Lewy body dementia

disease
On this page

Also known as cortical Lewy body diseasedementia with Lewy bodiesdementia, Lewy bodyDLBlewy body dementia, susceptibility toLewy body disease

Summary

Lewy body dementia (MONDO:0007488) is a disease caused by SNCA (GenCC Strong), with 19 cohort genes (130 GWAS associations across 20 studies) and 204 clinical trials. Top therapeutic interventions include donepezil, memantine, and rivastigmine.

At a glance

  • Causal gene: SNCA (GenCC Strong)
  • Cohort genes: 19
  • GWAS associations: 130
  • ClinVar variants: 126
  • Clinical trials: 204

Clinical features

No curated clinical features (Orphanet) for this disease.

Identifiers

Disease identifiers

FieldValue
Canonical nameLewy body dementia
Mondo IDMONDO:0007488
EFOEFO:0006792
OMIM127750
Orphanet1648
DOIDDOID:12217
ICD-10-CMG31.83
NCITC84826
SNOMED CT312991009
UMLSC0752347
MedGen199874
Is cancer (heuristic)no

Also known as: cortical Lewy body disease · dementia with Lewy bodies · dementia, Lewy body · DLB · Lewy body dementia · lewy body dementia, susceptibility to · Lewy body disease

Data availability: 126 ClinVar variants · 130 GWAS associations (20 studies) · 4 GenCC gene-disease records · 44 cell lines.

Disease family

Classification path: disease › human disease › disease by body system or component › nervous system disordercentral nervous system disorderneurodegenerative diseasesynucleinopathyLewy body dementia

Related subtypes (1): multiple system atrophy

Genetics & variants

GWAS landscape

130 GWAS associations across 20 studies. Top hits map to 32 distinct genes (as reported by GWAS).

Top associations by p-value

rsIDp-valueGeneRisk alleleOdds ratio
rs1575954e-145APOC1 - APOC1P1A25.65
rs7694493e-101APOEA2.32
rs4293583e-64APOEC2.46
rs67338392e-31BIN1 - NIFKP9T11.68
rs343118661e-27TMEM175C10.89
rs13725183e-26SNCAA10.61
rs25323074e-26KANSL1A10.58
rs356037272e-21UBQLN4A9.49
rs76805573e-17SNCA-AS1C0.76
rs22302885e-16GBA1T2.01
rs15322786e-14CLUT7.5
rs71850076e-14CTF2P - FBXL19-AS1T7.51
rs76814409e-13SNCA?1.37
rs105137891e-12MCCC1G7.08
rs1117893317e-12APOC1 - APOC1P1A2.59
rs46631057e-12BIN1 - NIFKP9A0.82
rs8942802e-11SNCA-AS1T1.22
rs14740553e-10STK39 - RN7SL813PT6.3
rs1120176055e-10LINC02929A3.01
rs357490117e-10HMGN2P18 - KRTCAP2G2.27
rs132162019e-10TREML2T6.12
rs127343741e-09ASH1L?4.31
rs65993883e-09TMEM175T1.15
rs6204903e-09MSR1 - RN7SL474PG5.91
rs18675984e-09ELOVL7G5.87
rs1178967358e-09INPP5FA5.76
rs8979841e-08BCL7C, MIR4519, MIR762HG?1.3
rs124531e-08MS4A6AC5.74
rs43895741e-08BST1A5.68
rs97909472e-08HAVCR2T5.61

Top studies (by case count)

StudyLead authorYearCasesControlsTitle
GCST90705033Zhu P20253,6635,290Genome-wide association study provides insights into the genetic basis of Lewy body dementia.
GCST90502823Bayram E20242,5914,023Genetic analysis of the X chromosome in people with Lewy body dementia nominates new risk loci.
GCST90133379Guo P20222,5914,027Pinpointing novel risk loci for Lewy body dementia and the shared genetic etiology with Alzheimer’s disease and Parkinson’s disease: a large-scale multi-trait association analysis.
GCST90001390Chia R20212,5914,027Genome sequencing analysis identifies new loci associated with Lewy body dementia and provides insights into its genetic architecture.
GCST90502821Bayram E20241,6431,963Genetic analysis of the X chromosome in people with Lewy body dementia nominates new risk loci.
GCST90093377Kaivola K20211,3932,271Genetic evaluation of dementia with Lewy bodies implicates distinct disease subgroups.
GCST005276Guerreiro R20181,2163,791Investigating the genetic architecture of dementia with Lewy bodies: a two-stage genome-wide association study.
GCST90093378Kaivola K20211,1800Genetic evaluation of dementia with Lewy bodies implicates distinct disease subgroups.
GCST90276157Talyansky S20231,0721,263APOE-ε4 and BIN1 increase risk of Alzheimer’s disease pathology but not specifically of Lewy body pathology.
GCST90276160Talyansky S20231,0722,492APOE-ε4 and BIN1 increase risk of Alzheimer’s disease pathology but not specifically of Lewy body pathology.

Variant details and genetic-evidence tiers

Tier distribution (top 50 variants)

TierVariants
Tier 1: coding5
Tier 2: splice/UTR1
Tier 3: regulatory0
Tier 4: intronic/intergenic44

MAF distribution

BucketVariants
common (>=0.05)37
low_freq (0.01-0.05)13
rare (<0.01)0
unknown0

Functional consequences

ConsequenceCount
intron_variant30
intergenic_variant10
missense_variant5
non_coding_transcript_exon_variant2
unknown2
3_prime_UTR_variant1

Top variants

rsIDChrPosAllelesMAFConsequenceGenep-valueTier
rs1575951944922203A>G,T0.41intergenic_variantAPOC1 - APOC1P14e-145Tier 4: intronic/intergenic
rs7694491944906745G>A0.11intron_variantAPOE3e-101Tier 4: intronic/intergenic
rs4293581944908684T>C0.14missense_variantAPOE3e-64Tier 1: coding
rs67338392127135234C>G,T0.362intron_variantBIN1 - NIFKP92e-31Tier 4: intronic/intergenic
rs343118664958159T>C0.202missense_variantTMEM1751e-27Tier 1: coding
rs1372518489836143A>C,G,T0.234intron_variantSNCA3e-26Tier 4: intronic/intergenic
rs25323071746143984G>A,C0.233intron_variantKANSL14e-26Tier 4: intronic/intergenic
rs356037271156038197G>A0.014intron_variantUBQLN42e-21Tier 4: intronic/intergenic
rs7680557489842209C>A,G,T0.491non_coding_transcript_exon_variantSNCA-AS13e-17Tier 4: intronic/intergenic
rs22302881155236376C>G,T0.013missense_variantGBA15e-16Tier 1: coding
rs1532278827608798T>A,C0.388intron_variantCLU6e-14Tier 4: intronic/intergenic
rs71850071630916188C>A,T0.239intergenic_variantCTF2P - FBXL19-AS16e-14Tier 4: intronic/intergenic
rs7681440489835399C>A,G,T0.48intron_variantSNCA9e-13Tier 4: intronic/intergenic
rs105137893183042285T>C,G0.201intron_variantMCCC11e-12Tier 4: intronic/intergenic
rs1117893311944923868T>A0.1intergenic_variantAPOC1 - APOC1P17e-12Tier 4: intronic/intergenic
rs46631052127133851A>C0.05intron_variantBIN1 - NIFKP97e-12Tier 4: intronic/intergenic
rs894280489839732C>A,G,T0.05intron_variantSNCA-AS12e-11Tier 4: intronic/intergenic
rs14740552168253884C>T0.127intron_variantSTK39 - RN7SL813P3e-10Tier 4: intronic/intergenic
rs1120176051062580294G>A0.06intron_variantLINC029295e-10Tier 4: intronic/intergenic
rs357490111155162560G>A,T0.014intergenic_variantHMGN2P18 - KRTCAP27e-10Tier 4: intronic/intergenic
rs13216201641194322G>T0.301intron_variantTREML29e-10Tier 4: intronic/intergenic
rs127343741155419060A>T0.05intron_variantASH1L1e-09Tier 4: intronic/intergenic
rs65993884945299C>T0.286intron_variantTMEM1753e-09Tier 4: intronic/intergenic
rs620490816840070T>A,C,G0.278intron_variantMSR1 - RN7SL474P3e-09Tier 4: intronic/intergenic
rs1867598560842132A>C,G0.099intron_variantELOVL74e-09Tier 4: intronic/intergenic
rs11789673510119776815G>A0.014intron_variantINPP5F8e-09Tier 4: intronic/intergenic
rs8979841630875322T>A,C,G0.4non_coding_transcript_exon_variantBCL7C, MIR4519, MIR762HG1e-08Tier 4: intronic/intergenic
rs124531160178272T>C,G0.411missense_variantMS4A6A1e-08Tier 1: coding
rs4389574415728775A>G0.452intron_variantBST11e-08Tier 4: intronic/intergenic
rs97909475157115171T>A,C0.165intergenic_variantHAVCR22e-08Tier 4: intronic/intergenic

ClinVar germline variants

126 retrieved; paginated sample, class counts are floors:

40 uncertain significance, 26 likely benign, 17 pathogenic/likely pathogenic, 16 pathogenic, 11 conflicting classifications of pathogenicity, 6 benign/likely benign, 5 likely pathogenic, 2 benign, 1 not provided, 1 conflicting classifications of pathogenicity; risk factor, 1 pathogenic/likely pathogenic; risk factor

ClinVarVariant (HGVS)GeneClassificationReview
1119997NM_000157.4(GBA1):c.604C>T (p.Arg202Ter)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
1211295NM_000157.4(GBA1):c.1249T>G (p.Trp417Gly)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
1722541NM_000157.4(GBA1):c.1361C>T (p.Pro454Leu)GBA1Pathogenicno assertion criteria provided
193611NM_000157.4(GBA1):c.1265_1319del (p.Leu422fs)GBA1Pathogeniccriteria provided, multiple submitters, no conflicts
21072NM_000157.4(GBA1):c.703T>C (p.Ser235Pro)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4290NM_000157.4(GBA1):c.1226A>G (p.Asn409Ser)GBA1Pathogenic/Likely pathogenic; risk factorcriteria provided, multiple submitters, no conflicts
4292NM_000157.4(GBA1):c.1297G>T (p.Val433Leu)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4293NM_000157.4(GBA1):c.1342G>C (p.Asp448His)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4295NM_000157.4(GBA1):c.1504C>T (p.Arg502Cys)GBA1Pathogeniccriteria provided, multiple submitters, no conflicts
4298NM_000157.4(GBA1):c.764T>A (p.Phe255Tyr)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4301NM_000157.4(GBA1):c.754T>A (p.Phe252Ile)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4302NM_000157.4(GBA1):c.84dup (p.Leu29fs)GBA1Pathogeniccriteria provided, multiple submitters, no conflicts
4311NM_000157.4(GBA1):c.1604G>A (p.Arg535His)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4314NM_000157.4(GBA1):c.680A>G (p.Asn227Ser)GBA1Pathogeniccriteria provided, multiple submitters, no conflicts
4321NM_000157.4(GBA1):c.259C>T (p.Arg87Trp)GBA1Pathogeniccriteria provided, multiple submitters, no conflicts
4326NM_000157.4(GBA1):c.1192C>T (p.Arg398Ter)GBA1Pathogeniccriteria provided, multiple submitters, no conflicts
4327NM_000157.4(GBA1):c.1246G>A (p.Gly416Ser)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4328NM_000157.4(GBA1):c.887G>A (p.Arg296Gln)GBA1Pathogeniccriteria provided, multiple submitters, no conflicts
632835NM_000157.4(GBA1):c.595_596del (p.Leu199fs)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
633240NM_000157.4(GBA1):c.762-1G>CGBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
642539NM_000157.4(GBA1):c.222_224del (p.Thr75del)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
928837NM_000157.4(GBA1):c.914del (p.Pro305fs)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
932181NM_000157.4(GBA1):c.661C>A (p.Pro221Thr)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
93445NM_000157.4(GBA1):c.115+1G>AGBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
987870NM_000157.4(GBA1):c.203dup (p.Thr69fs)GBA1Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
4306NM_000157.4(GBA1):c.1085C>T (p.Thr362Ile)LOC106627981Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
14011NC_000004.12:g.(?89724098)(89927969_89934809)dupLOC129389225Pathogenicno assertion criteria provided
14007NM_000345.4(SNCA):c.157G>A (p.Ala53Thr)SNCAPathogeniccriteria provided, multiple submitters, no conflicts
14010NM_000345.4(SNCA):c.136G>A (p.Glu46Lys)SNCAPathogeniccriteria provided, single submitter
1454898NC_000004.11:g.(?90647779)(90756818_?)dupSNCAPathogeniccriteria provided, single submitter

Genes & proteins

Mendelian disease overlap and somatic drivers

GenCC: 12 · Orphanet: 29 · OMIM-shared: 0 · Dual-evidence (GWAS+Mendelian): 2

Dual-evidence genes (GWAS + Mendelian — highest-confidence targets)

GeneHGNCEvidence routes
SNCASNCAGWAS, GenCC, Orphanet
GBA1GBA1GWAS, Orphanet

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
SNCAStrongAutosomal dominantLewy body dementia10
SNCBModerateUnknownLewy body dementia2

Orphanet rare-disease linkage (cohort genes)

GeneOrphanet IDRare disease
SNCAOrphanet:171695Parkinsonian-pyramidal syndrome
SNCAOrphanet:2828Young-onset Parkinson disease
SNCAOrphanet:411602Hereditary late-onset Parkinson disease
GBA1Orphanet:2072Gaucher disease-ophthalmoplegia-cardiovascular calcification syndrome
GBA1Orphanet:411602Hereditary late-onset Parkinson disease
GBA1Orphanet:77259Gaucher disease type 1
GBA1Orphanet:77260Gaucher disease type 2
GBA1Orphanet:77261Gaucher disease type 3
GBA1Orphanet:85212Fetal Gaucher disease
VCPOrphanet:100070Progressive non-fluent aphasia
VCPOrphanet:275864Behavioral variant of frontotemporal dementia
VCPOrphanet:275872Frontotemporal dementia with motor neuron disease
VCPOrphanet:329475Spastic paraplegia-Paget disease of bone syndrome
VCPOrphanet:329478Adult-onset distal myopathy due to VCP mutation
VCPOrphanet:435387Autosomal dominant Charcot-Marie-Tooth disease type 2Y
VCPOrphanet:52430Inclusion body myopathy with Paget disease of bone and frontotemporal dementia
VCPOrphanet:803Amyotrophic lateral sclerosis
STX1BOrphanet:36387Genetic epilepsy with febrile seizure plus
ASH1LOrphanet:178469Autosomal dominant non-syndromic intellectual disability
CTNND2Orphanet:178469Autosomal dominant non-syndromic intellectual disability
CTNND2Orphanet:281Monosomy 5p syndrome
CTNND2Orphanet:86814Familial adult myoclonic epilepsy
GNB5Orphanet:542306GNB5-related intellectual disability-cardiac arrhythmia syndrome
APOEOrphanet:329481Lipoprotein glomerulopathy
APOEOrphanet:412Dysbetalipoproteinemia
MYO7AOrphanet:231169Usher syndrome type 1
MYO7AOrphanet:231178Usher syndrome type 2
MYO7AOrphanet:90635Rare autosomal dominant non-syndromic sensorineural deafness type DFNA
MYO7AOrphanet:90636Rare autosomal recessive non-syndromic sensorineural deafness type DFNB

Cohort genes → proteins

19 cohort genes, 19 distinct canonical proteins.

Evidence partition

SubsetGenes
gwas_only15
gwas_and_clinvar1
multi_evidence3

Cohort genes (full)

SymbolHGNCEnsemblUniProtNameEvidence
SNCAHGNC:11138ENSG00000145335P37840Alpha-synucleingwas,gencc,clinvar
SNCBHGNC:11140ENSG00000074317Q16143Beta-synucleingencc,clinvar
GBA1HGNC:4177ENSG00000177628P04062Lysosomal acid glucosylceramidasegwas,clinvar
BCL7CHGNC:1006ENSG00000099385Q8WUZ0B-cell CLL/lymphoma 7 protein family member Cgwas
VCPHGNC:12666ENSG00000165280P55072Transitional endoplasmic reticulum ATPaseclinvar
PARVBHGNC:14653ENSG00000188677Q9HBI1Beta-parvingwas
PDLIM5HGNC:17468ENSG00000163110Q96HC4PDZ and LIM domain protein 5gwas
STX1BHGNC:18539ENSG00000099365P61266Syntaxin-1Bgwas
ASH1LHGNC:19088ENSG00000116539Q9NR48Histone-lysine N-methyltransferase ASH1Lgwas
VPS36HGNC:20312ENSG00000136100Q86VN1Vacuolar protein-sorting-associated protein 36gwas
FRMD3HGNC:24125ENSG00000172159A2A2Y4FERM domain-containing protein 3gwas
CTNND2HGNC:2516ENSG00000169862Q9UQB3Catenin delta-2gwas
GARNL3HGNC:25425ENSG00000136895Q5VVW2GTPase-activating Rap/Ran-GAP domain-like protein 3gwas
GON4LHGNC:25973ENSG00000116580Q3T8J9GON-4-like proteingwas
SPHKAPHGNC:30619ENSG00000153820Q2M3C7A-kinase anchor protein SPHKAPgwas
GNB5HGNC:4401ENSG00000069966O14775Guanine nucleotide-binding protein subunit beta-5gwas
IRF2HGNC:6117ENSG00000168310P14316Interferon regulatory factor 2gwas
APOEHGNC:613ENSG00000130203P02649Apolipoprotein Egwas
MYO7AHGNC:7606ENSG00000137474Q13402Unconventional myosin-VIIagwas

Cohort function summary

Lead sentence per gene, UniProt-curated.

SymbolProtein nameFunction (lead sentence)
SNCAAlpha-synucleinNeuronal protein that plays several roles in synaptic activity such as regulation of synaptic vesicle trafficking and subsequent neurotransmitter release.
SNCBBeta-synucleinNon-amyloid component of senile plaques found in Alzheimer disease.
GBA1Lysosomal acid glucosylceramidaseGlucosylceramidase that catalyzes, within the lysosomal compartment, the hydrolysis of glucosylceramides/GlcCers (such as beta-D-glucosyl-(1<->1’)-N-acylsphing-4-enine) into free ceramides (such as N-acylsphing-4-enine) and glucose.
BCL7CB-cell CLL/lymphoma 7 protein family member CMay play an anti-apoptotic role.
VCPTransitional endoplasmic reticulum ATPaseNecessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis.
PARVBBeta-parvinAdapter protein that plays a role in integrin signaling via ILK and in activation of the GTPases CDC42 and RAC1 by guanine exchange factors, such as ARHGEF6.
PDLIM5PDZ and LIM domain protein 5May play an important role in the heart development by scaffolding PKC to the Z-disk region.
STX1BSyntaxin-1BPotentially involved in docking of synaptic vesicles at presynaptic active zones.
ASH1LHistone-lysine N-methyltransferase ASH1LHistone methyltransferase specifically trimethylating ‘Lys-36’ of histone H3 forming H3K36me3.
VPS36Vacuolar protein-sorting-associated protein 36Component of the ESCRT-II complex (endosomal sorting complex required for transport II), which is required for multivesicular body (MVB) formation and sorting of endosomal cargo proteins into MVBs.
FRMD3FERM domain-containing protein 3Putative tumor suppressor gene that may be implicated in the origin and progression of lung cancer.
CTNND2Catenin delta-2Has a critical role in neuronal development, particularly in the formation and/or maintenance of dendritic spines and synapses.
GON4LGON-4-like proteinActs as a key transcription regulator of histones.
SPHKAPA-kinase anchor protein SPHKAPAnchoring protein that binds preferentially to the type I regulatory subunit of c-AMP-dependent protein kinase (PKA type I) and targets it to distinct subcellular compartments.
GNB5Guanine nucleotide-binding protein subunit beta-5Enhances GTPase-activating protein (GAP) activity of regulator of G protein signaling (RGS) proteins, such as RGS7 and RGS9, hence involved in the termination of the signaling initiated by the G protein coupled receptors (GPCRs) by acceler…
IRF2Interferon regulatory factor 2DNA-binding transcription factor that specifically binds to the upstream regulatory region of type I interferon (IFN) and IFN-inducible genes and regulates their expression.
APOEApolipoprotein EAPOE is an apolipoprotein, a protein associating with lipid particles, that mainly functions in lipoprotein-mediated lipid transport between organs via the plasma and interstitial fluids.
MYO7AUnconventional myosin-VIIaMyosins are actin-based motor molecules with ATPase activity.

Protein-family classification

Druggable: 2 · Difficult: 5 · Unknown: 12 · Druggable fraction: 0.11

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
Scaffold/PPI21.8×0.478
Transcription factor31.3×0.478
Enzyme (other)21.3×0.478
Other/Unknown121.1×0.478

Per-gene assignment

SymbolFamilyDruggable?ECInterPro (top 3)
SNCAOther/UnknownnoSynuclein, Synuclein_alpha
SNCBOther/UnknownnoSynuclein, Synuclein_beta
GBA1Enzyme (other)yes3.2.1.45Glyco_hydro_30, GH_hydrolase_sf, GH30_C
BCL7COther/UnknownnoBCL7
VCPEnzyme (other)yes3.6.4.6CDC4_N-term_subdom, AAA+_ATPase, ATPase_AAA_core
PARVBOther/UnknownnoCH_dom, Parvin, CH_dom_sf
PDLIM5Transcription factornoPDZ, Znf_LIM, PDZ_sf
STX1BOther/UnknownnoT_SNARE_dom, Syntaxin_N, Syntaxin/epimorphin_CS
ASH1LTranscription factorno2.1.1.357BAH_dom, SET_dom, Bromodomain
VPS36Other/UnknownnoPH-like_dom_sf, GLUE_dom, WH-like_DNA-bd_sf
FRMD3Other/UnknownnoFERM_domain, Ez/rad/moesin-like, PH-like_dom_sf
CTNND2Other/UnknownnoArmadillo, ARM-like, ARM-type_fold
GARNL3Other/UnknownnoRap/Ran_GAP_dom, CNH_dom, Rap/Ran-GAP_sf
GON4LTranscription factornoSANT/Myb, PAH, Homeodomain-like_sf
SPHKAPOther/UnknownnoSPHK1-interactor_AKAP_110, AKAP_110_C
GNB5Scaffold/PPInoWD40_G-protein_beta-like, WD40_rpt, WD40/YVTN_repeat-like_dom_sf
IRF2Other/UnknownnoInterferon_reg_fact_DNA-bd_dom, IRF1/IRF2, Interferon_reg_fac_CS
APOEOther/UnknownnoApoA_E, Apolipoprotein_A1/A4/E
MYO7AScaffold/PPInoIQ_motif_EF-hand-BS, FERM_domain, MyTH4_dom

Expression context

Cohort genes with no expression data: 0.

19 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)19
unknown0

Top tissues across cohort

TissueCohort genes
cerebellar hemisphere4
right hemisphere of cerebellum3
islet of Langerhans2
stromal cell of endometrium2
cerebellar cortex2
left ventricle myocardium2
left adrenal gland2
right adrenal gland cortex2
orbitofrontal cortex1
pons1
trabecular bone tissue1
right frontal lobe1
placenta1
apex of heart1
lower esophagus mucosa1
olfactory segment of nasal mucosa1
adrenal tissue1
gastrocnemius1
hindlimb stylopod muscle1
muscle of leg1

Per-gene tissue summary (top 30)

SymbolBgee breadthFANTOM5 breadthSCXATop tissues
SNCA280ubiquitousmarkertrabecular bone tissue, orbitofrontal cortex, pons
SNCB171broadmarkerright hemisphere of cerebellum, right frontal lobe, cerebellar hemisphere
GBA1134ubiquitousmarkerstromal cell of endometrium, islet of Langerhans, placenta
BCL7C262ubiquitousmarkerlower esophagus mucosa, olfactory segment of nasal mucosa, apex of heart
VCP294ubiquitousmarkerstromal cell of endometrium, adrenal tissue, islet of Langerhans
PARVB235ubiquitousmarkerhindlimb stylopod muscle, gastrocnemius, muscle of leg
PDLIM5295ubiquitousmarkerbiceps brachii, skeletal muscle tissue of biceps brachii, skeletal muscle tissue of rectus abdominis
STX1B176ubiquitousmarkerright hemisphere of cerebellum, cerebellar hemisphere, cerebellar cortex
ASH1L267ubiquitousmarkerBrodmann (1909) area 23, pylorus, cardia of stomach
VPS36254ubiquitousmarkerupper arm skin, ileal mucosa, skin of hip
FRMD3250broadmarkersecondary oocyte, kidney epithelium, left ventricle myocardium
CTNND2213broadmarkercortical plate, prefrontal cortex, amygdala
GARNL3207ubiquitousmarkercerebellar hemisphere, cerebellar cortex, right hemisphere of cerebellum
GON4L255ubiquitousmarkersural nerve, granulocyte, colonic epithelium
SPHKAP127tissue_specificmarkerleft ventricle myocardium, cardiac muscle of right atrium, myocardium
GNB5279ubiquitousmarkermiddle temporal gyrus, endothelial cell, cerebellar hemisphere
IRF2248ubiquitousmarkermonocyte, leukocyte, mononuclear cell
APOE267ubiquitousmarkerleft adrenal gland, left adrenal gland cortex, right adrenal gland cortex
MYO7A186broadmarkerright adrenal gland cortex, right adrenal gland, left adrenal gland

Protein interactions among cohort

Intra-cohort edges: 5.

Hub genes (top 10 by interactor count)

SymbolInteractor count
VCP10,015
SNCA7,615
APOE6,793
GNB52,987
ASH1L2,789
GBA12,568
CTNND22,437
IRF22,258
SNCB2,157
STX1B2,130

Intra-cohort edges

ABSources
APOESNCAintact, string_interaction
ASH1LGON4Lstring_interaction
GBA1SNCAbiogrid_interaction, string_interaction
GBA1SNCBstring_interaction
SNCASNCBbiogrid_interaction, intact, string_interaction

Structural data

PDB: 11 · AlphaFold-only: 8 · No structure: 0

Cohort genes with PDB structures (top 30)

SymbolUniProtPDB entries
SNCAP37840232
VCPP55072144
GBA1P0406258
GNB5O1477532
APOEP0264929
ASH1LQ9NR4816
PARVBQ9HBI13
PDLIM5Q96HC43
VPS36Q86VN13
IRF2P143161
MYO7AQ134021

AlphaFold-only cohort genes (top 30 by pLDDT)

SymbolUniProtpLDDT
STX1BP6126684.17
FRMD3A2A2Y475.03
GARNL3Q5VVW274.39
BCL7CQ8WUZ063.71
SNCBQ1614361.29
CTNND2Q9UQB358.88
GON4LQ3T8J948.51
SPHKAPQ2M3C747.68

Function

Pathway analysis

Distinct Reactome pathways touched by cohort: 158. Enrichment computed across 19 evidence-associated genes (14 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 14 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

PathwayCohort genesFoldFDRSample cohort genes
Toxicity of botulinum toxin type C (botC)1271.9×0.097STX1B
MTF1 activates gene expression1271.9×0.097SNCB
Attachment and Entry1203.9×0.097VCP
Translesion synthesis by Y family DNA polymerases bypasses lesions on DNA template1163.1×0.097VCP
DNA Damage Bypass1163.1×0.097VCP
Chylomicron clearance1163.1×0.097APOE
Neurotoxicity of clostridium toxins1102.0×0.097STX1B
Regulation of cytoskeletal remodeling and cell spreading by IPP complex components1102.0×0.097PARVB
Hh mutants abrogate ligand secretion1102.0×0.097VCP
Chylomicron assembly181.6×0.097APOE
Chylomicron remodeling181.6×0.097APOE
HDL remodeling181.6×0.097APOE
Early SARS-CoV-2 Infection Events174.2×0.097VCP
Josephin domain DUBs168.0×0.097VCP
Response to metal ions162.8×0.097SNCB
Uptake and actions of bacterial toxins158.3×0.097STX1B
LGI-ADAM interactions158.3×0.097STX1B
Protein ubiquitination158.3×0.097VCP
Regulated Necrosis151.0×0.097IRF2
Plasma lipoprotein assembly151.0×0.097APOE
Cell-extracellular matrix interactions148.0×0.097PARVB
Protein methylation148.0×0.097VCP
Formation of the non-canonical BAF (ncBAF) complex148.0×0.097BCL7C
Transcriptional regulation by the AP-2 (TFAP2) family of transcription factors145.3×0.097APOE
G beta:gamma signalling through BTK145.3×0.097GNB5
Formation of the canonical BAF (cBAF) complex145.3×0.097BCL7C
Formation of the polybromo-BAF (pBAF) complex145.3×0.097BCL7C
Translesion Synthesis by POLH142.9×0.097VCP
Scavenging by Class A Receptors142.9×0.097APOE
Prostacyclin signalling through prostacyclin receptor142.9×0.097GNB5

GO biological processes by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 18 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

GO termCohort genesFoldFDRSample cohort genes
negative regulation of protein metabolic process2234.1×0.003GBA1, APOE
positive regulation of neurotransmitter secretion2208.1×0.003SNCA, STX1B
negative regulation of platelet-derived growth factor receptor signaling pathway2208.1×0.003SNCA, APOE
negative regulation of MAPK cascade350.1×0.003GBA1, ASH1L, APOE
synapse organization346.8×0.003SNCA, SNCB, CTNND2
neuron apoptotic process330.9×0.007SNCA, SNCB, GBA1
positive regulation of endocytosis289.2×0.011SNCA, APOE
neutral lipid metabolic process1936.2×0.013SNCA
lipid transport involved in lipid storage1936.2×0.013APOE
positive regulation of SNARE complex assembly1936.2×0.013SNCA
regulation of acyl-CoA biosynthetic process1936.2×0.013SNCA
negative regulation of dopamine uptake involved in synaptic transmission1936.2×0.013SNCA
negative regulation of norepinephrine uptake1936.2×0.013SNCA
maintenance of location in cell1936.2×0.013APOE
pigment granule transport1936.2×0.013MYO7A
intermediate-density lipoprotein particle clearance1936.2×0.013APOE
flavin adenine dinucleotide catabolic process1936.2×0.013VCP
positive regulation of lipid transport across blood-brain barrier1936.2×0.013APOE
negative regulation of synaptic vesicle recycling1936.2×0.013STX1B
tarsal gland development1936.2×0.013ASH1L
uterine gland development1936.2×0.013ASH1L
positive regulation of spontaneous neurotransmitter secretion1936.2×0.013STX1B
response to desipramine1936.2×0.013SNCA
positive regulation of neuronal action potential1936.2×0.013GBA1
negative regulation of macropinocytosis1936.2×0.013STX1B
regulation of cellular response to very-low-density lipoprotein particle stimulus1936.2×0.013APOE
synaptic vesicle endocytosis248.0×0.013SNCA, SNCB
negative regulation of neuron apoptotic process318.5×0.013SNCA, SNCB, GBA1
regulation of glutamate secretion1468.1×0.018SNCA
cerebellar Purkinje cell layer formation1468.1×0.018GBA1

Therapeutics

Drugs indicated for this disease

0 approved, 1 in late-stage (phase 3) trials. Disease-direct ChEMBL indications, not inferred from the associated-gene cohort below.

DrugDevelopment status
GalantaminePhase 3 (in late-stage trials)

Drug target analysis

Approved (phase 4): 3 · Phase ≥3: 3 · Phased (≥1): 3 · Undrugged: 16

Druggability breadth: 5 of 19 evidence-associated genes (26%) 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
SNCAESTRADIOL
GBA1MIGALASTAT
VCPCLOTRIMAZOLE

Top cohort targets by molecule count

SymbolMoleculesMax phase
SNCA314
GBA1124
VCP44
SNCB00
BCL7C00
PARVB00
PDLIM500
STX1B00
ASH1L00
VPS3600

Drugs targeting cohort genes (top 30)

MoleculeMax phaseTargets in cohort
ESTRADIOL4SNCA
ESTRONE4SNCA
TETRACYCLINE4SNCA
PHYTONADIONE4SNCA
CEFTRIAXONE4SNCA
FLORBETAPIR4SNCA
ESTRIOL4SNCA
RIFAMPIN4SNCA
TRETINOIN4SNCA
TESTOSTERONE4SNCA
BRILLIANT BLUE G4SNCA
BROMOCRIPTINE4SNCA
PERGOLIDE4SNCA
DOPAMINE4SNCA
MENADIONE4SNCA
GENTIAN VIOLET4GBA1, SNCA
SELEGILINE4SNCA
RETINOL4SNCA
MIGALASTAT4GBA1
GLUCONOLACTONE4GBA1
MIGLITOL4GBA1
MEXILETINE4GBA1
CHLORHEXIDINE4GBA1
TAMOXIFEN4GBA1
CLOTRIMAZOLE4VCP
GANCICLOVIR4VCP
HEXACHLOROPHENE4VCP
CURCUMIN3SNCA
MENATETRENONE3SNCA
HYPERICIN3SNCA

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 3.

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

SymbolAssaysType breakdown
SNCA459Binding:458, Functional:1
GBA1436Binding:403, Functional:33
VCP120Binding:120
ASH1L65Binding:63, ADMET:1, Functional:1
PDLIM51Binding:1

Cohort enzymes (BRENDA EC)

SymbolEC numbersNames
GBA13.2.1.45glucosylceramidase
VCP3.6.4.6vesicle-fusing ATPase
ASH1L2.1.1.357[histone H3]-lysine36 N-dimethyltransferase

Cohort genes with high screening signal

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

SymbolChEMBL assays
SNCA459
GBA1436
VCP120

Pharmacogenomics

Cohort genes with a PharmGKB record: 19; 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)
ESTRADIOL4SNCA
ESTRONE4SNCA
TETRACYCLINE4SNCA
PHYTONADIONE4SNCA
CEFTRIAXONE4SNCA
FLORBETAPIR4SNCA
ESTRIOL4SNCA
RIFAMPIN4SNCA
TRETINOIN4SNCA
TESTOSTERONE4SNCA
BRILLIANT BLUE G4SNCA
BROMOCRIPTINE4SNCA
PERGOLIDE4SNCA
DOPAMINE4SNCA
MENADIONE4SNCA
GENTIAN VIOLET4GBA1, SNCA
SELEGILINE4SNCA
RETINOL4SNCA
MIGALASTAT4GBA1
GLUCONOLACTONE4GBA1
MIGLITOL4GBA1
MEXILETINE4GBA1
CHLORHEXIDINE4GBA1
TAMOXIFEN4GBA1
CLOTRIMAZOLE4VCP
GANCICLOVIR4VCP
HEXACHLOROPHENE4VCP
CURCUMIN3SNCA
MENATETRENONE3SNCA
HYPERICIN3SNCA

Druggability pyramid

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

TierDefinitionGenesSymbols
AApproved (phase 4 drug)3SNCA, GBA1, VCP
BPhased (≥1) drug, not yet approved0
CDruggable family + PDB, no drug0
DDruggable family + AlphaFold only, no drug0
EDifficult family or no structure, no drug16SNCB, BCL7C, PARVB, PDLIM5, STX1B, ASH1L, VPS36, FRMD3, CTNND2, GARNL3 (+6 more)

Undrugged target profiles

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

SymbolChEMBL assaysDrugged partners (top 3)
SNCB0GBA1
BCL7C0
PARVB0
PDLIM51
STX1B0
ASH1L65
VPS360
FRMD30
CTNND20
GARNL30
GON4L0
SPHKAP0
GNB50
IRF20
APOE0
MYO7A0

Clinical trials & evidence

Clinical trials

Clinical trials: 204.

Phase distribution (across all retrieved trials)

PhaseTrials
Not specified145
PHASE229
PHASE411
PHASE36
PHASE1/PHASE24
PHASE2/PHASE33
PHASE13
EARLY_PHASE13

Top trials by phase / activity

NCTPhaseStatusTitle
NCT00950430PHASE4ENROLLING_BY_INVITATIONImaging of Brain Amyloid Plaques in the Aging Population
NCT03582488PHASE4ENROLLING_BY_INVITATIONLongitudinal Imaging Biomarkers of Disease Progression in DLB
NCT03924414PHASE4ACTIVE_NOT_RECRUITINGTrial of Parkinson’s And Zoledronic Acid
NCT05514106PHASE4ENROLLING_BY_INVITATIONMIBG in Aging and Neurologic Disorders
NCT05590637PHASE4RECRUITINGComparing Antipsychotic Medications in LBD Over Time
NCT07284290PHASE4RECRUITINGElucidating the Role of Cholinergic Degeneration in Cognitive Fluctuations in Lewy Body Dementia
NCT00855686PHASE4COMPLETEDMemantine Versus Placebo in Parkinson’s Disease Dementia or Dementia With Lewy Bodies
NCT01023672PHASE4COMPLETEDPilot Study of Armodafinil in Patients With Dementia With Lewy Bodies
NCT02345213PHASE4COMPLETEDA Post-Marketing Clinical Study of Aricept in Patients With Dementia With Lewy Bodies (DLB)
NCT04117178PHASE4COMPLETEDMonitoring Anti-Dementia Drugs by Serum Levels
NCT06263673PHASE4COMPLETEDAnti-Diabetic Medications to Fight PD and LBD
NCT04706910PHASE3RECRUITING18F-DOPA II - PET Imaging Optimization
NCT06120049PHASE2/PHASE3RECRUITING[18F]-MFBG Versus [123I]-MIBG and [18F]-PE2I in PD vs. MSA and DLB vs. AD
NCT00209456PHASE3COMPLETEDDopamine Transporter Scintigraphy Imaging (DAT-Imaging) in Patients With Lewy Body Dementia
NCT00230997PHASE3COMPLETEDSafety and Efficacy of Galantamine in Patients With Dementia With Lewy Bodies
NCT00448318PHASE2/PHASE3UNKNOWNEvaluating the Effects of Music Interventions on Hospitalised People With Dementia
NCT01278407PHASE3COMPLETEDA Study of E2020 in Patients With Dementia With Lewy Bodies (DLB), Followed by a Long-term Extension Phase
NCT01577394PHASE3COMPLETEDOculomotor Testing in the Differential Diagnosis of Dementia
NCT02928445PHASE2/PHASE3TERMINATEDLong-Term Extension Study of Intepirdine (RVT-101) in Subjects With Dementia With Lewy Bodies: HEADWAY-DLB Extension
NCT05428475PHASE3UNKNOWNImplementation and Evaluation of Improved Access to Medical Imaging for Geriatric Patients of The Royal Ottawa Hospital
NCT03996460PHASE2RECRUITINGK0706 for Patients Diagnosed With Dementia With Lewy Bodies
NCT04148391PHASE2ACTIVE_NOT_RECRUITINGNYX-458 in Subjects With Mild Cognitive Impairment or Mild Dementia Due to Parkinson’s Disease or Lewy Body Dementia (Cognition, Memory, Attention, Thinking)
NCT04405596PHASE1/PHASE2NOT_YET_RECRUITINGAmbroxol as a Novel Disease Modifying Treatment for Lewy Body Dementia
NCT04588285PHASE2RECRUITINGAmbroxol in New and Early DLB, A Phase IIa Multicentre Randomized Controlled Double Blind Clinical Trial
NCT04760860PHASE1/PHASE2NOT_YET_RECRUITINGTerazosin for Dementia With Lewy Bodies
NCT04786223PHASE2ENROLLING_BY_INVITATIONTargeting Neuroinflammation as a Contributing Pathology in Alzheimer’s Disease Dementia and Related Dementias
NCT06537076PHASE2RECRUITINGSafety and Efficacy of AR1005 in Patients with Lewy Body Disease
NCT07122908PHASE1/PHASE2RECRUITINGThe Effect of Repetitive Transcranial Magnetic Stimulation on Cognitive Improvement in Dementia With Lewy Bodies
NCT07176286PHASE2RECRUITING18F-mFBG Cardiac Uptake With Lewy Body Dementia
NCT07589595PHASE2NOT_YET_RECRUITINGA Study of Donanemab (LY3002813) in Participants With Early Cognitive Decline (TRAILBLAZER-ALZ 7)
NCT00543855PHASE2COMPLETEDA Double-blind Study of E2020 (Donepezil Hydrochloride) in Patients With Dementia With Lewy Bodies (DLB) (Study E2020-J081-431)
NCT00598650PHASE2COMPLETEDA Long-term, Extension Study of E2020 in Patients With Dementia With Lewy Bodies
NCT00630500PHASE2COMPLETEDEfficacy and Safety of Memantine for Parkinson’s Disease Dementia (PDD) and Dementia With Lewy Bodies (DLB)
NCT01503944PHASE1/PHASE2COMPLETEDA Trial of 18F-AV-133 and 18F-AV-45 Positron Emission Tomography (PET)
NCT02640729PHASE2COMPLETEDStudy Evaluating Nelotanserin for Treatment of Visual Hallucinations in Subjects With Lewy Body Dementia
NCT02669433PHASE2COMPLETEDStudy Evaluating Intepirdine (RVT-101) in Subjects With Dementia With Lewy Bodies: The HEADWAY-DLB Study
NCT02702102PHASE2COMPLETEDImaging Inflammation in Patients With Parkinson’s Disease Dementia or Dementia With Lewy Bodies
NCT02708186PHASE2COMPLETEDStudy Evaluating Nelotanserin for Treatment of REM Sleep Behavior Disorder in Subjects With Dementia (DLB or PDD)
NCT02871427PHASE2TERMINATEDOpen-label Study of Nelotanserin in Lewy Body Dementia With Visual Hallucinations or REM Sleep Behavior Disorder
NCT02910102PHASE2COMPLETEDStudy Evaluating Intepirdine (RVT-101) on Gait and Balance in Subjects With Dementia

Drugs tested across these trials (top 30)

MoleculeMax phaseTrials referencing
DONEPEZIL410
MEMANTINE43
RIVASTIGMINE43
ZOLEDRONIC ACID ANHYDROUS43
IOFLUPANE I 12342
ARMODAFINIL41
BOSUTINIB41
DONANEMAB41
FLORBETABEN F1841
FLORBETAPIR F 1841
FLUORODOPA F 1841
FLUTEMETAMOL41
FUROSEMIDE41
GALANTAMINE41
PIMAVANSERIN41
QUETIAPINE41
RAMELTEON41
TERAZOSIN HYDROCHLORIDE41
AMBROXOL35
INTEPIRDINE33
FLORBENGUANE F1831
FOSGONIMETON31
MICROCRYSTALLINE CELLULOSE31
NEFLAMAPIMOD23
NELOTANSERIN23
IRSENONTRINE22
PITTSBURGH COMPOUND B22
FLORBENAZINE F 1821
MEVIDALEN21
NEVADISTINEL21