Apert syndrome

disease
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Also known as acrocephalo-syndactyly type 1acrocephalosyndactyly type 1acrocephalosyndactyly type IACS1syndactylic oxycephalytype I Acrocephalosyndactyly

Summary

Apert syndrome (MONDO:0007041) is a disease caused by FGFR2 (GenCC Definitive), with 1 cohort gene and 1 clinical trial.

At a glance

  • Prevalence: Unknown (Europe) [Orphanet-validated]
  • Causal gene: FGFR2 (GenCC Definitive)
  • Cohort genes: 1
  • ClinVar variants: 126
  • Phenotypes (HPO): 59
  • Clinical trials: 1

Clinical features

Epidemiology

Prevalence records

9 prevalence record(s), Orphanet:

TypeClassValueGeographyValidation
Prevalence at birth1-9 / 100 000WorldwideValidated
Point prevalence1-9 / 100 0001.1SpainValidated
Point prevalence1-9 / 100 0001.2United StatesValidated
Point prevalence1-9 / 100 0001.47CanadaValidated
Prevalence at birth1-9 / 100 0001.1SpainValidated
Prevalence at birth1-9 / 100 0001.2United StatesValidated
Prevalence at birth1-9 / 100 0001.47CanadaValidated
Prevalence at birth1-9 / 100 0001.6AustraliaValidated
Point prevalence1-9 / 100 000WorldwideNot yet validated

Signs & symptoms

Clinical features (HPO)

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

HPO IDTermFrequency
HP:0000244BrachyturricephalyVery frequent (80-99%)
HP:0000327Hypoplasia of the maxillaVery frequent (80-99%)
HP:0000337Broad foreheadVery frequent (80-99%)
HP:0000405Conductive hearing impairmentVery frequent (80-99%)
HP:0000520ProptosisVery frequent (80-99%)
HP:0001363CraniosynostosisVery frequent (80-99%)
HP:0001770Toe syndactylyVery frequent (80-99%)
HP:0002007Frontal bossingVery frequent (80-99%)
HP:0004440Coronal craniosynostosisVery frequent (80-99%)
HP:0004487AcrobrachycephalyVery frequent (80-99%)
HP:0005280Depressed nasal bridgeVery frequent (80-99%)
HP:0006101Finger syndactylyVery frequent (80-99%)
HP:0012368Flat faceVery frequent (80-99%)
HP:0011380Morphological abnormality of the semicircular canalFrequent (30-79%)
HP:0011800Midface retrusionFrequent (30-79%)
HP:0000189Narrow palateFrequent (30-79%)
HP:0000239Large fontanellesFrequent (30-79%)
HP:0000303Mandibular prognathiaFrequent (30-79%)
HP:0000316HypertelorismFrequent (30-79%)
HP:0000324Facial asymmetryFrequent (30-79%)
HP:0000444Convex nasal ridgeFrequent (30-79%)
HP:0000486StrabismusFrequent (30-79%)
HP:0000494Downslanted palpebral fissuresFrequent (30-79%)
HP:0000586Shallow orbitsFrequent (30-79%)
HP:0000678Dental crowdingFrequent (30-79%)
HP:0000684Delayed eruption of teethFrequent (30-79%)
HP:0000689Dental malocclusionFrequent (30-79%)
HP:0000822HypertensionFrequent (30-79%)
HP:0000975HyperhidrosisFrequent (30-79%)
HP:0001249Intellectual disabilityFrequent (30-79%)
HP:0001274Agenesis of corpus callosumFrequent (30-79%)
HP:0001331Absent septum pellucidumFrequent (30-79%)
HP:0003422Vertebral segmentation defectFrequent (30-79%)
HP:0004635Cervical vertebrae fusion (C5/C6)Frequent (30-79%)
HP:0008872Feeding difficulties in infancyFrequent (30-79%)
HP:0009601Aplasia/Hypoplasia of the thumbFrequent (30-79%)
HP:0011304Broad thumbFrequent (30-79%)
HP:0000119Abnormality of the genitourinary systemOccasional (5-29%)
HP:0000175Cleft palateOccasional (5-29%)
HP:0000193Bifid uvulaOccasional (5-29%)
HP:0000238HydrocephalusOccasional (5-29%)
HP:0000388Otitis mediaOccasional (5-29%)
HP:0000407Sensorineural hearing impairmentOccasional (5-29%)
HP:0000453Choanal atresiaOccasional (5-29%)
HP:0000505Visual impairmentOccasional (5-29%)
HP:0000648Optic atrophyOccasional (5-29%)
HP:0002032Esophageal atresiaOccasional (5-29%)
HP:0002093Respiratory insufficiencyOccasional (5-29%)
HP:0002119VentriculomegalyOccasional (5-29%)
HP:0002308Chiari malformationOccasional (5-29%)

Identifiers

Disease identifiers

FieldValue
Canonical nameApert syndrome
Mondo IDMONDO:0007041
MeSHD000168
OMIM101200
Orphanet87
ICD-111962779847
NCITC99099
SNOMED CT205258009
UMLSC0001193
MedGen7858
GARD0005833
MedDRA10002943
NORD793
Is cancer (heuristic)no

Also known as: acrocephalo-syndactyly type 1 · acrocephalosyndactyly type 1 · acrocephalosyndactyly type I · ACS1 · Apert syndrome · syndactylic oxycephaly · type I Acrocephalosyndactyly

Data availability: 126 ClinVar variants · 4 GenCC gene-disease records · 2 cell lines.

Disease family

An umbrella term covering 1 Mondo subtype.

Classification path: disease › human disease › disease by body system or component › syndromic diseasesyndromic craniosynostosisacrocephalosyndactylyApert syndrome

Related subtypes (3): acrocephalopolysyndactyly, Saethre-Chotzen syndrome, Jackson-Weiss syndrome

Subtypes (1): Maroteaux Fonfria 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

126 retrieved; paginated sample, class counts are floors:

69 uncertain significance, 18 conflicting classifications of pathogenicity, 15 likely benign, 9 pathogenic, 7 pathogenic/likely pathogenic, 4 benign/likely benign, 3 likely pathogenic, 1 benign

ClinVarVariant (HGVS)GeneClassificationReview
1066784NM_000141.5(FGFR2):c.1061C>T (p.Ser354Phe)FGFR2Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
13263NM_000141.5(FGFR2):c.1025G>A (p.Cys342Tyr)FGFR2Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
13268NM_000141.5(FGFR2):c.1032G>A (p.Ala344=)FGFR2Pathogeniccriteria provided, multiple submitters, no conflicts
13272NM_000141.5(FGFR2):c.755C>G (p.Ser252Trp)FGFR2Pathogeniccriteria provided, multiple submitters, no conflicts
13273NM_000141.5(FGFR2):c.758C>G (p.Pro253Arg)FGFR2Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
13277NM_000141.5(FGFR2):c.1124A>G (p.Tyr375Cys)FGFR2Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
13287NM_000141.5:c.1040_1041ins[N[360];1026_1040]FGFR2Pathogenicno assertion criteria provided
13289NM_000141.5(FGFR2):c.943G>T (p.Ala315Ser)FGFR2Pathogeniccriteria provided, multiple submitters, no conflicts
13293NM_000141.5(FGFR2):c.870G>T (p.Trp290Cys)FGFR2Pathogeniccriteria provided, multiple submitters, no conflicts
13299NM_000141.5(FGFR2):c.1084+3A>GFGFR2Pathogeniccriteria provided, multiple submitters, no conflicts
1685821NM_000141.5(FGFR2):c.940-2A>CFGFR2Pathogeniccriteria provided, multiple submitters, no conflicts
374817NM_000141.5(FGFR2):c.1013G>A (p.Gly338Glu)FGFR2Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
374823NM_000141.5(FGFR2):c.1694A>G (p.Glu565Gly)FGFR2Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
449024NM_000141.5(FGFR2):c.314A>G (p.Tyr105Cys)FGFR2Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
478046NM_000141.5(FGFR2):c.1150G>A (p.Gly384Arg)FGFR2Pathogeniccriteria provided, multiple submitters, no conflicts
55867NM_000141.5(FGFR2):c.756_758delinsCTT (p.Pro253Phe)FGFR2Pathogenicno assertion criteria provided
13279NM_000141.5(FGFR2):c.755_756delinsTT (p.Ser252Phe)FGFR2Likely pathogeniccriteria provided, single submitter
2664499NM_000141.5:c.940-19_940-18insAluFGFR2Likely pathogeniccriteria provided, single submitter
4687933NM_000141.5(FGFR2):c.1966T>C (p.Tyr656His)FGFR2Likely pathogeniccriteria provided, single submitter
1000813NM_000141.5(FGFR2):c.16C>T (p.Arg6Cys)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
1052478NM_000141.5(FGFR2):c.1348C>T (p.Arg450Cys)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
134387NM_000141.5(FGFR2):c.34G>A (p.Val12Met)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
1415015NM_000141.5(FGFR2):c.2426T>C (p.Leu809Pro)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
1503438NM_000141.5(FGFR2):c.287G>T (p.Gly96Val)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
2891853NM_000141.5(FGFR2):c.1029G>A (p.Leu343=)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
2977031NM_000141.5(FGFR2):c.963C>A (p.Asp321Glu)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
298998NM_000141.5(FGFR2):c.1774C>T (p.Arg592Cys)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
3064171NM_000141.5(FGFR2):c.943G>A (p.Ala315Thr)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
3075688NM_000141.5(FGFR2):c.1124A>T (p.Tyr375Phe)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
3591007NM_000141.5(FGFR2):c.556A>G (p.Met186Val)FGFR2Conflicting classifications of pathogenicitycriteria provided, conflicting classifications

Genes & proteins

Mendelian disease overlap and somatic drivers

GenCC: 38 · Orphanet: 12 · 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
FGFR2DefinitiveAutosomal dominantApert syndrome38

Orphanet rare-disease linkage (cohort genes)

GeneOrphanet IDRare disease
FGFR2Orphanet:1540Jackson-Weiss syndrome
FGFR2Orphanet:1555Cutis gyrata-acanthosis nigricans-craniosynostosis syndrome
FGFR2Orphanet:168624Familial scaphocephaly syndrome, McGillivray type
FGFR2Orphanet:207Crouzon syndrome
FGFR2Orphanet:2363Lacrimoauriculodentodigital syndrome
FGFR2Orphanet:313855FGFR2-related bent bone dysplasia
FGFR2Orphanet:596008Antley-Bixler syndrome without genital anomaly or disorder of steroidogenesis
FGFR2Orphanet:794Saethre-Chotzen syndrome
FGFR2Orphanet:87Apert syndrome
FGFR2Orphanet:93258Pfeiffer syndrome type 1
FGFR2Orphanet:93259Pfeiffer syndrome type 2
FGFR2Orphanet:93260Pfeiffer syndrome type 3

Cohort genes → proteins

1 cohort genes, 1 distinct canonical proteins.

Evidence partition

SubsetGenes
multi_evidence1

Cohort genes (full)

SymbolHGNCEnsemblUniProtNameEvidence
FGFR2HGNC:3689ENSG00000066468P21802Fibroblast growth factor receptor 2gencc,clinvar

Cohort function summary

Lead sentence per gene, UniProt-curated.

SymbolProtein nameFunction (lead sentence)
FGFR2Fibroblast growth factor receptor 2Tyrosine-protein kinase that acts as a cell-surface receptor for fibroblast growth factors and plays an essential role in the regulation of cell proliferation, differentiation, migration and apoptosis, and in the regulation of embryonic de…

Protein-family classification

Druggable: 1 · Difficult: 0 · Unknown: 0 · Druggable fraction: 1.0

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
Kinase127.7×0.036

Per-gene assignment

SymbolFamilyDruggable?ECInterPro (top 3)
FGFR2Kinaseyes2.7.10.1Prot_kinase_dom, Ser-Thr/Tyr_kinase_cat_dom, Ig_sub2

Expression context

Cohort genes with no expression data: 0.

1 cohort gene 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)1
unknown0

Top tissues across cohort

TissueCohort genes
C1 segment of cervical spinal cord1
corpus callosum1
spinal cord1

Per-gene tissue summary (top 30)

SymbolBgee breadthFANTOM5 breadthSCXATop tissues
FGFR2272broadmarkerC1 segment of cervical spinal cord, spinal cord, corpus callosum

Protein interactions among cohort

Intra-cohort edges: 0.

Hub genes (top 10 by interactor count)

SymbolInteractor count
FGFR2449

Structural data

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

Cohort genes with PDB structures (top 30)

SymbolUniProtPDB entries
FGFR2P2180263

Function

Pathway analysis

Distinct Reactome pathways touched by cohort: 18. Enrichment computed across 1 evidence-associated genes (1 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 1 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

PathwayCohort genesFoldFDRSample cohort genes
Signaling by FGFR2 amplification mutants111420.0×8e-04FGFR2
Signaling by FGFR2 fusions111420.0×8e-04FGFR2
FGFR2b ligand binding and activation11142.0×0.004FGFR2
FGFR2c ligand binding and activation1878.5×0.004FGFR2
Activated point mutants of FGFR21671.8×0.004FGFR2
Phospholipase C-mediated cascade; FGFR21634.4×0.004FGFR2
Signaling by FGFR2 IIIa TM1601.0×0.004FGFR2
PI-3K cascade:FGFR21496.5×0.004FGFR2
SHC-mediated cascade:FGFR21475.8×0.004FGFR2
FRS-mediated FGFR2 signaling1439.2×0.004FGFR2
FGFR2 alternative splicing1423.0×0.004FGFR2
Negative regulation of FGFR2 signaling1368.4×0.004FGFR2
PI3K Cascade1271.9×0.005FGFR2
Signaling by FGFR2 in disease1265.6×0.005FGFR2
Constitutive Signaling by Aberrant PI3K in Cancer1126.9×0.009FGFR2
PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling196.8×0.012FGFR2
PIP3 activates AKT signaling166.8×0.016FGFR2
RAF/MAP kinase cascade161.1×0.016FGFR2

GO biological processes by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 1 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

GO termCohort genesFoldFDRSample cohort genes
fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptotic process in bone marrow cell116852.0×0.001FGFR2
fibroblast growth factor receptor signaling pathway involved in hemopoiesis116852.0×0.001FGFR2
fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow116852.0×0.001FGFR2
lateral sprouting from an epithelium116852.0×0.001FGFR2
orbitofrontal cortex development18426.0×0.001FGFR2
prostate gland morphogenesis18426.0×0.001FGFR2
squamous basal epithelial stem cell differentiation involved in prostate gland acinus development18426.0×0.001FGFR2
mammary gland bud formation18426.0×0.001FGFR2
branch elongation involved in salivary gland morphogenesis18426.0×0.001FGFR2
mesenchymal cell differentiation involved in lung development18426.0×0.001FGFR2
regulation of osteoblast proliferation15617.3×0.001FGFR2
fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development15617.3×0.001FGFR2
prostate epithelial cord elongation15617.3×0.001FGFR2
ventricular zone neuroblast division14213.0×0.001FGFR2
embryonic organ morphogenesis14213.0×0.001FGFR2
reproductive structure development14213.0×0.001FGFR2
regulation of morphogenesis of a branching structure14213.0×0.001FGFR2
positive regulation of phospholipase activity13370.4×0.001FGFR2
regulation of smooth muscle cell differentiation13370.4×0.001FGFR2
branching involved in prostate gland morphogenesis13370.4×0.001FGFR2
epithelial cell proliferation involved in salivary gland morphogenesis13370.4×0.001FGFR2
mesenchymal cell proliferation involved in lung development13370.4×0.001FGFR2
epidermis morphogenesis12808.7×0.001FGFR2
gland morphogenesis12407.4×0.001FGFR2
branching morphogenesis of a nerve12407.4×0.001FGFR2
bud elongation involved in lung branching12407.4×0.001FGFR2
positive regulation of epithelial cell proliferation involved in lung morphogenesis12407.4×0.001FGFR2
prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis12407.4×0.001FGFR2
pyramidal neuron development12106.5×0.001FGFR2
otic vesicle formation12106.5×0.001FGFR2

Therapeutics

Drug target analysis

Approved (phase 4): 1 · Phase ≥3: 1 · Phased (≥1): 1 · Undrugged: 0

Druggability breadth: 1 of 1 evidence-associated genes (100%) 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
FGFR2PONATINIB

Top cohort targets by molecule count

SymbolMoleculesMax phase
FGFR2594

Drugs targeting cohort genes (top 30)

MoleculeMax phaseTargets in cohort
PONATINIB4FGFR2
PEMIGATINIB4FGFR2
NINTEDANIB4FGFR2
FEDRATINIB4FGFR2
LENVATINIB4FGFR2
AXITINIB4FGFR2
SORAFENIB4FGFR2
INFIGRATINIB PHOSPHATE4FGFR2
INFIGRATINIB4FGFR2
IBRUTINIB4FGFR2
CERITINIB4FGFR2
VANDETANIB4FGFR2
NINTEDANIB ESYLATE4FGFR2
BRIGATINIB4FGFR2
ERDAFITINIB4FGFR2
FUTIBATINIB4FGFR2
PAZOPANIB4FGFR2
SUNITINIB4FGFR2
DASATINIB4FGFR2
ERLOTINIB4FGFR2
MIDOSTAURIN4FGFR2
LINIFANIB3FGFR2
SEMAXANIB3FGFR2
BRIVANIB3FGFR2
CEDIRANIB3FGFR2
DOVITINIB3FGFR2
LESTAURTINIB3FGFR2
TANDUTINIB2FGFR2
DORAMAPIMOD2FGFR2
FORETINIB2FGFR2

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 1.

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

SymbolAssaysType breakdown
FGFR2966Binding:940, Functional:22, ADMET:4

Cohort enzymes (BRENDA EC)

SymbolEC numbersNames
FGFR22.7.10.1receptor protein-tyrosine kinase

Cohort genes with high screening signal

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

SymbolChEMBL assays
FGFR2966

Pharmacogenomics

Cohort genes with a PharmGKB record: 1; 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)
PONATINIB4FGFR2
PEMIGATINIB4FGFR2
NINTEDANIB4FGFR2
FEDRATINIB4FGFR2
LENVATINIB4FGFR2
AXITINIB4FGFR2
SORAFENIB4FGFR2
INFIGRATINIB PHOSPHATE4FGFR2
INFIGRATINIB4FGFR2
IBRUTINIB4FGFR2
CERITINIB4FGFR2
VANDETANIB4FGFR2
NINTEDANIB ESYLATE4FGFR2
BRIGATINIB4FGFR2
ERDAFITINIB4FGFR2
FUTIBATINIB4FGFR2
PAZOPANIB4FGFR2
SUNITINIB4FGFR2
DASATINIB4FGFR2
ERLOTINIB4FGFR2
MIDOSTAURIN4FGFR2
LINIFANIB3FGFR2
SEMAXANIB3FGFR2
BRIVANIB3FGFR2
CEDIRANIB3FGFR2
DOVITINIB3FGFR2
LESTAURTINIB3FGFR2
TANDUTINIB2FGFR2
DORAMAPIMOD2FGFR2
FORETINIB2FGFR2

Druggability pyramid

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

TierDefinitionGenesSymbols
AApproved (phase 4 drug)1FGFR2
BPhased (≥1) drug, not yet approved0
CDruggable family + PDB, no drug0
DDruggable family + AlphaFold only, no drug0
EDifficult family or no structure, no drug0

Undrugged target profiles

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

Clinical trials & evidence

Clinical trials

Clinical trials: 1.

Phase distribution (across all retrieved trials)

PhaseTrials
Not specified1

Top trials by phase / activity

NCTPhaseStatusTitle
NCT07535372Not specifiedNOT_YET_RECRUITINGASO Treatment for Syndromic Craniosynostoses