAF | HGNC:1097 | ENSG00000157764 | P15056 | Serine/threonine-protein kinase B-raf | gencc,clinvar |
| HRAS | HGNC:5173 | ENSG00000174775 | P01112 | GTPase HRas | gencc,clinvar |
| SOS1 | HGNC:11187 | ENSG00000115904 | Q07889 | Son of sevenless homolog 1 | gencc |
| SHOC2 | HGNC:15454 | ENSG00000108061 | Q9UQ13 | Leucine-rich repeat protein SHOC-2 | gencc |
| KRAS | HGNC:6407 | ENSG00000133703 | P01116 | GTPase KRas | gencc |
| MAP2K1 | HGNC:6840 | ENSG00000169032 | Q02750 | Dual specificity mitogen-activated protein kinase kinase 1 | gencc |
| NRAS | HGNC:7989 | ENSG00000213281 | P01111 | GTPase NRas | gencc |
| PTPN11 | HGNC:9644 | ENSG00000179295 | Q06124 | Tyrosine-protein phosphatase non-receptor type 11 | gencc |
| RAF1 | HGNC:9829 | ENSG00000132155 | P04049 | RAF proto-oncogene serine/threonine-protein kinase | gencc |
| TNNT2 | HGNC:11949 | ENSG00000118194 | P45379 | Troponin T, cardiac muscle | clinvar |
| SPRED1 | HGNC:20249 | ENSG00000166068 | Q7Z699 | Sprouty-related, EVH1 domain-containing protein 1 | clinvar |
| EPS8L2 | HGNC:21296 | ENSG00000177106 | Q9H6S3 | Epidermal growth factor receptor kinase substrate 8-like protein 2 | clinvar |
| LRRC56 | HGNC:25430 | ENSG00000161328 | Q8IYG6 | Leucine-rich repeat-containing protein 56 | clinvar |
Cohort function summary
Lead sentence per gene, UniProt-curated.
| Symbol | Protein name | Function (lead sentence) |
|---|---|---|
| BRAF | Serine/threonine-protein kinase B-raf | Protein kinase involved in the transduction of mitogenic signals from the cell membrane to the nucleus. |
| HRAS | GTPase HRas | Involved in the activation of Ras protein signal transduction. |
| SOS1 | Son of sevenless homolog 1 | Promotes the exchange of Ras-bound GDP by GTP. |
| SHOC2 | Leucine-rich repeat protein SHOC-2 | Core component of the SHOC2-MRAS-PP1c (SMP) holophosphatase complex that regulates activation of the MAPK pathway. |
| KRAS | GTPase KRas | Ras proteins bind GDP/GTP and possess intrinsic GTPase activity. |
| MAP2K1 | Dual specificity mitogen-activated protein kinase kinase 1 | Dual specificity protein kinase which acts as an essential component of the MAP kinase signal transduction pathway. |
| NRAS | GTPase NRas | Ras proteins bind GDP/GTP and possess intrinsic GTPase activity. |
| PTPN11 | Tyrosine-protein phosphatase non-receptor type 11 | Acts downstream of various receptor and cytoplasmic protein tyrosine kinases to participate in the signal transduction from the cell surface to the nucleus. |
| RAF1 | RAF proto-oncogene serine/threonine-protein kinase | Serine/threonine-protein kinase that acts as a regulatory link between the membrane-associated Ras GTPases and the MAPK/ERK cascade, and this critical regulatory link functions as a switch determining cell fate decisions including prolifer… |
| TNNT2 | Troponin T, cardiac muscle | Troponin T is the tropomyosin-binding subunit of troponin, the thin filament regulatory complex which confers calcium-sensitivity to striated muscle actomyosin ATPase activity. |
| SPRED1 | Sprouty-related, EVH1 domain-containing protein 1 | Tyrosine kinase substrate that inhibits growth-factor-mediated activation of MAP kinase. |
| EPS8L2 | Epidermal growth factor receptor kinase substrate 8-like protein 2 | Stimulates guanine exchange activity of SOS1. |
| LRRC56 | Leucine-rich repeat-containing protein 56 | Required for the assembly of dynein arms. |
Protein-family classification
Druggable: 6 · Difficult: 2 · Unknown: 5 · Druggable fraction: 0.46
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 |
|---|---|---|---|
| Kinase | 3 | 6.4× | 0.051 |
| Phosphatase | 1 | 6.5× | 0.285 |
| Scaffold/PPI | 2 | 2.7× | 0.285 |
| Enzyme (other) | 2 | 1.8× | 0.370 |
| Other/Unknown | 5 | 0.7× | 0.938 |
Per-gene assignment
| Symbol | Family | Druggable? | EC | InterPro (top 3) |
|---|---|---|---|---|
| BRAF | Kinase | yes | 2.7.10.2 | Prot_kinase_dom, Ser-Thr/Tyr_kinase_cat_dom, PKC_DAG/PE |
| HRAS | Enzyme (other) | yes | 3.6.5.2 | Small_GTPase, Small_GTP-bd, Small_GTPase_Ras-type |
| SOS1 | Scaffold/PPI | no | DH_dom, Ras-like_Gua-exchang_fac_N, PH_domain | |
| SHOC2 | Other/Unknown | no | Leu-rich_rpt, Leu-rich_rpt_typical-subtyp, LRR_dom_sf | |
| KRAS | Enzyme (other) | yes | 3.6.5.2 | Small_GTPase, Small_GTP-bd, Small_GTPase_Ras-type |
| MAP2K1 | Kinase | yes | 2.7.12.2 | Prot_kinase_dom, Ser/Thr_kinase_AS, Kinase-like_dom_sf |
| NRAS | Other/Unknown | no | Small_GTPase, Small_GTP-bd, Small_GTPase_Ras-type | |
| PTPN11 | Phosphatase | yes | 3.1.3.48 | PTP_cat, Tyr_Pase_dom, SH2 |
| RAF1 | Kinase | yes | 2.7.10.2 | Prot_kinase_dom, Ser-Thr/Tyr_kinase_cat_dom, PKC_DAG/PE |
| TNNT2 | Other/Unknown | no | Troponin, TNNT, Troponin_sf | |
| SPRED1 | Other/Unknown | no | WH1/EVH1_dom, Sprouty, PH-like_dom_sf | |
| EPS8L2 | Scaffold/PPI | no | SH3_domain, PTB/PI_dom, PH-like_dom_sf | |
| LRRC56 | Other/Unknown | no | Leu-rich_rpt, Leu-rich_rpt_4, LRR_dom_sf |
Expression context
Cohort genes with no expression data: 0.
13 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) | 0 |
| broad (>20) | 13 |
| unknown | 0 |
Top tissues across cohort
| Tissue | Cohort genes |
|---|---|
| calcaneal tendon | 3 |
| colonic epithelium | 2 |
| secondary oocyte | 2 |
| ventricular zone | 2 |
| buccal mucosa cell | 1 |
| skin of abdomen | 1 |
| skin of leg | 1 |
| zone of skin | 1 |
| jejunal mucosa | 1 |
| tendon of biceps brachii | 1 |
| bone marrow | 1 |
| sural nerve | 1 |
| nipple | 1 |
| pylorus | 1 |
| trigeminal ganglion | 1 |
| oocyte | 1 |
| orbitofrontal cortex | 1 |
| epithelium of nasopharynx | 1 |
| gingival epithelium | 1 |
| dorsal motor nucleus of vagus nerve | 1 |
Per-gene tissue summary (top 30)
| Symbol | Bgee breadth | FANTOM5 breadth | SCXA | Top tissues |
|---|---|---|---|---|
| BRAF | 265 | ubiquitous | marker | buccal mucosa cell, colonic epithelium, calcaneal tendon |
| HRAS | 139 | ubiquitous | marker | skin of abdomen, skin of leg, zone of skin |
| SOS1 | 289 | ubiquitous | marker | colonic epithelium, jejunal mucosa, tendon of biceps brachii |
| SHOC2 | 299 | ubiquitous | marker | calcaneal tendon, sural nerve, bone marrow |
| KRAS | 298 | ubiquitous | marker | trigeminal ganglion, pylorus, nipple |
| MAP2K1 | 298 | ubiquitous | marker | secondary oocyte, oocyte, orbitofrontal cortex |
| NRAS | 278 | ubiquitous | marker | gingival epithelium, epithelium of nasopharynx, secondary oocyte |
| PTPN11 | 295 | ubiquitous | marker | medial globus pallidus, dorsal motor nucleus of vagus nerve, globus pallidus |
| RAF1 | 299 | ubiquitous | marker | gastrocnemius, muscle of leg, ventricular zone |
| TNNT2 | 154 | broad | marker | apex of heart, right atrium auricular region, cardiac atrium |
| SPRED1 | 248 | ubiquitous | marker | ventricular zone, mucosa of sigmoid colon, calcaneal tendon |
| EPS8L2 | 230 | ubiquitous | marker | lower esophagus mucosa, metanephros cortex, esophagus mucosa |
| LRRC56 | 129 | broad | marker | right uterine tube, right testis, left testis |
Protein interactions among cohort
Intra-cohort edges: 37.
Hub genes (top 10 by interactor count)
| Symbol | Interactor count |
|---|---|
| KRAS | 14,509 |
| HRAS | 8,064 |
| NRAS | 7,598 |
| BRAF | 7,394 |
| RAF1 | 6,574 |
| PTPN11 | 6,009 |
| MAP2K1 | 5,944 |
| SOS1 | 3,625 |
| SPRED1 | 2,744 |
| SHOC2 | 2,149 |
Intra-cohort edges
| A | B | Sources |
|---|---|---|
| BRAF | HRAS | intact, string_interaction |
| BRAF | KRAS | biogrid_interaction, intact, string_interaction |
| BRAF | MAP2K1 | biogrid_interaction, intact, string_interaction |
| BRAF | NRAS | biogrid_interaction, intact, string_interaction |
| BRAF | RAF1 | biogrid_interaction, intact, string_interaction |
| BRAF | SHOC2 | string_interaction |
| BRAF | SOS1 | string_interaction |
| BRAF | SPRED1 | string_interaction |
| EPS8L2 | SOS1 | biogrid_interaction |
| EPS8L2 | SPRED1 | intact |
| HRAS | MAP2K1 | string_interaction |
| HRAS | RAF1 | intact, string_interaction |
| HRAS | SHOC2 | intact, string_interaction |
| HRAS | SOS1 | intact, string_interaction |
| KRAS | MAP2K1 | biogrid_interaction, string_interaction |
| KRAS | NRAS | intact |
| KRAS | RAF1 | intact, string_interaction |
| KRAS | SHOC2 | intact, string_interaction |
| KRAS | SOS1 | string_interaction |
| KRAS | SPRED1 | string_interaction |
| MAP2K1 | NRAS | string_interaction |
| MAP2K1 | PTPN11 | biogrid_interaction, string_interaction |
| MAP2K1 | RAF1 | biogrid_interaction, intact, string_interaction |
| MAP2K1 | SHOC2 | string_interaction |
| NRAS | PTPN11 | string_interaction |
| NRAS | RAF1 | biogrid_interaction, intact, string_interaction |
| NRAS | SHOC2 | biogrid_interaction, intact, string_interaction |
| NRAS | SOS1 | string_interaction |
| NRAS | SPRED1 | string_interaction |
| PTPN11 | SHOC2 | string_interaction |
| PTPN11 | SOS1 | biogrid_interaction, string_interaction |
| RAF1 | SHOC2 | biogrid_interaction |
| RAF1 | SOS1 | string_interaction |
| RAF1 | SPRED1 | string_interaction |
| SHOC2 | SOS1 | string_interaction |
| SHOC2 | SPRED1 | string_interaction |
| SOS1 | SPRED1 | string_interaction |
Structural data
PDB: 12 · AlphaFold-only: 1 · No structure: 0
Cohort genes with PDB structures (top 30)
| Symbol | UniProt | PDB entries |
|---|---|---|
| KRAS | P01116 | 511 |
| HRAS | P01112 | 246 |
| BRAF | P15056 | 131 |
| PTPN11 | Q06124 | 115 |
| MAP2K1 | Q02750 | 94 |
| SOS1 | Q07889 | 91 |
| RAF1 | P04049 | 76 |
| NRAS | P01111 | 35 |
| TNNT2 | P45379 | 25 |
| SHOC2 | Q9UQ13 | 13 |
| SPRED1 | Q7Z699 | 3 |
| EPS8L2 | Q9H6S3 | 2 |
AlphaFold-only cohort genes (top 30 by pLDDT)
| Symbol | UniProt | pLDDT |
|---|---|---|
| LRRC56 | Q8IYG6 | 56.07 |
Function
Pathway analysis
Distinct Reactome pathways touched by cohort: 243. Enrichment computed across 13 evidence-associated genes (12 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 12 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.
| Pathway | Cohort genes | Fold | FDR | Sample cohort genes |
|---|---|---|---|---|
| RAF activation | 7 | 195.9× | 2e-13 | BRAF, HRAS, SHOC2, KRAS, MAP2K1, NRAS, RAF1 |
| Activated NTRK2 signals through FRS2 and FRS3 | 5 | 396.5× | 5e-11 | HRAS, SOS1, KRAS, NRAS, PTPN11 |
| Signaling by high-kinase activity BRAF mutants | 6 | 158.6× | 5e-11 | BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1 |
| Signaling by FLT3 ITD and TKD mutants | 5 | 317.2× | 5e-11 | HRAS, SOS1, KRAS, NRAS, PTPN11 |
| MAP2K and MAPK activation | 6 | 142.8× | 5e-11 | BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1 |
| Signaling by RAF1 mutants | 6 | 139.3× | 5e-11 | BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1 |
| Negative regulation of MAPK pathway | 6 | 132.8× | 5e-11 | BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1 |
| Signaling by moderate kinase activity BRAF mutants | 6 | 126.9× | 5e-11 | BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1 |
| Paradoxical activation of RAF signaling by kinase inactive BRAF | 6 | 126.9× | 5e-11 | BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1 |
| Signaling downstream of RAS mutants | 6 | 126.9× | 5e-11 | BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1 |
| RAF/MAP kinase cascade | 8 | 40.7× | 5e-11 | BRAF, HRAS, SOS1, SHOC2, SPRED1, KRAS, MAP2K1, NRAS |
| Tie2 Signaling | 5 | 250.4× | 1e-10 | HRAS, SOS1, KRAS, NRAS, PTPN11 |
| FRS-mediated FGFR3 signaling | 5 | 226.6× | 2e-10 | HRAS, SOS1, KRAS, NRAS, PTPN11 |
| FRS-mediated FGFR4 signaling | 5 | 206.9× | 3e-10 | HRAS, SOS1, KRAS, NRAS, PTPN11 |
| RAS signaling downstream of NF1 loss-of-function variants | 4 | 543.8× | 4e-10 | HRAS, SPRED1, KRAS, NRAS |
| FRS-mediated FGFR1 signaling | 5 | 190.3× | 4e-10 | HRAS, SOS1, KRAS, NRAS, PTPN11 |
| Signaling by BRAF and RAF1 fusions | 6 | 85.2× | 4e-10 | BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1 |
| FRS-mediated FGFR2 signaling | 5 | 183.0× | 4e-10 | HRAS, SOS1, KRAS, NRAS, PTPN11 |
| SOS-mediated signalling | 4 | 475.8× | 6e-10 | HRAS, SOS1, KRAS, NRAS |
| Downstream signal transduction | 5 | 158.6× | 8e-10 | HRAS, SOS1, KRAS, NRAS, PTPN11 |
| Activated NTRK3 signals through RAS | 4 | 423.0× | 1e-09 | HRAS, SOS1, KRAS, NRAS |
| FLT3 Signaling | 5 | 144.2× | 1e-09 | HRAS, SOS1, KRAS, NRAS, PTPN11 |
| EGFR Transactivation by Gastrin | 4 | 380.7× | 1e-09 | HRAS, SOS1, KRAS, NRAS |
| SHC-related events triggered by IGF1R | 4 | 380.7× | 1e-09 | HRAS, SOS1, KRAS, NRAS |
| Activated NTRK2 signals through RAS | 4 | 380.7× | 1e-09 | HRAS, SOS1, KRAS, NRAS |
| MET activates RAS signaling | 4 | 346.1× | 2e-09 | HRAS, SOS1, KRAS, NRAS |
| Signaling by FGFR4 in disease | 4 | 317.2× | 3e-09 | HRAS, SOS1, KRAS, NRAS |
| Constitutive Signaling by Overexpressed ERBB2 | 4 | 317.2× | 3e-09 | HRAS, SOS1, KRAS, NRAS |
| Signaling by PDGFRA transmembrane, juxtamembrane and kinase domain mutants | 4 | 292.8× | 4e-09 | HRAS, SOS1, KRAS, NRAS |
| Signaling by PDGFRA extracellular domain mutants | 4 | 292.8× | 4e-09 | HRAS, SOS1, KRAS, NRAS |
GO biological processes by enrichment
Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 13 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.
| GO term | Cohort genes | Fold | FDR | Sample cohort genes |
|---|---|---|---|---|
| MAPK cascade | 6 | 70.7× | 3e-08 | BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1 |
| Schwann cell development | 4 | 324.1× | 5e-08 | HRAS, SOS1, MAP2K1, RAF1 |
| neurotrophin TRK receptor signaling pathway | 3 | 243.1× | 1e-05 | SOS1, PTPN11, RAF1 |
| myelination | 4 | 77.4× | 1e-05 | HRAS, SOS1, MAP2K1, RAF1 |
| Ras protein signal transduction | 4 | 63.2× | 2e-05 | HRAS, SOS1, KRAS, NRAS |
| face development | 3 | 185.2× | 2e-05 | BRAF, MAP2K1, RAF1 |
| cerebellar cortex formation | 2 | 864.2× | 5e-05 | MAP2K1, PTPN11 |
| thyroid gland development | 3 | 125.5× | 5e-05 | BRAF, MAP2K1, RAF1 |
| insulin-like growth factor receptor signaling pathway | 3 | 114.4× | 6e-05 | SOS1, MAP2K1, RAF1 |
| thymus development | 3 | 77.8× | 2e-04 | BRAF, MAP2K1, RAF1 |
| fibroblast growth factor receptor signaling pathway | 3 | 65.9× | 3e-04 | SOS1, SHOC2, PTPN11 |
| positive regulation of ERK1 and ERK2 cascade | 4 | 26.2× | 3e-04 | BRAF, HRAS, MAP2K1, PTPN11 |
| epidermal growth factor receptor signaling pathway | 3 | 57.2× | 3e-04 | BRAF, SOS1, PTPN11 |
| ERBB2-ERBB3 signaling pathway | 2 | 259.3× | 4e-04 | MAP2K1, RAF1 |
| insulin receptor signaling pathway | 3 | 51.2× | 4e-04 | HRAS, SOS1, RAF1 |
| Bergmann glial cell differentiation | 2 | 235.7× | 5e-04 | MAP2K1, PTPN11 |
| regulation of long-term neuronal synaptic plasticity | 2 | 152.5× | 0.001 | HRAS, KRAS |
| positive regulation of ruffle assembly | 2 | 152.5× | 0.001 | HRAS, EPS8L2 |
| type B pancreatic cell proliferation | 2 | 136.4× | 0.001 | MAP2K1, RAF1 |
| positive regulation of Ras protein signal transduction | 2 | 136.4× | 0.001 | SHOC2, MAP2K1 |
| regulation of neurotransmitter receptor localization to postsynaptic specialization membrane | 2 | 136.4× | 0.001 | HRAS, MAP2K1 |
| cytokine-mediated signaling pathway | 3 | 30.1× | 0.001 | SOS1, KRAS, PTPN11 |
| positive regulation of peptidyl-serine phosphorylation | 2 | 117.8× | 0.001 | BRAF, RAF1 |
| positive regulation of Rac protein signal transduction | 2 | 99.7× | 0.002 | SOS1, KRAS |
| regulation of cell population proliferation | 3 | 26.6× | 0.002 | BRAF, HRAS, SOS1 |
| negative regulation of neuron apoptotic process | 3 | 25.6× | 0.002 | BRAF, HRAS, KRAS |
| positive regulation of axonogenesis | 2 | 89.4× | 0.002 | BRAF, MAP2K1 |
| regulation of Rho protein signal transduction | 2 | 78.6× | 0.003 | EPS8L2, RAF1 |
| regulation of MAPK cascade | 2 | 70.1× | 0.003 | SHOC2, SPRED1 |
| homeostasis of number of cells within a tissue | 2 | 68.2× | 0.003 | KRAS, PTPN11 |
Therapeutics
Drug target analysis
Approved (phase 4): 7 · Phase ≥3: 7 · Phased (≥1): 8 · Undrugged: 5
Druggability breadth: 9 of 13 evidence-associated genes (69%) 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 |
|---|---|
| BRAF | VEMURAFENIB |
| HRAS | LONAFARNIB |
| SOS1 | IDARUBICIN |
| KRAS | VEMURAFENIB |
| MAP2K1 | VEMURAFENIB |
| PTPN11 | ESTRAMUSTINE PHOSPHATE |
| RAF1 | VEMURAFENIB |
Top cohort targets by molecule count
| Symbol | Molecules | Max phase |
|---|---|---|
| MAP2K1 | 54 | 4 |
| BRAF | 48 | 4 |
| RAF1 | 31 | 4 |
| KRAS | 11 | 4 |
| PTPN11 | 8 | 4 |
| SOS1 | 5 | 4 |
| HRAS | 4 | 4 |
| NRAS | 1 | 1 |
| SHOC2 | 0 | 0 |
| TNNT2 | 0 | 0 |
Drugs targeting cohort genes (top 30)
| Molecule | Max phase | Targets in cohort |
|---|---|---|
| VEMURAFENIB | 4 | BRAF, KRAS, MAP2K1, RAF1 |
| PONATINIB | 4 | BRAF |
| FEDRATINIB | 4 | BRAF, MAP2K1 |
| SORAFENIB | 4 | BRAF, MAP2K1, RAF1 |
| DASATINIB ANHYDROUS | 4 | BRAF |
| RUXOLITINIB | 4 | BRAF, MAP2K1 |
| INFIGRATINIB PHOSPHATE | 4 | BRAF |
| INFIGRATINIB | 4 | BRAF |
| REGORAFENIB | 4 | BRAF, RAF1 |
| DABRAFENIB | 4 | BRAF, KRAS, RAF1 |
| COBIMETINIB | 4 | BRAF, MAP2K1 |
| NILOTINIB | 4 | BRAF, RAF1 |
| ABEMACICLIB | 4 | BRAF |
| ENCORAFENIB | 4 | BRAF |
| TOVORAFENIB | 4 | BRAF, RAF1 |
| PAZOPANIB | 4 | BRAF, RAF1 |
| DASATINIB | 4 | BRAF, MAP2K1, RAF1 |
| ERLOTINIB | 4 | BRAF, RAF1 |
| GEFITINIB | 4 | BRAF |
| IMATINIB | 4 | BRAF, RAF1 |
| LONAFARNIB | 4 | HRAS, KRAS |
| IDARUBICIN | 4 | SOS1 |
| DOXORUBICIN | 4 | SOS1 |
| SOTORASIB | 4 | KRAS, SOS1 |
| ADAGRASIB | 4 | KRAS, SOS1 |
| SELUMETINIB | 4 | MAP2K1 |
| TRAMETINIB | 4 | MAP2K1 |
| BINIMETINIB | 4 | MAP2K1 |
| AXITINIB | 4 | MAP2K1 |
| NERATINIB | 4 | MAP2K1 |
Bioactivity and enzyme data
Enzyme cohort genes (≥1 EC): 6.
Cohort genes with ChEMBL bioactivity (full, sorted by assay count)
| Symbol | Assays | Type breakdown |
|---|---|---|
| BRAF | 1,442 | Binding:1400, Functional:37, ADMET:5 |
| MAP2K1 | 1,200 | Binding:1150, Functional:47, ADMET:3 |
| KRAS | 861 | Binding:829, Functional:32 |
| RAF1 | 839 | Binding:803, Functional:31, ADMET:5 |
| PTPN11 | 588 | Binding:585, Functional:2, ADMET:1 |
| SOS1 | 421 | Binding:409, Functional:12 |
| HRAS | 48 | Binding:45, Functional:3 |
| NRAS | 18 | Binding:18 |
| TNNT2 | 2 | Binding:2 |
Cohort enzymes (BRENDA EC)
| Symbol | EC numbers | Names |
|---|---|---|
| BRAF | 2.7.10.2, 2.7.11.1 | non-specific protein-tyrosine kinase, non-specific serine/threonine protein kinase |
| HRAS | 3.6.5.2 | small monomeric GTPase |
| KRAS | 3.6.5.2 | small monomeric GTPase |
| MAP2K1 | 2.7.12.2 | mitogen-activated protein kinase kinase |
| PTPN11 | 3.1.3.48 | protein-tyrosine-phosphatase |
| RAF1 | 2.7.10.2 | non-specific protein-tyrosine kinase |
Cohort genes with high screening signal
≥100 ChEMBL assays — a studied-ness signal; see Therapeutics for approved-drug status.
| Symbol | ChEMBL assays |
|---|---|
| BRAF | 1,442 |
| SOS1 | 421 |
| KRAS | 861 |
| MAP2K1 | 1,200 |
| PTPN11 | 588 |
| RAF1 | 839 |
Pharmacogenomics
Cohort genes with a PharmGKB record: 13; with CPIC/DPWG dosing guidelines: 0.
No cohort gene has a CPIC/DPWG genotype-guided dosing guideline (PharmGKB).
Chemical tractability of cohort targets
30 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) |
|---|---|---|
| VEMURAFENIB | 4 | BRAF, KRAS, MAP2K1, RAF1 |
| PONATINIB | 4 | BRAF |
| FEDRATINIB | 4 | BRAF, MAP2K1 |
| SORAFENIB | 4 | BRAF, MAP2K1, RAF1 |
| DASATINIB ANHYDROUS | 4 | BRAF |
| RUXOLITINIB | 4 | BRAF, MAP2K1 |
| INFIGRATINIB PHOSPHATE | 4 | BRAF |
| INFIGRATINIB | 4 | BRAF |
| REGORAFENIB | 4 | BRAF, RAF1 |
| DABRAFENIB | 4 | BRAF, KRAS, RAF1 |
| COBIMETINIB | 4 | BRAF, MAP2K1 |
| NILOTINIB | 4 | BRAF, RAF1 |
| ABEMACICLIB | 4 | BRAF |
| ENCORAFENIB | 4 | BRAF |
| TOVORAFENIB | 4 | BRAF, RAF1 |
| PAZOPANIB | 4 | BRAF, RAF1 |
| DASATINIB | 4 | BRAF, MAP2K1, RAF1 |
| ERLOTINIB | 4 | BRAF, RAF1 |
| GEFITINIB | 4 | BRAF |
| IMATINIB | 4 | BRAF, RAF1 |
| LONAFARNIB | 4 | HRAS, KRAS |
| IDARUBICIN | 4 | SOS1 |
| DOXORUBICIN | 4 | SOS1 |
| SOTORASIB | 4 | KRAS, SOS1 |
| ADAGRASIB | 4 | KRAS, SOS1 |
| SELUMETINIB | 4 | MAP2K1 |
| TRAMETINIB | 4 | MAP2K1 |
| BINIMETINIB | 4 | MAP2K1 |
| AXITINIB | 4 | MAP2K1 |
| NERATINIB | 4 | MAP2K1 |
Druggability pyramid
Cohort genes binned by druggability tier (high → low):
| Tier | Definition | Genes | Symbols |
|---|---|---|---|
| A | Approved (phase 4 drug) | 7 | BRAF, HRAS, SOS1, KRAS, MAP2K1, PTPN11, RAF1 |
| B | Phased (≥1) drug, not yet approved | 1 | NRAS |
| C | Druggable family + PDB, no drug | 0 | |
| D | Druggable family + AlphaFold only, no drug | 0 | |
| E | Difficult family or no structure, no drug | 5 | SHOC2, TNNT2, SPRED1, EPS8L2, LRRC56 |
Undrugged target profiles
5 cohort genes are undrugged. Ranked by ‘starting-point quality’ (assay depth + drugged-partner adjacency).
| Symbol | ChEMBL assays | Drugged partners (top 3) |
|---|---|---|
| SHOC2 | 0 | SOS1, NRAS |
| SPRED1 | 0 | RAF1 |
| TNNT2 | 2 | — |
| EPS8L2 | 0 | — |
| LRRC56 | 0 | — |
Clinical trials & evidence
Clinical trials
Clinical trials: 8.
Phase distribution (across all retrieved trials)
| Phase | Trials |
|---|---|
| Not specified | 8 |
Top trials by phase / activity
| NCT | Phase | Status | Title |
|---|---|---|---|
| NCT04395495 | Not specified | RECRUITING | RASopathy Biorepository |
| NCT04888936 | Not specified | RECRUITING | Clinical, Genetic, and Epidemiologic Study of Children and Adults With RASopathies |
| NCT05361811 | Not specified | RECRUITING | Acceptance and Commitment Therapy for Caregivers of Children With a RASopathy: An Internal Pilot Feasibility Study and Follow-up Randomized Controlled Trial |
| NCT05761314 | Not specified | RECRUITING | Solid Tumors in RASopathies |
| NCT07005297 | Not specified | NOT_YET_RECRUITING | Clinical Genetics Branch Eligibility Screening Survey |
| NCT02812511 | Not specified | COMPLETED | Pathophysiology Analysis of Costello Syndrome on Cellular Models |
| NCT06331117 | Not specified | UNKNOWN | Effect of RAS/MAPK Pathway Hyperactivation on Growth’ and Bone’ Profile of the RASopathies |
| NCT06355622 | Not specified | UNKNOWN | Prevalence and Characterization of Pain in RASopathies |