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Relevance to Autism

De novo missense variants in the DYNC1H1 gene have previously been identified in ASD cases (De Rubeis et al., 2014; Iossifov et al., 2014). An additional de novo missense variant in this gene was identified by whole genome sequencing in an ASD proband from a simplex family as part of the MSSNG initiative in Yuen et al., 2017. Based on the discovery of multiple de novo missense variants in ASD cases, a z-score > 2.0 for missense mutations, and a higher-than expected mutation rate (a false discovery rate < 15%), DYNC1H1 was determined to be an ASD candidate gene in Yuen et al., 2017. Whole exome sequencing in 116 ASD parent-proband trios as part of the University of Illinois at Chicago ACE project identified a de novo nonsense variant in DYNC1H1 in one ASD proband (Chen et al., 2017). A de novo protein-truncating variant was identified in DYNC1H1 in an ASD proband from the Autism Sequencing Consortium in Satterstrom et al., 2020; seven protein-truncating variants in this gene were observed in case samples from the Danish iPSYCH study in this same report. Furthermore, TADA analysis of de novo variants from the Simons Simplex Collection and the Autism Sequencing Consortium and protein-truncating variants from iPSYCH in Satterstrom et al., 2020 identified DYNC1H1 as a candidate gene with a false discovery rate (FDR) 0.01. A two-stage analysis of rare de novo and inherited coding variants in 42,607 ASD cases, including 35,130 new cases from the SPARK cohort, in Zhou et al., 2022 identified DYNC1H1 as a gene reaching exome-wide significance (P < 2.5E-06); association of DYNC1H1 with ASD risk in this analysis was found to be driven both by de novo variants and rare inherited loss-of-function variants transmitted from unaffected parents to affected offspring. Mutations in the DYNC1H1 gene are associated with autosomal dominant mental retardation-13 (MRD13; OMIM 614563), a form of intellectual disability associated with variable neuronal migration defects resulting in cortical malformations (Vissers et al., 2010; Willemsen et al., 2012).

Molecular Function

This gene encodes a member of the cytoplasmic dynein heavy chain family. Dyneins are a group of microtubule-activated ATPases that function as molecular motors. Mutations in the DYNC1H1 gene are associated with autosomal dominant mental retardation-13 (MRD13; OMIM 614563), a form of intellectual disability associated with variable neuronal migration defects resulting in cortical malformations (Vissers et al., 2010; Willemsen et al., 2012).

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Synaptic, transcriptional and chromatin genes disrupted in autism.
ASD
Support
The Clinical and Genetic Features of Co-occurring Epilepsy and Autism Spectrum Disorder in Chinese Children.
ASD, epilepsy/seizures
Support
ID, epilepsy/seizures
Support
Prevalence and phenotypic impact of rare potentially damaging variants in autism spectrum disorder
ASD
Support
Excess of rare, inherited truncating mutations in autism.
ASD
Support
Complex Diagnostics of Non-Specific Intellectual Developmental Disorder
DD, ID
Support
Genome sequencing identifies multiple deleterious variants in autism patients with more severe phenotypes.
ASD
Support
ID, epilepsy/seizures
Support
A single center experience with publicly funded clinical exome sequencing for neurodevelopmental disorders or multiple congenital anomalies
DD, ID, epilepsy/seizures
Support
The contribution of de novo coding mutations to autism spectrum disorder
ASD
Support
Comprehensive genome sequencing analyses identify novel gene mutations and copy number variations associated with infant developmental delay or intellectual disability (DD/ID)
DD, ID
Support
Diagnostic exome sequencing of syndromic epilepsy patients in clinical practice.
ASD, DD, epilepsy/seizures, microcephaly
Support
Epilepsy/seizures
DD, ID
Support
The landscape of somatic mutation in cerebral cortex of autistic and neurotypical individuals revealed by ultra-deep whole-genome sequencing
ASD
Support
Mutations in DYNC1H1 cause severe intellectual disability with neuronal migration defects.
ID
Support
Rapid assessment of the temporal function and phenotypic reversibility of neurodevelopmental disorder risk genes in Caenorhabditis elegans
Support
Targeted sequencing and functional analysis reveal brain-size-related genes and their networks in autism spectrum disorders.
ASD
Support
DD, ID
Support
DYNC1H1-related disorders: A description of four new unrelated patients and a comprehensive review of previously reported variants
Autosomal dominant lower extremity-predominant spi
ASD, ID, epilepsy/seizures
Support
A de novo paradigm for mental retardation.
ID
Support
Epilepsy/seizures
DD
Support
Mutational Landscape of Autism Spectrum Disorder Brain Tissue
ASD
Support
Genomic diagnosis for children with intellectual disability and/or developmental delay.
ID, epilepsy/seizures, microcephaly
Support
Rare genetic susceptibility variants assessment in autism spectrum disorder: detection rate and practical use.
ASD
Support
ADD, ID
Support
Diagnostic yield of next-generation sequencing in 87 families with neurodevelopmental disorders
ID
Support
Leveraging blood serotonin as an endophenotype to identify de novo and rare variants involved in autism.
ASD
Support
Large-Scale Exome Sequencing Study Implicates Both Developmental and Functional Changes in the Neurobiology of Autism
ASD
Support
ASD
OCD, ID, epilepsy/seizures
Support
De Novo Variants in the DYNC1H1 Gene Associated With Infantile Spasms
DD, epilepsy/seizures
Support
Whole-exome sequencing identifies a novel de novo mutation in DYNC1H1 in epileptic encephalopathies.
Epilepsy/seizures
West syndrome
Support
Integrating de novo and inherited variants in 42
ASD
Recent Recommendation
Rates, distribution and implications of postzygotic mosaic mutations in autism spectrum disorder.
ASD
Recent Recommendation
Whole genome sequencing resource identifies 18 new candidate genes for autism spectrum disorder
ASD

Rare

Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN888R001 
 missense_variant 
 c.2467G>T 
 p.Val823Leu 
 De novo 
  
  
 GEN888R002 
 missense_variant 
 c.6698C>T 
 p.Ala2233Val 
 De novo 
  
  
 GEN888R003 
 missense_variant 
 c.7718A>G 
 p.Asp2573Gly 
 De novo 
  
  
 GEN888R004 
 missense_variant 
 c.12797A>T 
 p.Asn4266Ile 
 De novo 
  
  
 GEN888R005 
 missense_variant 
 c.12214G>A 
 p.Gly4072Ser 
 De novo 
  
 Simplex 
 GEN888R006 
 missense_variant 
 c.9073G>A 
 p.Glu3025Lys 
 De novo 
  
 Simplex 
 GEN888R007 
 missense_variant 
 c.11465A>C 
 p.His3822Pro 
 De novo 
  
 Simplex 
 GEN888R008 
 missense_variant 
 c.4552G>A 
 p.Glu1518Lys 
 De novo 
  
  
 GEN888R009 
 missense_variant 
 c.10174A>G 
 p.Met3392Val 
 De novo 
  
 Simplex 
 GEN888R010 
 missense_variant 
 c.925C>T 
 p.Arg309Cys 
 De novo 
  
 Simplex 
 GEN888R011 
 stop_gained 
 c.12315G>A 
 p.Trp4105Ter 
 De novo 
  
 Simplex 
 GEN888R012 
 missense_variant 
 c.10573C>T 
 p.Arg3525Cys 
 De novo 
  
  
 GEN888R013 
 missense_variant 
 c.2363A>G 
 p.Tyr788Cys 
 Familial 
  
 Simplex 
 GEN888R014 
 missense_variant 
 c.6994C>T 
 p.Arg2332Cys 
 De novo 
  
  
 GEN888R015 
 missense_variant 
 c.13088A>C 
 p.Lys4363Thr 
 De novo 
  
 Simplex 
 GEN888R016 
 splice_site_variant 
 c.3960+1G>A 
  
 De novo 
  
  
 GEN888R017 
 stop_gained 
 c.12315G>A 
 p.Trp4105Ter 
 De novo 
  
 Simplex 
 GEN888R018 
 synonymous_variant 
 c.3072A>G 
 p.Thr1024= 
 De novo 
  
 Simplex 
 GEN888R019 
 splice_site_variant 
 c.4396-1G>C 
  
 De novo 
  
 Multiplex 
 GEN888R020 
 missense_variant 
 c.3347T>C 
 p.Val1116Ala 
 De novo 
  
  
 GEN888R021 
 missense_variant 
 c.4532C>T 
 p.Pro1511Leu 
 De novo 
  
  
 GEN888R022 
 missense_variant 
 c.4234C>T 
 p.His1412Tyr 
 De novo 
  
  
 GEN888R023 
 missense_variant 
 c.10973G>A 
 p.Gly3658Glu 
 De novo 
  
  
 GEN888R024 
 missense_variant 
 c.11084G>A 
 p.Arg3695Gln 
 De novo 
  
  
 GEN888R025 
 missense_variant 
 c.9209C>T 
 p.Pro3070Leu 
 De novo 
  
 Simplex 
 GEN888R026 
 missense_variant 
 c.4741A>C 
 p.Lys1581Gln 
 Unknown 
  
  
 GEN888R027 
 missense_variant 
 c.5096A>G 
 p.Asn1699Ser 
 Unknown 
  
  
 GEN888R028 
 missense_variant 
 c.9418C>T 
 p.Arg3140Trp 
 Unknown 
  
  
 GEN888R029 
 missense_variant 
 c.9521G>A 
 p.Arg3174His 
 Unknown 
  
  
 GEN888R030 
 missense_variant 
 c.3351C>G 
 p.Asn1117Lys 
 De novo 
  
  
 GEN888R031 
 missense_variant 
 c.5884C>T 
 p.Arg1962Cys 
 De novo 
  
  
 GEN888R032 
 missense_variant 
 c.10213A>C 
 p.Met3405Leu 
 De novo 
  
 Multiplex (dizygotic twins) 
 GEN888R033 
 missense_variant 
 c.3278T>C 
 p.Phe1093Ser 
 De novo 
  
  
 GEN888R034 
 frameshift_variant 
 c.4462dup 
 p.Arg1488ProfsTer5 
 Familial 
 Maternal 
  
 GEN888R035 
 synonymous_variant 
 c.6258T>C 
 p.Tyr2086%3D 
 Unknown 
  
  
 GEN888R036 
 synonymous_variant 
 c.9192C>T 
 p.Val3064%3D 
 Unknown 
  
  
 GEN888R037 
 missense_variant 
 c.3180A>C 
 p.Leu1060Phe 
 De novo 
  
 Simplex 
 GEN888R038 
 inframe_deletion 
 c.591_593del 
 p.Gln198del 
 Familial 
 Maternal 
  
 GEN888R039 
 missense_variant 
 c.1113A>T 
 p.Lys371Asn 
 De novo 
  
 Simplex 
 GEN888R040 
 synonymous_variant 
 c.3072A>G 
 p.Thr1024%3D 
 De novo 
  
 Simplex 
 GEN888R041 
 inframe_insertion 
 c.3572_3580dup 
 p.Arg1191_Gly1193dup 
 De novo 
  
 Simplex 
 GEN888R042 
 frameshift_variant 
 c.11886_11887del 
 p.Asp3962GlufsTer14 
 De novo 
  
 Simplex 
 GEN888R043 
 missense_variant 
 c.12560A>G 
 p.His4187Arg 
 De novo 
  
 Simplex 
 GEN888R044 
 missense_variant 
 c.584A>T 
 p.His195Leu 
 De novo 
  
  
 GEN888R045 
 missense_variant 
 c.4079G>A 
 p.Arg1360Gln 
 De novo 
  
  
 GEN888R046 
 missense_variant 
 c.6110G>C 
 p.Arg2037Pro 
 De novo 
  
  
 GEN888R047 
 missense_variant 
 c.6272G>A 
 p.Arg2091Gln 
 De novo 
  
  
 GEN888R048 
 missense_variant 
 c.6340G>A 
 p.Glu2114Lys 
 De novo 
  
  
 GEN888R049 
 missense_variant 
 c.6410T>C 
 p.Leu2137Pro 
 De novo 
  
  
 GEN888R050 
 stop_gained 
 c.7474C>T 
 p.Arg2492Ter 
 De novo 
  
  
 GEN888R051 
 splice_site_variant 
 c.10079+1G>C 
  
 De novo 
  
  
 GEN888R052 
 frameshift_variant 
 c.10871_10874del 
 p.Glu3624ValfsTer3 
 De novo 
  
  
 GEN888R053 
 frameshift_variant 
 c.10924_10927dup 
 p.Pro3643ArgfsTer11 
 De novo 
  
  
 GEN888R054 
 synonymous_variant 
 c.13500C>T 
 p.Gly4500%3D 
 De novo 
  
  
 GEN888R055 
 missense_variant 
 c.56C>T 
 p.Ser19Leu 
 De novo 
  
  
 GEN888R056 
 missense_variant 
 c.1832G>A 
 p.Arg611His 
 De novo 
  
  
 GEN888R057 
 missense_variant 
 c.12950C>T 
 p.Thr4317Met 
 De novo 
  
  
 GEN888R058 
 stop_gained 
 c.13273C>T 
 p.Gln4425Ter 
 De novo 
  
  
 GEN888R059 
 missense_variant 
 c.12449C>T 
 p.Pro4150Leu 
 De novo 
  
 Multiplex 
 GEN888R060 
 stop_gained 
 c.12910G>T 
 p.Glu4304Ter 
 De novo 
  
 Simplex 
 GEN888R061 
 missense_variant 
 c.806G>A 
 p.Gly269Glu 
 Unknown 
  
 Multiplex 
 GEN888R062 
 missense_variant 
 c.4216G>A 
 p.Glu1406Lys 
 Unknown 
  
 Simplex 
 GEN888R063 
 missense_variant 
 c.10232C>A 
 p.Pro3411His 
 Unknown 
  
 Simplex 
 GEN888R064 
 missense_variant 
 c.1103G>C 
 p.Arg368Pro 
 De novo 
  
 Simplex 
  et al.  
 GEN888R065 
 missense_variant 
 c.10268C>T 
 p.Ala3423Val 
 De novo 
  
 Simplex 
  et al.  
 GEN888R066a 
 missense_variant 
 c.7463G>A 
 p.Arg2488His 
 Familial 
 Both parents 
 Simplex 
  et al.  
 GEN888R067a 
 splice_region_variant 
 c.11691-4G>T 
  
 Familial 
 Paternal 
 Simplex 
  et al.  
 GEN888R067b 
 missense_variant 
 c.11858C>T 
 p.Ala3953Val 
 Familial 
 Maternal 
 Simplex 
  et al.  
 GEN888R068 
 missense_variant 
 c.3543G>C 
 p.Lys1181Asn 
 De novo 
  
  
  et al.  
 GEN888R069 
 missense_variant 
 c.4868G>A 
 p.Arg1623Gln 
 De novo 
  
  
  et al.  
 GEN888R070 
 missense_variant 
 c.11074C>G 
 p.Leu3692Val 
 Familial 
 Paternal 
 Simplex 
  et al.  
 GEN888R071 
 missense_variant 
 c.7059G>C 
 p.Leu2353Phe 
 Familial 
 Paternal 
  
  et al.  
 GEN888R072 
 missense_variant 
 c.10016G>A 
 p.Arg3339His 
 De novo 
  
 Simplex 
  et al.  

Common

No Common Variants Available
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
14
Duplication
 1
 
14
Duplication
 1
 
14
Duplication
 2
 
14
Duplication
 1
 
14
Duplication
 1
 
14
Deletion
 6
 
14
Deletion
 1
 
14
Deletion
 4
 
14
Deletion-Duplication
 11
 
14
Duplication
 2
 
14
Deletion-Duplication
 4
 

No Animal Model Data Available

 

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