Costello syndrome

disease
On 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:

TypeClassValueGeographyValidation
Cases/families300WorldwideValidated
Point prevalence<1 / 1 000 000WorldwideValidated
Point prevalence<1 / 1 000 0000.08JapanValidated

Signs & symptoms

Clinical features (HPO)

55 HPO clinical features (Orphanet curated; top 50 by frequency):

HPO IDTermFrequency
HP:0000189Narrow palateVery frequent (80-99%)
HP:0000256MacrocephalyVery frequent (80-99%)
HP:0000470Short neckVery frequent (80-99%)
HP:0000508PtosisVery frequent (80-99%)
HP:0000951Abnormality of the skinVery frequent (80-99%)
HP:0000956Acanthosis nigricansVery frequent (80-99%)
HP:0000962HyperkeratosisVery frequent (80-99%)
HP:0001231Abnormal fingernail morphologyVery frequent (80-99%)
HP:0001531Failure to thrive in infancyVery frequent (80-99%)
HP:0001582Redundant skinVery frequent (80-99%)
HP:0001598Concave nailVery frequent (80-99%)
HP:0001629Ventricular septal defectVery frequent (80-99%)
HP:0001642Pulmonic stenosisVery frequent (80-99%)
HP:0001814Deep-set nailsVery frequent (80-99%)
HP:0002224Woolly hairVery frequent (80-99%)
HP:0002750Delayed skeletal maturationVery frequent (80-99%)
HP:0004322Short statureVery frequent (80-99%)
HP:0005280Depressed nasal bridgeVery frequent (80-99%)
HP:0008872Feeding difficulties in infancyVery frequent (80-99%)
HP:0100679Lack of skin elasticityVery frequent (80-99%)
HP:0000486StrabismusFrequent (30-79%)
HP:0000028CryptorchidismFrequent (30-79%)
HP:0000158MacroglossiaFrequent (30-79%)
HP:0000164Abnormality of the dentitionFrequent (30-79%)
HP:0000179Thick lower lip vermilionFrequent (30-79%)
HP:0000286EpicanthusFrequent (30-79%)
HP:0000293Full cheeksFrequent (30-79%)
HP:0000474Thickened nuchal skin foldFrequent (30-79%)
HP:0000483AstigmatismFrequent (30-79%)
HP:0000543Optic disc pallorFrequent (30-79%)
HP:0000545MyopiaFrequent (30-79%)
HP:0000563KeratoconusFrequent (30-79%)
HP:0000639NystagmusFrequent (30-79%)
HP:0000682Abnormality of dental enamelFrequent (30-79%)
HP:0001249Intellectual disabilityFrequent (30-79%)
HP:0001382Joint hypermobilityFrequent (30-79%)
HP:0001561PolyhydramniosFrequent (30-79%)
HP:0001634Mitral valve prolapseFrequent (30-79%)
HP:0001639Hypertrophic cardiomyopathyFrequent (30-79%)
HP:0001800Hypoplastic toenailsFrequent (30-79%)
HP:0002020Gastroesophageal refluxFrequent (30-79%)
HP:0002120Cerebral cortical atrophyFrequent (30-79%)
HP:0004690Thickened Achilles tendonFrequent (30-79%)
HP:0007477Abnormal dermatoglyphicsFrequent (30-79%)
HP:0009465Ulnar deviation of fingerFrequent (30-79%)
HP:0012740PapillomaFrequent (30-79%)
HP:0000280Coarse facial featuresOccasional (5-29%)
HP:0000358Posteriorly rotated earsOccasional (5-29%)
HP:0000540HypermetropiaOccasional (5-29%)
HP:0001595Abnormality of the hairOccasional (5-29%)

Identifiers

Disease identifiers

FieldValue
Canonical nameCostello syndrome
Mondo IDMONDO:0009026
MeSHD056685
OMIM218040
Orphanet3071
DOIDDOID:0050469
ICD-111946512039
NCITC84652
SNOMED CT309776008
UMLSC0587248
MedGen108454
GARD0001550
MedDRA10067380
NORD1011
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

ClinVarVariant (HGVS)GeneClassificationReview
1209208NM_005343.4(HRAS):c.35_36delinsTT (p.Gly12Val)HRASPathogeniccriteria provided, multiple submitters, no conflicts
12600NM_005343.4(HRAS):c.35G>T (p.Gly12Val)HRASPathogeniccriteria provided, multiple submitters, no conflicts
12602NM_005343.4(HRAS):c.34G>A (p.Gly12Ser)HRASPathogenicreviewed by expert panel
12603NM_005343.4(HRAS):c.35G>C (p.Gly12Ala)HRASPathogeniccriteria provided, multiple submitters, no conflicts
12604NM_005343.4(HRAS):c.38G>A (p.Gly13Asp)HRASPathogeniccriteria provided, multiple submitters, no conflicts
12605NM_005343.4(HRAS):c.350A>G (p.Lys117Arg)HRASPathogenicreviewed by expert panel
12606NM_005343.4(HRAS):c.37G>T (p.Gly13Cys)HRASPathogenicreviewed by expert panel
12607NM_005343.4(HRAS):c.436G>A (p.Ala146Thr)HRASPathogenicno assertion criteria provided
12608NM_005343.4(HRAS):c.187G>A (p.Glu63Lys)HRASPathogeniccriteria provided, multiple submitters, no conflicts
12610NM_005343.4(HRAS):c.173C>T (p.Thr58Ile)HRASPathogenicreviewed by expert panel
12612NM_005343.4(HRAS):c.35G>A (p.Gly12Asp)HRASPathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
12613NM_005343.4(HRAS):c.34G>T (p.Gly12Cys)HRASPathogeniccriteria provided, multiple submitters, no conflicts
1321186NM_176795.5(HRAS):c.488_497del (p.Leu163fs)HRASPathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
1327492NM_005343.4(HRAS):c.466T>C (p.Phe156Leu)HRASPathogeniccriteria provided, single submitter
163690NM_005343.4(HRAS):c.35_36delinsAA (p.Gly12Glu)HRASPathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
29911NM_005343.4(HRAS):c.110_111+1dupHRASPathogenicno assertion criteria provided
29912NM_005343.4(HRAS):c.108_110dup (p.Glu37dup)HRASPathogenicno assertion criteria provided
35554NM_005343.4(HRAS):c.37G>C (p.Gly13Arg)HRASPathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
391700NM_005343.4(HRAS):c.179G>T (p.Gly60Val)HRASPathogeniccriteria provided, multiple submitters, no conflicts
40436NM_005343.4(HRAS):c.179G>A (p.Gly60Asp)HRASPathogeniccriteria provided, multiple submitters, no conflicts
462149NM_005343.4(HRAS):c.186_206dup (p.Glu62_Arg68dup)HRASPathogeniccriteria provided, single submitter
180848NM_005343.4(HRAS):c.38G>T (p.Gly13Val)LRRC56Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4072207NM_004333.6(BRAF):c.1082A>T (p.Asp361Val)BRAFLikely pathogeniccriteria provided, single submitter
120223NM_005343.4(HRAS):c.187_207dup (p.Glu63_Asp69dup)HRASLikely pathogeniccriteria provided, single submitter
12609NM_005343.4(HRAS):c.64C>A (p.Gln22Lys)HRASLikely pathogeniccriteria provided, multiple submitters, no conflicts
12611NM_005343.4(HRAS):c.437C>T (p.Ala146Val)HRASLikely pathogeniccriteria provided, multiple submitters, no conflicts
1478514NM_005343.4(HRAS):c.171_185dup (p.Asp57_Gln61dup)HRASLikely pathogeniccriteria provided, single submitter
160364NM_005343.4(HRAS):c.182A>G (p.Gln61Arg)HRASLikely pathogeniccriteria provided, multiple submitters, no conflicts
179260NM_005343.4(HRAS):c.175_176delinsCT (p.Ala59Leu)HRASLikely pathogeniccriteria provided, single submitter
375961NM_005343.4(HRAS):c.34G>C (p.Gly12Arg)HRASLikely pathogeniccriteria 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.

GeneClassificationInheritanceDiseaseRecords
HRASDefinitiveAutosomal dominantCostello syndrome8
NRASLimitedAutosomal dominantCostello syndrome10
BRAFDisputed EvidenceAutosomal dominantCostello syndrome23
KRASDisputed EvidenceAutosomal dominantCostello syndrome17
MAP2K1Disputed EvidenceAutosomal dominantCostello syndrome11
PTPN11Disputed EvidenceAutosomal dominantCostello syndrome19
RAF1Disputed EvidenceAutosomal dominantCostello syndrome18
SHOC2Disputed EvidenceAutosomal dominantCostello syndrome9
SOS1Disputed EvidenceAutosomal dominantCostello syndrome10

Orphanet rare-disease linkage (cohort genes)

GeneOrphanet IDRare disease
BRAFOrphanet:1340Cardiofaciocutaneous syndrome
BRAFOrphanet:146Differentiated thyroid carcinoma
BRAFOrphanet:251615Pilomyxoid astrocytoma
BRAFOrphanet:389Langerhans cell histiocytosis
BRAFOrphanet:500Noonan syndrome with multiple lentigines
BRAFOrphanet:54595Craniopharyngioma
BRAFOrphanet:58017Classic hairy cell leukemia
BRAFOrphanet:626Large/giant congenital melanocytic nevus
BRAFOrphanet:648Noonan syndrome
BRAFOrphanet:840Syringocystadenoma papilliferum
BRAFOrphanet:96253Cushing disease
HRASOrphanet:146Differentiated thyroid carcinoma
HRASOrphanet:2612Linear nevus sebaceus syndrome
HRASOrphanet:2874Phakomatosis pigmentokeratotica
HRASOrphanet:3071Costello syndrome
HRASOrphanet:79414Woolly hair nevus
SOS1Orphanet:2024Hereditary gingival fibromatosis
SOS1Orphanet:648Noonan syndrome
SHOC2Orphanet:2701Noonan syndrome-like disorder with loose anagen hair
KRASOrphanet:1333Familial pancreatic carcinoma
KRASOrphanet:1340Cardiofaciocutaneous syndrome
KRASOrphanet:144Lynch syndrome
KRASOrphanet:146Differentiated thyroid carcinoma
KRASOrphanet:2396Encephalocraniocutaneous lipomatosis
KRASOrphanet:251615Pilomyxoid astrocytoma
KRASOrphanet:2612Linear nevus sebaceus syndrome
KRASOrphanet:268114RAS-associated autoimmune leukoproliferative disease
KRASOrphanet:3339Oculoectodermal syndrome
KRASOrphanet:648Noonan syndrome
KRASOrphanet:86834Juvenile myelomonocytic leukemia
MAP2K1Orphanet:1340Cardiofaciocutaneous syndrome
MAP2K1Orphanet:389Langerhans cell histiocytosis
NRASOrphanet:146Differentiated thyroid carcinoma
NRASOrphanet:2612Linear nevus sebaceus syndrome
NRASOrphanet:268114RAS-associated autoimmune leukoproliferative disease
NRASOrphanet:389Langerhans cell histiocytosis
NRASOrphanet:626Large/giant congenital melanocytic nevus
NRASOrphanet:648Noonan syndrome
NRASOrphanet:86834Juvenile myelomonocytic leukemia
PTPN11Orphanet:2499Metachondromatosis
PTPN11Orphanet:500Noonan syndrome with multiple lentigines
PTPN11Orphanet:648Noonan syndrome
PTPN11Orphanet:86834Juvenile myelomonocytic leukemia
RAF1Orphanet:154Familial isolated dilated cardiomyopathy
RAF1Orphanet:251615Pilomyxoid astrocytoma
RAF1Orphanet:500Noonan syndrome with multiple lentigines
RAF1Orphanet:626Large/giant congenital melanocytic nevus
RAF1Orphanet:648Noonan syndrome
TNNT2Orphanet:154Familial isolated dilated cardiomyopathy
TNNT2Orphanet:54260Left ventricular noncompaction

Cohort genes → proteins

13 cohort genes, 13 distinct canonical proteins.

Evidence partition

SubsetGenes
multi_evidence13

Cohort genes (full)

SymbolHGNCEnsemblUniProtNameEvidence
BRAFHGNC:1097ENSG00000157764P15056Serine/threonine-protein kinase B-rafgencc,clinvar
HRASHGNC:5173ENSG00000174775P01112GTPase HRasgencc,clinvar
SOS1HGNC:11187ENSG00000115904Q07889Son of sevenless homolog 1gencc
SHOC2HGNC:15454ENSG00000108061Q9UQ13Leucine-rich repeat protein SHOC-2gencc
KRASHGNC:6407ENSG00000133703P01116GTPase KRasgencc
MAP2K1HGNC:6840ENSG00000169032Q02750Dual specificity mitogen-activated protein kinase kinase 1gencc
NRASHGNC:7989ENSG00000213281P01111GTPase NRasgencc
PTPN11HGNC:9644ENSG00000179295Q06124Tyrosine-protein phosphatase non-receptor type 11gencc
RAF1HGNC:9829ENSG00000132155P04049RAF proto-oncogene serine/threonine-protein kinasegencc
TNNT2HGNC:11949ENSG00000118194P45379Troponin T, cardiac muscleclinvar
SPRED1HGNC:20249ENSG00000166068Q7Z699Sprouty-related, EVH1 domain-containing protein 1clinvar
EPS8L2HGNC:21296ENSG00000177106Q9H6S3Epidermal growth factor receptor kinase substrate 8-like protein 2clinvar
LRRC56HGNC:25430ENSG00000161328Q8IYG6Leucine-rich repeat-containing protein 56clinvar

Cohort function summary

Lead sentence per gene, UniProt-curated.

SymbolProtein nameFunction (lead sentence)
BRAFSerine/threonine-protein kinase B-rafProtein kinase involved in the transduction of mitogenic signals from the cell membrane to the nucleus.
HRASGTPase HRasInvolved in the activation of Ras protein signal transduction.
SOS1Son of sevenless homolog 1Promotes the exchange of Ras-bound GDP by GTP.
SHOC2Leucine-rich repeat protein SHOC-2Core component of the SHOC2-MRAS-PP1c (SMP) holophosphatase complex that regulates activation of the MAPK pathway.
KRASGTPase KRasRas proteins bind GDP/GTP and possess intrinsic GTPase activity.
MAP2K1Dual specificity mitogen-activated protein kinase kinase 1Dual specificity protein kinase which acts as an essential component of the MAP kinase signal transduction pathway.
NRASGTPase NRasRas proteins bind GDP/GTP and possess intrinsic GTPase activity.
PTPN11Tyrosine-protein phosphatase non-receptor type 11Acts downstream of various receptor and cytoplasmic protein tyrosine kinases to participate in the signal transduction from the cell surface to the nucleus.
RAF1RAF proto-oncogene serine/threonine-protein kinaseSerine/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…
TNNT2Troponin T, cardiac muscleTroponin T is the tropomyosin-binding subunit of troponin, the thin filament regulatory complex which confers calcium-sensitivity to striated muscle actomyosin ATPase activity.
SPRED1Sprouty-related, EVH1 domain-containing protein 1Tyrosine kinase substrate that inhibits growth-factor-mediated activation of MAP kinase.
EPS8L2Epidermal growth factor receptor kinase substrate 8-like protein 2Stimulates guanine exchange activity of SOS1.
LRRC56Leucine-rich repeat-containing protein 56Required 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.

FamilyGenesFoldFDR
Kinase36.4×0.051
Phosphatase16.5×0.285
Scaffold/PPI22.7×0.285
Enzyme (other)21.8×0.370
Other/Unknown50.7×0.938

Per-gene assignment

SymbolFamilyDruggable?ECInterPro (top 3)
BRAFKinaseyes2.7.10.2Prot_kinase_dom, Ser-Thr/Tyr_kinase_cat_dom, PKC_DAG/PE
HRASEnzyme (other)yes3.6.5.2Small_GTPase, Small_GTP-bd, Small_GTPase_Ras-type
SOS1Scaffold/PPInoDH_dom, Ras-like_Gua-exchang_fac_N, PH_domain
SHOC2Other/UnknownnoLeu-rich_rpt, Leu-rich_rpt_typical-subtyp, LRR_dom_sf
KRASEnzyme (other)yes3.6.5.2Small_GTPase, Small_GTP-bd, Small_GTPase_Ras-type
MAP2K1Kinaseyes2.7.12.2Prot_kinase_dom, Ser/Thr_kinase_AS, Kinase-like_dom_sf
NRASOther/UnknownnoSmall_GTPase, Small_GTP-bd, Small_GTPase_Ras-type
PTPN11Phosphataseyes3.1.3.48PTP_cat, Tyr_Pase_dom, SH2
RAF1Kinaseyes2.7.10.2Prot_kinase_dom, Ser-Thr/Tyr_kinase_cat_dom, PKC_DAG/PE
TNNT2Other/UnknownnoTroponin, TNNT, Troponin_sf
SPRED1Other/UnknownnoWH1/EVH1_dom, Sprouty, PH-like_dom_sf
EPS8L2Scaffold/PPInoSH3_domain, PTB/PI_dom, PH-like_dom_sf
LRRC56Other/UnknownnoLeu-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)

BucketGenes
narrow (1-5 tissues)0
moderate (6-20)0
broad (>20)13
unknown0

Top tissues across cohort

TissueCohort genes
calcaneal tendon3
colonic epithelium2
secondary oocyte2
ventricular zone2
buccal mucosa cell1
skin of abdomen1
skin of leg1
zone of skin1
jejunal mucosa1
tendon of biceps brachii1
bone marrow1
sural nerve1
nipple1
pylorus1
trigeminal ganglion1
oocyte1
orbitofrontal cortex1
epithelium of nasopharynx1
gingival epithelium1
dorsal motor nucleus of vagus nerve1

Per-gene tissue summary (top 30)

SymbolBgee breadthFANTOM5 breadthSCXATop tissues
BRAF265ubiquitousmarkerbuccal mucosa cell, colonic epithelium, calcaneal tendon
HRAS139ubiquitousmarkerskin of abdomen, skin of leg, zone of skin
SOS1289ubiquitousmarkercolonic epithelium, jejunal mucosa, tendon of biceps brachii
SHOC2299ubiquitousmarkercalcaneal tendon, sural nerve, bone marrow
KRAS298ubiquitousmarkertrigeminal ganglion, pylorus, nipple
MAP2K1298ubiquitousmarkersecondary oocyte, oocyte, orbitofrontal cortex
NRAS278ubiquitousmarkergingival epithelium, epithelium of nasopharynx, secondary oocyte
PTPN11295ubiquitousmarkermedial globus pallidus, dorsal motor nucleus of vagus nerve, globus pallidus
RAF1299ubiquitousmarkergastrocnemius, muscle of leg, ventricular zone
TNNT2154broadmarkerapex of heart, right atrium auricular region, cardiac atrium
SPRED1248ubiquitousmarkerventricular zone, mucosa of sigmoid colon, calcaneal tendon
EPS8L2230ubiquitousmarkerlower esophagus mucosa, metanephros cortex, esophagus mucosa
LRRC56129broadmarkerright uterine tube, right testis, left testis

Protein interactions among cohort

Intra-cohort edges: 37.

Hub genes (top 10 by interactor count)

SymbolInteractor count
KRAS14,509
HRAS8,064
NRAS7,598
BRAF7,394
RAF16,574
PTPN116,009
MAP2K15,944
SOS13,625
SPRED12,744
SHOC22,149

Intra-cohort edges

ABSources
BRAFHRASintact, string_interaction
BRAFKRASbiogrid_interaction, intact, string_interaction
BRAFMAP2K1biogrid_interaction, intact, string_interaction
BRAFNRASbiogrid_interaction, intact, string_interaction
BRAFRAF1biogrid_interaction, intact, string_interaction
BRAFSHOC2string_interaction
BRAFSOS1string_interaction
BRAFSPRED1string_interaction
EPS8L2SOS1biogrid_interaction
EPS8L2SPRED1intact
HRASMAP2K1string_interaction
HRASRAF1intact, string_interaction
HRASSHOC2intact, string_interaction
HRASSOS1intact, string_interaction
KRASMAP2K1biogrid_interaction, string_interaction
KRASNRASintact
KRASRAF1intact, string_interaction
KRASSHOC2intact, string_interaction
KRASSOS1string_interaction
KRASSPRED1string_interaction
MAP2K1NRASstring_interaction
MAP2K1PTPN11biogrid_interaction, string_interaction
MAP2K1RAF1biogrid_interaction, intact, string_interaction
MAP2K1SHOC2string_interaction
NRASPTPN11string_interaction
NRASRAF1biogrid_interaction, intact, string_interaction
NRASSHOC2biogrid_interaction, intact, string_interaction
NRASSOS1string_interaction
NRASSPRED1string_interaction
PTPN11SHOC2string_interaction
PTPN11SOS1biogrid_interaction, string_interaction
RAF1SHOC2biogrid_interaction
RAF1SOS1string_interaction
RAF1SPRED1string_interaction
SHOC2SOS1string_interaction
SHOC2SPRED1string_interaction
SOS1SPRED1string_interaction

Structural data

PDB: 12 · AlphaFold-only: 1 · No structure: 0

Cohort genes with PDB structures (top 30)

SymbolUniProtPDB entries
KRASP01116511
HRASP01112246
BRAFP15056131
PTPN11Q06124115
MAP2K1Q0275094
SOS1Q0788991
RAF1P0404976
NRASP0111135
TNNT2P4537925
SHOC2Q9UQ1313
SPRED1Q7Z6993
EPS8L2Q9H6S32

AlphaFold-only cohort genes (top 30 by pLDDT)

SymbolUniProtpLDDT
LRRC56Q8IYG656.07

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.

PathwayCohort genesFoldFDRSample cohort genes
RAF activation7195.9×2e-13BRAF, HRAS, SHOC2, KRAS, MAP2K1, NRAS, RAF1
Activated NTRK2 signals through FRS2 and FRS35396.5×5e-11HRAS, SOS1, KRAS, NRAS, PTPN11
Signaling by high-kinase activity BRAF mutants6158.6×5e-11BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1
Signaling by FLT3 ITD and TKD mutants5317.2×5e-11HRAS, SOS1, KRAS, NRAS, PTPN11
MAP2K and MAPK activation6142.8×5e-11BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1
Signaling by RAF1 mutants6139.3×5e-11BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1
Negative regulation of MAPK pathway6132.8×5e-11BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1
Signaling by moderate kinase activity BRAF mutants6126.9×5e-11BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1
Paradoxical activation of RAF signaling by kinase inactive BRAF6126.9×5e-11BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1
Signaling downstream of RAS mutants6126.9×5e-11BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1
RAF/MAP kinase cascade840.7×5e-11BRAF, HRAS, SOS1, SHOC2, SPRED1, KRAS, MAP2K1, NRAS
Tie2 Signaling5250.4×1e-10HRAS, SOS1, KRAS, NRAS, PTPN11
FRS-mediated FGFR3 signaling5226.6×2e-10HRAS, SOS1, KRAS, NRAS, PTPN11
FRS-mediated FGFR4 signaling5206.9×3e-10HRAS, SOS1, KRAS, NRAS, PTPN11
RAS signaling downstream of NF1 loss-of-function variants4543.8×4e-10HRAS, SPRED1, KRAS, NRAS
FRS-mediated FGFR1 signaling5190.3×4e-10HRAS, SOS1, KRAS, NRAS, PTPN11
Signaling by BRAF and RAF1 fusions685.2×4e-10BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1
FRS-mediated FGFR2 signaling5183.0×4e-10HRAS, SOS1, KRAS, NRAS, PTPN11
SOS-mediated signalling4475.8×6e-10HRAS, SOS1, KRAS, NRAS
Downstream signal transduction5158.6×8e-10HRAS, SOS1, KRAS, NRAS, PTPN11
Activated NTRK3 signals through RAS4423.0×1e-09HRAS, SOS1, KRAS, NRAS
FLT3 Signaling5144.2×1e-09HRAS, SOS1, KRAS, NRAS, PTPN11
EGFR Transactivation by Gastrin4380.7×1e-09HRAS, SOS1, KRAS, NRAS
SHC-related events triggered by IGF1R4380.7×1e-09HRAS, SOS1, KRAS, NRAS
Activated NTRK2 signals through RAS4380.7×1e-09HRAS, SOS1, KRAS, NRAS
MET activates RAS signaling4346.1×2e-09HRAS, SOS1, KRAS, NRAS
Signaling by FGFR4 in disease4317.2×3e-09HRAS, SOS1, KRAS, NRAS
Constitutive Signaling by Overexpressed ERBB24317.2×3e-09HRAS, SOS1, KRAS, NRAS
Signaling by PDGFRA transmembrane, juxtamembrane and kinase domain mutants4292.8×4e-09HRAS, SOS1, KRAS, NRAS
Signaling by PDGFRA extracellular domain mutants4292.8×4e-09HRAS, 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 termCohort genesFoldFDRSample cohort genes
MAPK cascade670.7×3e-08BRAF, HRAS, KRAS, MAP2K1, NRAS, RAF1
Schwann cell development4324.1×5e-08HRAS, SOS1, MAP2K1, RAF1
neurotrophin TRK receptor signaling pathway3243.1×1e-05SOS1, PTPN11, RAF1
myelination477.4×1e-05HRAS, SOS1, MAP2K1, RAF1
Ras protein signal transduction463.2×2e-05HRAS, SOS1, KRAS, NRAS
face development3185.2×2e-05BRAF, MAP2K1, RAF1
cerebellar cortex formation2864.2×5e-05MAP2K1, PTPN11
thyroid gland development3125.5×5e-05BRAF, MAP2K1, RAF1
insulin-like growth factor receptor signaling pathway3114.4×6e-05SOS1, MAP2K1, RAF1
thymus development377.8×2e-04BRAF, MAP2K1, RAF1
fibroblast growth factor receptor signaling pathway365.9×3e-04SOS1, SHOC2, PTPN11
positive regulation of ERK1 and ERK2 cascade426.2×3e-04BRAF, HRAS, MAP2K1, PTPN11
epidermal growth factor receptor signaling pathway357.2×3e-04BRAF, SOS1, PTPN11
ERBB2-ERBB3 signaling pathway2259.3×4e-04MAP2K1, RAF1
insulin receptor signaling pathway351.2×4e-04HRAS, SOS1, RAF1
Bergmann glial cell differentiation2235.7×5e-04MAP2K1, PTPN11
regulation of long-term neuronal synaptic plasticity2152.5×0.001HRAS, KRAS
positive regulation of ruffle assembly2152.5×0.001HRAS, EPS8L2
type B pancreatic cell proliferation2136.4×0.001MAP2K1, RAF1
positive regulation of Ras protein signal transduction2136.4×0.001SHOC2, MAP2K1
regulation of neurotransmitter receptor localization to postsynaptic specialization membrane2136.4×0.001HRAS, MAP2K1
cytokine-mediated signaling pathway330.1×0.001SOS1, KRAS, PTPN11
positive regulation of peptidyl-serine phosphorylation2117.8×0.001BRAF, RAF1
positive regulation of Rac protein signal transduction299.7×0.002SOS1, KRAS
regulation of cell population proliferation326.6×0.002BRAF, HRAS, SOS1
negative regulation of neuron apoptotic process325.6×0.002BRAF, HRAS, KRAS
positive regulation of axonogenesis289.4×0.002BRAF, MAP2K1
regulation of Rho protein signal transduction278.6×0.003EPS8L2, RAF1
regulation of MAPK cascade270.1×0.003SHOC2, SPRED1
homeostasis of number of cells within a tissue268.2×0.003KRAS, 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.

SymbolExample approved molecule
BRAFVEMURAFENIB
HRASLONAFARNIB
SOS1IDARUBICIN
KRASVEMURAFENIB
MAP2K1VEMURAFENIB
PTPN11ESTRAMUSTINE PHOSPHATE
RAF1VEMURAFENIB

Top cohort targets by molecule count

SymbolMoleculesMax phase
MAP2K1544
BRAF484
RAF1314
KRAS114
PTPN1184
SOS154
HRAS44
NRAS11
SHOC200
TNNT200

Drugs targeting cohort genes (top 30)

MoleculeMax phaseTargets in cohort
VEMURAFENIB4BRAF, KRAS, MAP2K1, RAF1
PONATINIB4BRAF
FEDRATINIB4BRAF, MAP2K1
SORAFENIB4BRAF, MAP2K1, RAF1
DASATINIB ANHYDROUS4BRAF
RUXOLITINIB4BRAF, MAP2K1
INFIGRATINIB PHOSPHATE4BRAF
INFIGRATINIB4BRAF
REGORAFENIB4BRAF, RAF1
DABRAFENIB4BRAF, KRAS, RAF1
COBIMETINIB4BRAF, MAP2K1
NILOTINIB4BRAF, RAF1
ABEMACICLIB4BRAF
ENCORAFENIB4BRAF
TOVORAFENIB4BRAF, RAF1
PAZOPANIB4BRAF, RAF1
DASATINIB4BRAF, MAP2K1, RAF1
ERLOTINIB4BRAF, RAF1
GEFITINIB4BRAF
IMATINIB4BRAF, RAF1
LONAFARNIB4HRAS, KRAS
IDARUBICIN4SOS1
DOXORUBICIN4SOS1
SOTORASIB4KRAS, SOS1
ADAGRASIB4KRAS, SOS1
SELUMETINIB4MAP2K1
TRAMETINIB4MAP2K1
BINIMETINIB4MAP2K1
AXITINIB4MAP2K1
NERATINIB4MAP2K1

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 6.

Cohort genes with ChEMBL bioactivity (full, sorted by assay count)

SymbolAssaysType breakdown
BRAF1,442Binding:1400, Functional:37, ADMET:5
MAP2K11,200Binding:1150, Functional:47, ADMET:3
KRAS861Binding:829, Functional:32
RAF1839Binding:803, Functional:31, ADMET:5
PTPN11588Binding:585, Functional:2, ADMET:1
SOS1421Binding:409, Functional:12
HRAS48Binding:45, Functional:3
NRAS18Binding:18
TNNT22Binding:2

Cohort enzymes (BRENDA EC)

SymbolEC numbersNames
BRAF2.7.10.2, 2.7.11.1non-specific protein-tyrosine kinase, non-specific serine/threonine protein kinase
HRAS3.6.5.2small monomeric GTPase
KRAS3.6.5.2small monomeric GTPase
MAP2K12.7.12.2mitogen-activated protein kinase kinase
PTPN113.1.3.48protein-tyrosine-phosphatase
RAF12.7.10.2non-specific protein-tyrosine kinase

Cohort genes with high screening signal

≥100 ChEMBL assays — a studied-ness signal; see Therapeutics for approved-drug status.

SymbolChEMBL assays
BRAF1,442
SOS1421
KRAS861
MAP2K11,200
PTPN11588
RAF1839

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.

CompoundMax phaseCohort target (bioactivity)
VEMURAFENIB4BRAF, KRAS, MAP2K1, RAF1
PONATINIB4BRAF
FEDRATINIB4BRAF, MAP2K1
SORAFENIB4BRAF, MAP2K1, RAF1
DASATINIB ANHYDROUS4BRAF
RUXOLITINIB4BRAF, MAP2K1
INFIGRATINIB PHOSPHATE4BRAF
INFIGRATINIB4BRAF
REGORAFENIB4BRAF, RAF1
DABRAFENIB4BRAF, KRAS, RAF1
COBIMETINIB4BRAF, MAP2K1
NILOTINIB4BRAF, RAF1
ABEMACICLIB4BRAF
ENCORAFENIB4BRAF
TOVORAFENIB4BRAF, RAF1
PAZOPANIB4BRAF, RAF1
DASATINIB4BRAF, MAP2K1, RAF1
ERLOTINIB4BRAF, RAF1
GEFITINIB4BRAF
IMATINIB4BRAF, RAF1
LONAFARNIB4HRAS, KRAS
IDARUBICIN4SOS1
DOXORUBICIN4SOS1
SOTORASIB4KRAS, SOS1
ADAGRASIB4KRAS, SOS1
SELUMETINIB4MAP2K1
TRAMETINIB4MAP2K1
BINIMETINIB4MAP2K1
AXITINIB4MAP2K1
NERATINIB4MAP2K1

Druggability pyramid

Cohort genes binned by druggability tier (high → low):

TierDefinitionGenesSymbols
AApproved (phase 4 drug)7BRAF, HRAS, SOS1, KRAS, MAP2K1, PTPN11, RAF1
BPhased (≥1) drug, not yet approved1NRAS
CDruggable family + PDB, no drug0
DDruggable family + AlphaFold only, no drug0
EDifficult family or no structure, no drug5SHOC2, TNNT2, SPRED1, EPS8L2, LRRC56

Undrugged target profiles

5 cohort genes are undrugged. Ranked by ‘starting-point quality’ (assay depth + drugged-partner adjacency).

SymbolChEMBL assaysDrugged partners (top 3)
SHOC20SOS1, NRAS
SPRED10RAF1
TNNT22
EPS8L20
LRRC560

Clinical trials & evidence

Clinical trials

Clinical trials: 8.

Phase distribution (across all retrieved trials)

PhaseTrials
Not specified8

Top trials by phase / activity

NCTPhaseStatusTitle
NCT04395495Not specifiedRECRUITINGRASopathy Biorepository
NCT04888936Not specifiedRECRUITINGClinical, Genetic, and Epidemiologic Study of Children and Adults With RASopathies
NCT05361811Not specifiedRECRUITINGAcceptance and Commitment Therapy for Caregivers of Children With a RASopathy: An Internal Pilot Feasibility Study and Follow-up Randomized Controlled Trial
NCT05761314Not specifiedRECRUITINGSolid Tumors in RASopathies
NCT07005297Not specifiedNOT_YET_RECRUITINGClinical Genetics Branch Eligibility Screening Survey
NCT02812511Not specifiedCOMPLETEDPathophysiology Analysis of Costello Syndrome on Cellular Models
NCT06331117Not specifiedUNKNOWNEffect of RAS/MAPK Pathway Hyperactivation on Growth’ and Bone’ Profile of the RASopathies
NCT06355622Not specifiedUNKNOWNPrevalence and Characterization of Pain in RASopathies