Metaphyseal anadysplasia

disease
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Also known as early-onset regressive form of metaphyseal dysplasiaMADMaroteaux Verloes Stanescu syndromeMaroteaux-Verloes-Stanescu syndromeregressive metaphyseal dysplasia

Summary

Metaphyseal anadysplasia (MONDO:0015177) is a disease with 2 cohort genes.

At a glance

  • Prevalence: <1 / 1 000 000 (Worldwide) [Orphanet-validated]
  • Cohort genes: 2
  • ClinVar variants: 50
  • Phenotypes (HPO): 9

Clinical features

Epidemiology

Prevalence records

2 prevalence record(s), Orphanet:

TypeClassValueGeographyValidation
Cases/families27WorldwideValidated
Point prevalence<1 / 1 000 000WorldwideValidated

Signs & symptoms

Clinical features (HPO)

9 HPO clinical features (Orphanet curated; top 9 by frequency):

HPO IDTermFrequency
HP:0000944Abnormal metaphysis morphologyVery frequent (80-99%)
HP:0001387Joint stiffnessVery frequent (80-99%)
HP:0002814Abnormality of the lower limbVery frequent (80-99%)
HP:0004039Abnormality of ulnar metaphysisVery frequent (80-99%)
HP:0004322Short statureVery frequent (80-99%)
HP:0005930Abnormality of epiphysis morphologyVery frequent (80-99%)
HP:0006487Bowing of the long bonesVery frequent (80-99%)
HP:0006501Aplasia/Hypoplasia of the radiusVery frequent (80-99%)
HP:0040071Abnormal morphology of ulnaVery frequent (80-99%)

Identifiers

Disease identifiers

FieldValue
Canonical namemetaphyseal anadysplasia
Mondo IDMONDO:0015177
MeSHC537351
OMIM309645
Orphanet1040
ICD-11327336919
SNOMED CT254085009
UMLSC0432226
MedGen96582
GARD0003562
Is cancer (heuristic)no

Also known as: early-onset regressive form of metaphyseal dysplasia · MAD · Maroteaux Verloes Stanescu syndrome · Maroteaux-Verloes-Stanescu syndrome · regressive metaphyseal dysplasia

Data availability: 50 ClinVar variants · 2 GenCC gene-disease records.

Disease family

An umbrella term covering 1 Mondo subtype.

Classification path: disease › human disease › disease by etiologic mechanism › disease of genetic or genomic mechanism › hereditary diseaseskeletal dysplasiametaphyseal anadysplasia

Related subtypes (118): osteochondrodysplasia, diaphyseal medullary stenosis-bone malignancy syndrome, fibular aplasia-ectrodactyly syndrome, cerebrocostomandibular syndrome, cleidorhizomelic syndrome, dyschondrosteosis-nephritis syndrome, dysplasia epiphysealis hemimelica, carpotarsal osteochondromatosis, Camurati-Engelmann disease, genochondromatosis, autosomal dominant osteosclerosis, Worth type, coxopodopatellar syndrome, Lenz-Majewski hyperostotic dwarfism, delayed membranous cranial ossification, metaphyseal dysplasia-maxillary hypoplasia-brachydacty syndrome, oculodentodigital dysplasia, Ollier disease, osteoglophonic dysplasia, parietal foramina with cleidocranial dysplasia, chondromalacia patellae, Currarino triad, Proteus syndrome, brachydactyly-elbow wrist dysplasia syndrome, tricho-dento-osseous syndrome, bird headed-dwarfism, Montreal type, Yunis-Varon syndrome, split hand-foot malformation 1 with sensorineural hearing loss, ghosal hematodiaphyseal dysplasia, hyperostosis corticalis generalisata, Larsen-like syndrome, B3GAT3 type, mesomelic dwarfism-cleft palate-camptodactyly syndrome, metaphyseal acroscyphodysplasia, metaphyseal dysostosis-intellectual disability-conductive deafness syndrome, familial osteodysplasia, Anderson type, pseudodiastrophic dysplasia, rhizomelic syndrome, Urbach type, Richieri Costa-Pereira syndrome, craniometadiaphyseal dysplasia, wormian bone type, Weaver syndrome, SHOX-related short stature, craniofrontonasal syndrome, Eiken syndrome, 2q37 microdeletion syndrome, skeletal dysplasia-epilepsy-short stature syndrome, rhizomelic dysplasia, Patterson-Lowry type, pelvic dysplasia-arthrogryposis of lower limbs syndrome, Marshall-Smith syndrome, baby rattle pelvis dysplasia, metaphyseal dysplasia, Braun-Tinschert type, genitopatellar syndrome, osteofibrous dysplasia, Larsen-like osseous dysplasia-short stature syndrome, pancreatic insufficiency-anemia-hyperostosis syndrome, microcephalic primordial dwarfism due to ZNF335 deficiency, Hartsfield-Bixler-Demyer syndrome, colobomatous microphthalmia-rhizomelic dysplasia syndrome, Tatton-Brown-Rahman overgrowth syndrome, tall stature-scoliosis-macrodactyly of the great toes syndrome, Catel-Manzke syndrome, cognitive impairment - coarse facies - heart defects - obesity - pulmonary involvement - short stature - skeletal dysplasia syndrome, skeletal overgrowth-craniofacial dysmorphism-hyperelastic skin-white matter lesions syndrome, complex lethal osteochondrodysplasia, amniotic band syndrome, syndromic craniosynostosis, thin ribs-tubular bones-dysmorphism syndrome, dysplasia of head of femur, Meyer type, epimetaphyseal skeletal dysplasia, melorheostosis with osteopoikilosis, Cole-Carpenter syndrome, spondylometaphyseal dysplasia, omodysplasia, Bruck syndrome, osteopetrosis, congenital absence of upper arm and forearm with hand present, congenital absence of thigh and lower leg with foot present, congenital absence of both forearm and hand, congenital absence of both lower leg and foot, acheiria, apodia, chondroectodermal dysplasia with night blindness, TRPV4-related bone disorder, adactyly of foot, short stature-advanced bone age-early-onset osteoarthritis syndrome, McCune-Albright syndrome, parietal foramina, Sotos syndrome, dysspondyloenchondromatosis, autosomal recessive cutis laxa type 2, FGFR3-related chondrodysplasia, filamin-related bone disorder, short rib dysplasia, spondylodysplastic dysplasia, acromelic dysplasia, bent bone dysplasia, chondrodysplasia punctata, primary osteolysis, non-syndromic limb reduction defect, Robinow syndrome, synpolydactyly, acrocoxomesomelic dysplasia, bone dysplasia Moore type, bone dysplasia corpus callosum agenesis, type 2 collagenopathy, LRP5-related primary osteoporosis, SLC26A2-related skeletal dysplasia, COMP-related skeletal dysplasia, primordial dwarfism and slender bone disorder, polydactyly-syndactyly-triphalangism, lysosomal storage disease with skeletal involvement, abnormal mineralization disorder, calvarial doughnut lesions with bone fragility and spondylometaphyseal dysplasia, de la Chapelle dysplasia, mesomelic dysplasia-digital anomalies-intellectual disability syndrome, proximal femoral focal deficiency, rhizomelic dysplasia, Ain-Naz type, craniotubular dysplasia, Ikegawa type, TRIP11-related skeletal dysplasia, FAM111A-related skeletal dysplasia

Subtypes (1): metaphyseal anadysplasia 2

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

50 retrieved; paginated sample, class counts are floors:

21 uncertain significance, 17 conflicting classifications of pathogenicity, 9 benign/likely benign, 3 benign

ClinVarVariant (HGVS)GeneClassificationReview
301991NM_002427.4(MMP13):c.138C>T (p.Tyr46=)LOC126861318Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301992NM_002427.4(MMP13):c.52C>T (p.Arg18Trp)LOC126861318Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
196346NM_002427.4(MMP13):c.438C>T (p.Ser146=)MMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301958NM_002427.4(MMP13):c.*1219A>CMMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301973NM_002427.4(MMP13):c.*160G>AMMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301974NM_002427.4(MMP13):c.1372C>T (p.Arg458Cys)MMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301975NM_002427.4(MMP13):c.1315+15T>CMMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301981NM_002427.4(MMP13):c.968C>T (p.Thr323Met)MMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301982NM_002427.4(MMP13):c.951T>G (p.Asp317Glu)MMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301983NM_002427.4(MMP13):c.935A>G (p.His312Arg)MMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301987NM_002427.4(MMP13):c.770A>T (p.Asp257Val)MMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301989NM_002427.4(MMP13):c.509A>C (p.Lys170Thr)MMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
717251NM_002427.4(MMP13):c.1101C>G (p.Pro367=)MMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
879276NM_002427.4(MMP13):c.*156A>GMMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
879278NM_002427.4(MMP13):c.*13A>TMMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
880460NM_002427.4(MMP13):c.1315+12C>TMMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
880506NM_002427.4(MMP13):c.756T>C (p.Phe252=)MMP13Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
301990NM_002427.4(MMP13):c.301G>T (p.Val101Leu)LOC126861318Uncertain significancecriteria provided, multiple submitters, no conflicts
301959NM_002427.4(MMP13):c.*1102T>CMMP13Uncertain significancecriteria provided, single submitter
301960NM_002427.4(MMP13):c.*1007T>CMMP13Uncertain significancecriteria provided, single submitter
301964NM_002427.4(MMP13):c.*771T>GMMP13Uncertain significancecriteria provided, single submitter
301965NM_002427.4(MMP13):c.*756A>GMMP13Uncertain significancecriteria provided, single submitter
301967NM_002427.4(MMP13):c.*436G>CMMP13Uncertain significancecriteria provided, single submitter
301971NM_002427.4(MMP13):c.*275T>CMMP13Uncertain significancecriteria provided, single submitter
301972NM_002427.4(MMP13):c.*264C>TMMP13Uncertain significancecriteria provided, single submitter
301977NM_002427.4(MMP13):c.1123C>T (p.Leu375Phe)MMP13Uncertain significancecriteria provided, single submitter
301978NM_002427.4(MMP13):c.1082A>G (p.Asp361Gly)MMP13Uncertain significancecriteria provided, single submitter
301980NM_002427.4(MMP13):c.997C>T (p.Arg333Cys)MMP13Uncertain significancecriteria provided, multiple submitters, no conflicts
301988NM_002427.4(MMP13):c.686G>T (p.Gly229Val)MMP13Uncertain significancecriteria provided, single submitter
877656NM_002427.4(MMP13):c.*723A>TMMP13Uncertain significancecriteria provided, single submitter

Genes & proteins

Mendelian disease overlap and somatic drivers

GenCC: 14 · Orphanet: 4 · 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
MMP13DefinitiveAutosomal recessivemetaphyseal chondrodysplasia, Spahr type11
MMP9StrongAutosomal recessivemetaphyseal anadysplasia 23

Orphanet rare-disease linkage (cohort genes)

GeneOrphanet IDRare disease
MMP13Orphanet:1040Metaphyseal anadysplasia
MMP13Orphanet:2501Metaphyseal chondrodysplasia, Spahr type
MMP13Orphanet:93356Spondyloepimetaphyseal dysplasia, Missouri type
MMP9Orphanet:1040Metaphyseal anadysplasia

Cohort genes → proteins

2 cohort genes, 2 distinct canonical proteins.

Evidence partition

SubsetGenes
multi_evidence2

Cohort genes (full)

SymbolHGNCEnsemblUniProtNameEvidence
MMP13HGNC:7159ENSG00000137745P45452Collagenase 3gencc,clinvar
MMP9HGNC:7176ENSG00000100985P14780Matrix metalloproteinase-9gencc

Cohort function summary

Lead sentence per gene, UniProt-curated.

SymbolProtein nameFunction (lead sentence)
MMP13Collagenase 3Plays a role in the degradation of extracellular matrix proteins including fibrillar collagen, fibronectin, TNC and ACAN.
MMP9Matrix metalloproteinase-9Matrix metalloproteinase that plays an essential role in local proteolysis of the extracellular matrix and in leukocyte migration.

Protein-family classification

Druggable: 2 · 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
Protease236.6×7e-04

Per-gene assignment

SymbolFamilyDruggable?ECInterPro (top 3)
MMP13Proteaseyes3.4.24.17Hemopexin-like_dom, Pept_M10_metallopeptidase, Peptidoglycan-bd-like
MMP9Proteaseyes3.4.24.35FN_type2_dom, Hemopexin-like_dom, Pept_M10_metallopeptidase

Expression context

Cohort genes with no expression data: 0.

2 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)2
unknown0

Top tissues across cohort

TissueCohort genes
periodontal ligament2
tibia2
cartilage tissue1
trabecular bone tissue1

Per-gene tissue summary (top 30)

SymbolBgee breadthFANTOM5 breadthSCXATop tissues
MMP1362tissue_specificmarkerperiodontal ligament, cartilage tissue, tibia
MMP9204broadmarkerperiodontal ligament, trabecular bone tissue, tibia

Protein interactions among cohort

Intra-cohort edges: 0.

Hub genes (top 10 by interactor count)

SymbolInteractor count
MMP96,708
MMP132,467

Structural data

PDB: 2 · AlphaFold-only: 0 · No structure: 0

Cohort genes with PDB structures (top 30)

SymbolUniProtPDB entries
MMP13P4545249
MMP9P1478029

Function

Pathway analysis

Distinct Reactome pathways touched by cohort: 29. Enrichment computed across 2 evidence-associated genes (2 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 2 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

PathwayCohort genesFoldFDRSample cohort genes
Collagen formation2456.8×1e-04MMP13, MMP9
Activation of Matrix Metalloproteinases2308.6×1e-04MMP13, MMP9
Assembly of collagen fibrils and other multimeric structures2200.3×2e-04MMP13, MMP9
Collagen degradation2175.7×2e-04MMP13, MMP9
Degradation of the extracellular matrix2117.7×4e-04MMP13, MMP9
Extracellular matrix organization263.1×0.001MMP13, MMP9
RUNX2 regulates genes involved in cell migration1713.8×0.006MMP13
Transcriptional regulation by RUNX21126.9×0.026MMP13
Signaling by SCF-KIT1124.1×0.026MMP9
EPH-ephrin mediated repulsion of cells1109.8×0.026MMP9
Extra-nuclear estrogen signaling185.2×0.029MMP9
EPH-Ephrin signaling182.8×0.029MMP9
ESR-mediated signaling164.2×0.035MMP9
Interleukin-4 and Interleukin-13 signaling151.4×0.038MMP9
Signaling by Nuclear Receptors151.0×0.038MMP9
Signaling by Interleukins132.1×0.056MMP9
Signaling by Receptor Tyrosine Kinases125.8×0.065MMP9
Dengue Virus-Host Interactions122.8×0.067MMP9
Axon guidance122.6×0.067MMP9
Nervous system development121.5×0.067MMP9
Cytokine Signaling in Immune system120.4×0.067MMP9
Innate Immune System112.8×0.101MMP9
Neutrophil degranulation111.5×0.105MMP9
RNA Polymerase II Transcription111.3×0.105MMP13
Gene expression (Transcription)18.9×0.126MMP13
Generic Transcription Pathway17.5×0.143MMP13
Developmental Biology17.2×0.143MMP9
Immune System16.5×0.154MMP9
Signal Transduction15.1×0.187MMP9

GO biological processes by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 2 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

GO termCohort genesFoldFDRSample cohort genes
response to amyloid-beta2991.3×3e-05MMP13, MMP9
collagen catabolic process2391.9×7e-05MMP13, MMP9
extracellular matrix disassembly2366.4×7e-05MMP13, MMP9
extracellular matrix organization2122.1×5e-04MMP13, MMP9
negative regulation of cation transmembrane transport18426.0×6e-04MMP9
negative regulation of epithelial cell differentiation involved in kidney development18426.0×6e-04MMP9
growth plate cartilage development11053.2×0.004MMP13
proteolysis234.2×0.004MMP13, MMP9
cellular response to UV-A1702.2×0.004MMP9
regulation of neuroinflammatory response1702.2×0.004MMP9
positive regulation of keratinocyte migration1648.1×0.004MMP9
positive regulation of DNA binding1601.9×0.004MMP9
positive regulation of release of cytochrome c from mitochondria1383.0×0.006MMP9
negative regulation of intrinsic apoptotic signaling pathway1383.0×0.006MMP9
bone morphogenesis1300.9×0.007MMP13
endochondral ossification1271.8×0.007MMP13
endodermal cell differentiation1247.8×0.007MMP9
positive regulation of epidermal growth factor receptor signaling pathway1247.8×0.007MMP9
macrophage differentiation1234.1×0.007MMP9
positive regulation of vascular associated smooth muscle cell proliferation1216.1×0.007MMP9
embryo implantation1175.5×0.008MMP9
ephrin receptor signaling pathway1172.0×0.008MMP9
positive regulation of protein phosphorylation1138.1×0.009MMP9
bone mineralization1135.9×0.009MMP13
skeletal system development162.9×0.019MMP9
cellular response to lipopolysaccharide149.0×0.023MMP9
cell migration130.8×0.036MMP9
positive regulation of apoptotic process128.4×0.037MMP9
negative regulation of apoptotic process117.4×0.059MMP9
apoptotic process114.3×0.068MMP9

Therapeutics

Drug target analysis

Approved (phase 4): 2 · Phase ≥3: 2 · Phased (≥1): 2 · Undrugged: 0

Druggability breadth: 2 of 2 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
MMP13CHLOROXINE
MMP9CHLOROXINE

Top cohort targets by molecule count

SymbolMoleculesMax phase
MMP9264
MMP13134

Drugs targeting cohort genes (top 30)

MoleculeMax phaseTargets in cohort
CHLOROXINE4MMP13, MMP9
DOXYCYCLINE4MMP13
BUDESONIDE4MMP9
PRAZOSIN4MMP9
ZOLEDRONIC ACID4MMP9
SECOBARBITAL4MMP9
DACARBAZINE4MMP9
CHLORHEXIDINE4MMP9
ECONAZOLE4MMP9
BUSULFAN4MMP9
CURCUMIN3MMP13, MMP9
MARIMASTAT3MMP13, MMP9
QUERCETIN3MMP13, MMP9
PRINOMASTAT3MMP13, MMP9
CAFFEIC ACID3MMP9
CIPEMASTAT2MMP13, MMP9
LUTEOLIN2MMP13, MMP9
ILOMASTAT2MMP13, MMP9
APRATASTAT2MMP13, MMP9
TANOMASTAT2MMP13, MMP9
BATIMASTAT2MMP13, MMP9
CTS-10272MMP13, MMP9
TOSEDOSTAT2MMP9
SOLIMASTAT2MMP9
REBIMASTAT2MMP9
AMINOQUINURIDE2MMP9
S-33041MMP9

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 2.

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

SymbolAssaysType breakdown
MMP9713Binding:685, ADMET:20, Functional:8
MMP13452Binding:435, ADMET:8, Functional:6, Unclassified:3

Cohort enzymes (BRENDA EC)

SymbolEC numbersNames
MMP133.4.24.17, 3.4.24.35, 3.4.24.65, 3.4.24.B4stromelysin 1, gelatinase B, macrophage elastase,
MMP93.4.24.35gelatinase B

Cohort genes with high screening signal

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

SymbolChEMBL assays
MMP13452
MMP9713

Pharmacogenomics

Cohort genes with a PharmGKB record: 2; with CPIC/DPWG dosing guidelines: 0.

No cohort gene has a CPIC/DPWG genotype-guided dosing guideline (PharmGKB).

Chemical tractability of cohort targets

27 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)
CHLOROXINE4MMP13, MMP9
DOXYCYCLINE4MMP13
BUDESONIDE4MMP9
PRAZOSIN4MMP9
ZOLEDRONIC ACID4MMP9
SECOBARBITAL4MMP9
DACARBAZINE4MMP9
CHLORHEXIDINE4MMP9
ECONAZOLE4MMP9
BUSULFAN4MMP9
CURCUMIN3MMP13, MMP9
MARIMASTAT3MMP13, MMP9
QUERCETIN3MMP13, MMP9
PRINOMASTAT3MMP13, MMP9
CAFFEIC ACID3MMP9
CIPEMASTAT2MMP13, MMP9
LUTEOLIN2MMP13, MMP9
ILOMASTAT2MMP13, MMP9
APRATASTAT2MMP13, MMP9
TANOMASTAT2MMP13, MMP9
BATIMASTAT2MMP13, MMP9
CTS-10272MMP13, MMP9
TOSEDOSTAT2MMP9
SOLIMASTAT2MMP9
REBIMASTAT2MMP9
AMINOQUINURIDE2MMP9
S-33041MMP9

Druggability pyramid

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

TierDefinitionGenesSymbols
AApproved (phase 4 drug)2MMP13, MMP9
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: 0.