Tubulinopathy-associated dysgyria

disease
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Also known as brain stem asymmetry-superior cerebellar and basal ganglia dysplasia syndrome

Summary

Tubulinopathy-associated dysgyria (MONDO:0018763) is a disease with 3 cohort genes. The dominant Reactome pathway is Microtubule-dependent trafficking of connexons from Golgi to the plasma membrane (3 cohort genes).

At a glance

  • Prevalence: <1 / 1 000 000 (Worldwide) [Orphanet-validated]
  • Cohort genes: 3
  • ClinVar variants: 9
  • Phenotypes (HPO): 24

Clinical features

Epidemiology

Prevalence records

2 prevalence record(s), Orphanet:

TypeClassValueGeographyValidation
Cases/families7WorldwideValidated
Point prevalence<1 / 1 000 000WorldwideValidated

Signs & symptoms

Clinical features (HPO)

24 HPO clinical features (Orphanet curated; top 24 by frequency):

HPO IDTermFrequency
HP:0000252MicrocephalyVery frequent (80-99%)
HP:0001263Global developmental delayVery frequent (80-99%)
HP:0001273Abnormal corpus callosum morphologyVery frequent (80-99%)
HP:0001320Cerebellar vermis hypoplasiaVery frequent (80-99%)
HP:0002363Abnormal brainstem morphologyVery frequent (80-99%)
HP:0010663Abnormality of thalamus morphologyVery frequent (80-99%)
HP:0012110Hypoplasia of the ponsVery frequent (80-99%)
HP:0012502Abnormality of the internal capsuleVery frequent (80-99%)
HP:0032398DysgyriaVery frequent (80-99%)
HP:0000486StrabismusFrequent (30-79%)
HP:0000657Oculomotor apraxiaFrequent (30-79%)
HP:0001302PachygyriaFrequent (30-79%)
HP:0002119VentriculomegalyFrequent (30-79%)
HP:0007018Attention deficit hyperactivity disorderFrequent (30-79%)
HP:0012547Abnormal involuntary eye movementsFrequent (30-79%)
HP:0031882AgyriaFrequent (30-79%)
HP:0040327Abnormal morphology of the olfactory bulbFrequent (30-79%)
HP:0000256MacrocephalyOccasional (5-29%)
HP:0001251AtaxiaOccasional (5-29%)
HP:0001252HypotoniaOccasional (5-29%)
HP:0001488Bilateral ptosisOccasional (5-29%)
HP:0002121Generalized non-motor (absence) seizureOccasional (5-29%)
HP:0012469Infantile spasmsOccasional (5-29%)
HP:0020214Startle-induced seizureOccasional (5-29%)

Identifiers

Disease identifiers

FieldValue
Canonical nametubulinopathy-associated dysgyria
Mondo IDMONDO:0018763
Orphanet467166
UMLSC5568850
MedGen1800273
GARD0021944
Is cancer (heuristic)no

Also known as: brain stem asymmetry-superior cerebellar and basal ganglia dysplasia syndrome

Data availability: 9 ClinVar variants · 3 GenCC gene-disease records.

Disease family

Classification path: disease › human disease › disease by body system or component › nervous system disordercentral nervous system malformationtubulinopathy-associated dysgyria

Related subtypes (53): craniosynostosis-Dandy-Walker malformation-hydrocephalus syndrome, Aase-Smith syndrome, arachnoid cyst, facial dysmorphism-macrocephaly-myopia-Dandy-Walker malformation syndrome, Dandy-Walker malformation-postaxial polydactyly syndrome, cervical hypertrichosis-peripheral neuropathy syndrome, Joubert syndrome with oculorenal defect, NPHP3-related Meckel-like syndrome, orofaciodigital syndrome type 6, X-linked intellectual disability-cerebellar hypoplasia syndrome, syndromic X-linked intellectual disability Najm type, X-linked cerebral-cerebellar-coloboma syndrome syndrome, syndromic X-linked intellectual disability 5, holoprosencephaly-hypokinesia-congenital contractures syndrome, aprosencephaly cerebellar dysgenesis, Gomez-Lopez-Hernandez syndrome, PHACE syndrome, B4GALT1-congenital disorder of glycosylation, permanent neonatal diabetes mellitus-pancreatic and cerebellar agenesis syndrome, hypomyelinating leukodystrophy 8 with or without oligodontia and-or hypogonadotropic hypogonadism, pontine tegmental cap dysplasia, ataxia - intellectual disability - oculomotor apraxia - cerebellar cysts syndrome, cerebellar-facial-dental syndrome, lethal fetal cerebrorenogenitourinary agenesis/hypoplasia syndrome, autosomal recessive spinocerebellar ataxia 20, SLC39A8-CDG, severe intellectual disability-corpus callosum agenesis-facial dysmorphism-cerebellar ataxia syndrome, TELO2-related intellectual disability-neurodevelopmental disorder, isolated cerebellar vermis hypoplasia, cerebral gigantism-jaw cysts syndrome, holoprosencephaly-caudal dysgenesis syndrome, Joubert syndrome with ocular defect, macrocephaly-short stature-paraplegia syndrome, glioependymal/ependymal cyst, isolated cerebellar vermis agenesis, isolated unilateral hemispheric cerebellar hypoplasia, isolated bilateral hemispheric cerebellar hypoplasia, Hoyeraal-Hreidarsson syndrome, neural tube defect, partial corpus callosum agenesis-cerebellar vermis hypoplasia with posterior fossa cysts syndrome, X-linked intellectual disability-cerebellar hypoplasia-spondylo-epiphyseal dysplasia syndrome, global developmental delay-visual anomalies-progressive cerebellar atrophy-truncal hypotonia syndrome, rhombencephalosynapsis, Lhermitte-Duclos disease, Ritscher-Schinzel syndrome, spinal muscular atrophy-Dandy-Walker malformation-cataracts syndrome, cystic malformation of the posterior fossa, pontocerebellar hypoplasia, congenital labioscrotal agenesis-cerebellar malformation-corneal dystrophy-facial dysmorphism syndrome, childhood-onset motor and cognitive regression syndrome with extrapyramidal movement disorder, overgrowth syndrome and/or cerebral malformations due to abnormalities in MTOR pathway genes, hereditary cerebral malformation, isolated arhinencephaly

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

9 retrieved; paginated sample, class counts are floors:

3 pathogenic/likely pathogenic, 3 pathogenic, 3 conflicting classifications of pathogenicity

ClinVarVariant (HGVS)GeneClassificationReview
1206718NM_006009.4(TUBA1A):c.967G>A (p.Val323Met)TUBA1APathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
1330376NM_006009.4(TUBA1A):c.656T>C (p.Ile219Thr)TUBA1APathogeniccriteria provided, single submitter
1330377NM_006009.4(TUBA1A):c.1264C>A (p.Arg422Ser)TUBA1APathogeniccriteria provided, single submitter
160161NM_006009.4(TUBA1A):c.5G>A (p.Arg2His)TUBA1APathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
7071NM_006009.4(TUBA1A):c.1205G>A (p.Arg402His)TUBA1APathogeniccriteria provided, multiple submitters, no conflicts
873446NM_006009.4(TUBA1A):c.1049G>T (p.Gly350Val)TUBA1APathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
160159NM_006009.4(TUBA1A):c.521C>T (p.Ala174Val)TUBA1AConflicting classifications of pathogenicitycriteria provided, conflicting classifications
372561NM_006009.4(TUBA1A):c.652G>A (p.Asp218Asn)TUBA1AConflicting classifications of pathogenicitycriteria provided, conflicting classifications
625511NM_006009.4(TUBA1A):c.518C>T (p.Pro173Leu)TUBA1AConflicting classifications of pathogenicitycriteria provided, conflicting classifications

Genes & proteins

Mendelian disease overlap and somatic drivers

GenCC: 27 · Orphanet: 11 · 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
TUBA1ASupportiveAutosomal dominanttubulinopathy-associated dysgyria7
TUBB2BSupportiveAutosomal dominanttubulinopathy-associated dysgyria9
TUBB3SupportiveAutosomal dominanttubulinopathy-associated dysgyria11

Orphanet rare-disease linkage (cohort genes)

GeneOrphanet IDRare disease
TUBA1AOrphanet:171680Lissencephaly due to TUBA1A mutation
TUBA1AOrphanet:45358Congenital fibrosis of extraocular muscles
TUBA1AOrphanet:467166Tubulinopathy-associated dysgyria
TUBA1AOrphanet:994Fetal akinesia deformation sequence
TUBB3Orphanet:300570Cortical dysgenesis with pontocerebellar hypoplasia due to TUBB3 mutation
TUBB3Orphanet:45358Congenital fibrosis of extraocular muscles
TUBB3Orphanet:467166Tubulinopathy-associated dysgyria
TUBB2BOrphanet:1766Dysequilibrium syndrome
TUBB2BOrphanet:300573Polymicrogyria due to TUBB2B mutation
TUBB2BOrphanet:45358Congenital fibrosis of extraocular muscles
TUBB2BOrphanet:467166Tubulinopathy-associated dysgyria

Cohort genes → proteins

3 cohort genes, 3 distinct canonical proteins.

Evidence partition

SubsetGenes
multi_evidence3

Cohort genes (full)

SymbolHGNCEnsemblUniProtNameEvidence
TUBA1AHGNC:20766ENSG00000167552Q71U36Tubulin alpha-1A chaingencc,clinvar
TUBB3HGNC:20772ENSG00000258947Q13509Tubulin beta-3 chaingencc
TUBB2BHGNC:30829ENSG00000137285Q9BVA1Tubulin beta-2B chaingencc

Cohort function summary

Lead sentence per gene, UniProt-curated.

SymbolProtein nameFunction (lead sentence)
TUBA1ATubulin alpha-1A chainTubulin is the major constituent of microtubules, a cylinder consisting of laterally associated linear protofilaments composed of alpha- and beta-tubulin heterodimers.
TUBB3Tubulin beta-3 chainTubulin is the major constituent of microtubules, protein filaments consisting of alpha- and beta-tubulin heterodimers.
TUBB2BTubulin beta-2B chainTubulin is the major constituent of microtubules, a cylinder consisting of laterally associated linear protofilaments composed of alpha- and beta-tubulin heterodimers.

Protein-family classification

Druggable: 0 · Difficult: 0 · Unknown: 3 · Druggable fraction: 0.0

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
Other/Unknown31.8×0.174

Per-gene assignment

SymbolFamilyDruggable?ECInterPro (top 3)
TUBA1AOther/UnknownnoTubulin, Alpha_tubulin, Tubulin_FtsZ_GTPase
TUBB3Other/UnknownnoTubulin, Beta_tubulin, Tubulin_FtsZ_GTPase
TUBB2BOther/UnknownnoTubulin, Beta_tubulin, Tubulin_FtsZ_GTPase

Expression context

Cohort genes with no expression data: 0.

3 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)3
unknown0

Top tissues across cohort

TissueCohort genes
cortical plate3
ganglionic eminence3
endothelial cell1
embryo1
ventricular zone1

Per-gene tissue summary (top 30)

SymbolBgee breadthFANTOM5 breadthSCXATop tissues
TUBA1A288ubiquitousmarkerendothelial cell, cortical plate, ganglionic eminence
TUBB3144ubiquitousmarkercortical plate, ganglionic eminence, embryo
TUBB2B265ubiquitousmarkercortical plate, ganglionic eminence, ventricular zone

Protein interactions among cohort

Intra-cohort edges: 3.

Hub genes (top 10 by interactor count)

SymbolInteractor count
TUBB36,797
TUBB2B4,736
TUBA1A1,436

Intra-cohort edges

ABSources
TUBA1ATUBB2Bintact
TUBA1ATUBB3intact
TUBB2BTUBB3biogrid_interaction

Structural data

PDB: 3 · AlphaFold-only: 0 · No structure: 0

Cohort genes with PDB structures (top 30)

SymbolUniProtPDB entries
TUBB3Q1350928
TUBA1AQ71U3615
TUBB2BQ9BVA13

Function

Pathway analysis

Distinct Reactome pathways touched by cohort: 93. Enrichment computed across 3 evidence-associated genes (3 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 3 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

PathwayCohort genesFoldFDRSample cohort genes
Microtubule-dependent trafficking of connexons from Golgi to the plasma membrane3543.8×2e-07TUBA1A, TUBB3, TUBB2B
Transport of connexons to the plasma membrane3543.8×2e-07TUBA1A, TUBB3, TUBB2B
Gap junction trafficking and regulation3475.8×2e-07TUBA1A, TUBB3, TUBB2B
Gap junction trafficking3475.8×2e-07TUBA1A, TUBB3, TUBB2B
Post-chaperonin tubulin folding pathway3475.8×2e-07TUBA1A, TUBB3, TUBB2B
Formation of tubulin folding intermediates by CCT/TriC3423.0×2e-07TUBA1A, TUBB3, TUBB2B
Cooperation of Prefoldin and TriC/CCT in actin and tubulin folding3407.9×2e-07TUBA1A, TUBB3, TUBB2B
Prefoldin mediated transfer of substrate to CCT/TriC3393.8×2e-07TUBA1A, TUBB3, TUBB2B
Activation of AMPK downstream of NMDARs3380.7×2e-07TUBA1A, TUBB3, TUBB2B
RHO GTPases activate IQGAPs3346.1×2e-07TUBA1A, TUBB3, TUBB2B
Sealing of the nuclear envelope (NE) by ESCRT-III3346.1×2e-07TUBA1A, TUBB3, TUBB2B
HCMV Infection3326.3×2e-07TUBA1A, TUBB3, TUBB2B
Chaperonin-mediated protein folding3300.5×2e-07TUBA1A, TUBB3, TUBB2B
Gap junction assembly3292.8×2e-07TUBA1A, TUBB3, TUBB2B
Nuclear Envelope (NE) Reassembly3292.8×2e-07TUBA1A, TUBB3, TUBB2B
Selective autophagy3278.5×2e-07TUBA1A, TUBB3, TUBB2B
Protein folding3259.6×3e-07TUBA1A, TUBB3, TUBB2B
Assembly and cell surface presentation of NMDA receptors3253.8×3e-07TUBA1A, TUBB3, TUBB2B
Cargo trafficking to the periciliary membrane3248.3×3e-07TUBA1A, TUBB3, TUBB2B
Aggrephagy3248.3×3e-07TUBA1A, TUBB3, TUBB2B
Carboxyterminal post-translational modifications of tubulin3237.9×3e-07TUBA1A, TUBB3, TUBB2B
Recycling pathway of L13223.9×4e-07TUBA1A, TUBB3, TUBB2B
COPI-independent Golgi-to-ER retrograde traffic3207.6×4e-07TUBA1A, TUBB3, TUBB2B
Post NMDA receptor activation events3203.9×4e-07TUBA1A, TUBB3, TUBB2B
Intraflagellar transport3200.3×4e-07TUBA1A, TUBB3, TUBB2B
Antimicrobial mechanism of IFN-stimulated genes3196.9×4e-07TUBA1A, TUBB3, TUBB2B
HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand3193.6×5e-07TUBA1A, TUBB3, TUBB2B
Activation of NMDA receptors and postsynaptic events3184.2×5e-07TUBA1A, TUBB3, TUBB2B
Signaling by Hedgehog3184.2×5e-07TUBA1A, TUBB3, TUBB2B
Hedgehog ‘off’ state3178.4×5e-07TUBA1A, TUBB3, TUBB2B

GO biological processes by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 3 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

GO termCohort genesFoldFDRSample cohort genes
mitotic cell cycle3133.8×1e-05TUBA1A, TUBB3, TUBB2B
microtubule cytoskeleton organization3121.2×1e-05TUBA1A, TUBB3, TUBB2B
microtubule-based process2660.9×4e-05TUBA1A, TUBB2B
cerebral cortex development2137.0×7e-04TUBA1A, TUBB2B
neuron migration289.2×0.001TUBA1A, TUBB2B
positive regulation of axon guidance12808.7×0.002TUBB2B
pyramidal neuron differentiation11123.5×0.004TUBA1A
dorsal root ganglion development11123.5×0.004TUBB3
cerebellar cortex morphogenesis1936.2×0.005TUBA1A
neuron projection arborization1624.1×0.006TUBA1A
response to L-glutamate1561.7×0.006TUBA1A
forebrain morphogenesis1468.1×0.007TUBA1A
organelle transport along microtubule1401.2×0.007TUBA1A
startle response1374.5×0.007TUBA1A
locomotory exploration behavior1330.4×0.007TUBA1A
cytoskeleton-dependent intracellular transport1312.1×0.007TUBA1A
glial cell differentiation1295.6×0.007TUBA1A
microtubule polymerization1295.6×0.007TUBA1A
embryonic brain development1267.5×0.008TUBB2B
regulation of synapse organization1216.1×0.009TUBA1A
dentate gyrus development1208.1×0.009TUBA1A
response to tumor necrosis factor1208.1×0.009TUBA1A
motor behavior1187.2×0.009TUBA1A
homeostasis of number of cells within a tissue1147.8×0.011TUBA1A
centrosome cycle1112.3×0.014TUBA1A
visual learning1102.1×0.014TUBA1A
adult locomotory behavior1100.3×0.014TUBA1A
response to mechanical stimulus1100.3×0.014TUBA1A
synapse organization193.6×0.014TUBA1A
cellular response to calcium ion166.9×0.019TUBA1A

Therapeutics

Drug target analysis

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

Druggability breadth: 3 of 3 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
TUBA1ACOLCHICINE
TUBB3COLCHICINE
TUBB2BCOLCHICINE

Top cohort targets by molecule count

SymbolMoleculesMax phase
TUBA1A224
TUBB3214
TUBB2B214

Drugs targeting cohort genes (top 30)

MoleculeMax phaseTargets in cohort
COLCHICINE4TUBA1A, TUBB2B, TUBB3
VINBLASTINE4TUBA1A, TUBB2B, TUBB3
LEVOFLOXACIN ANHYDROUS4TUBA1A, TUBB2B, TUBB3
DOCETAXEL4TUBA1A, TUBB2B, TUBB3
NOSCAPINE4TUBA1A, TUBB2B, TUBB3
VINBLASTINE SULFATE4TUBA1A, TUBB2B, TUBB3
PACLITAXEL4TUBA1A, TUBB2B, TUBB3
LEVOFLOXACIN4TUBA1A, TUBB2B, TUBB3
VINORELBINE4TUBA1A, TUBB2B, TUBB3
TIRBANIBULIN4TUBA1A, TUBB2B, TUBB3
PODOFILOX4TUBA1A, TUBB2B, TUBB3
VINCRISTINE4TUBA1A, TUBB2B, TUBB3
DOCETAXEL ANHYDROUS4TUBA1A, TUBB2B, TUBB3
PATUPILONE3TUBA1A, TUBB2B, TUBB3
ABT-7512TUBA1A, TUBB2B, TUBB3
MAYTANSINE2TUBA1A, TUBB2B, TUBB3
DOLASTATIN-102TUBA1A, TUBB2B, TUBB3
INDIBULIN2TUBA1A, TUBB2B, TUBB3
PARBENDAZOLE2TUBA1A, TUBB2B, TUBB3
NOCODAZOLE2TUBA1A, TUBB2B, TUBB3
MOLIBRESIB2TUBA1A
COMBRETASTATIN1TUBA1A, TUBB2B, TUBB3

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 0.

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

SymbolAssaysType breakdown
TUBB31,781Binding:1741, Functional:34, ADMET:6
TUBB2B1,757Binding:1717, Functional:34, ADMET:6
TUBA1A1,696Binding:1655, Functional:35, ADMET:6

Cohort genes with high screening signal

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

SymbolChEMBL assays
TUBA1A1,696
TUBB31,781
TUBB2B1,757

Pharmacogenomics

Cohort genes with a PharmGKB record: 3; with CPIC/DPWG dosing guidelines: 0.

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

Chemical tractability of cohort targets

22 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)
COLCHICINE4TUBA1A, TUBB2B, TUBB3
VINBLASTINE4TUBA1A, TUBB2B, TUBB3
LEVOFLOXACIN ANHYDROUS4TUBA1A, TUBB2B, TUBB3
DOCETAXEL4TUBA1A, TUBB2B, TUBB3
NOSCAPINE4TUBA1A, TUBB2B, TUBB3
VINBLASTINE SULFATE4TUBA1A, TUBB2B, TUBB3
PACLITAXEL4TUBA1A, TUBB2B, TUBB3
LEVOFLOXACIN4TUBA1A, TUBB2B, TUBB3
VINORELBINE4TUBA1A, TUBB2B, TUBB3
TIRBANIBULIN4TUBA1A, TUBB2B, TUBB3
PODOFILOX4TUBA1A, TUBB2B, TUBB3
VINCRISTINE4TUBA1A, TUBB2B, TUBB3
DOCETAXEL ANHYDROUS4TUBA1A, TUBB2B, TUBB3
PATUPILONE3TUBA1A, TUBB2B, TUBB3
ABT-7512TUBA1A, TUBB2B, TUBB3
MAYTANSINE2TUBA1A, TUBB2B, TUBB3
DOLASTATIN-102TUBA1A, TUBB2B, TUBB3
INDIBULIN2TUBA1A, TUBB2B, TUBB3
PARBENDAZOLE2TUBA1A, TUBB2B, TUBB3
NOCODAZOLE2TUBA1A, TUBB2B, TUBB3
MOLIBRESIB2TUBA1A
COMBRETASTATIN1TUBA1A, TUBB2B, TUBB3

Druggability pyramid

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

TierDefinitionGenesSymbols
AApproved (phase 4 drug)3TUBA1A, TUBB3, TUBB2B
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.