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3q13.33CNV Type: Deletion-Duplication


Largest CNV size: 105587 bp

Statistics Box:
Number of Reports: 6



Summary Information

Summary statement in development

Additional Locus Information

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USCS Symbol             NCBI Symbol

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References

Major Reports

Title
Author, Year
Report Class
CNV Type
Autism genome-wide copy number variation reveals ubiquitin and neuronal genes.
Duplication
A discovery resource of rare copy number variations in individuals with autism spectrum disorder.
Duplication
Excess of rare, inherited truncating mutations in autism.
Duplication

Minor Reports

Title
Author, Year
Report Class
CNV Type
Multiple recurrent de novo CNVs, including duplications of the 7q11.23 Williams syndrome region, are strongly associated with autism.
Deletion-Duplication
Copy number variation in Han Chinese individuals with autism spectrum disorder.
Deletion
NA
Duplication

Cases

Cohort ID
Author, Year
Descripton
Cohort Size
Diagnosis
Age
Gender
CNV Size
Deletion
Duplication
Total CNV's
 gazzellone_14_ASD_discovery_cases
 ASD-affected individuals referred to the Children Development and Behavior Research Center (CDRBC) at Harbin Medical University, China, between January 2007 and June 2011.
 104
 Diagnosis of ASD made using Autism Behavior Checklist (ABC) and Childhood Autism Rating Scale (CARS)
 Mean age at enrollment, 4.31 1.80 yrs.
 87.5% Male
 30344
 1
 0
 1
 glessner_09_ASD_discovery_cases
 Autism Case-Control (ACC) case cohort: 54% from simplex families, 46% from multiplex families
 859
 859 autism (ADI). 708 autism, 124 ASD, 27 not autism (based on ADOS)
 Range, 2-21
 81.8% Male
 44284
 0
 3
 3
 glessner_09_ASD_replication_cases
 Autism Genetic Resource Exchange (AGRE) case cohort: 5% from simplex families, 95% from multiplex families
 1336
 1202 autism, 134 ASD (AGRE status). 775 autism, 171 ASD, 76 not ASD or autism (based on ADOS)
 Mean, 9.2 5.3
 78.7% Male
 44284
 0
 0
 0
 krumm_15_ASD_discovery_cases
 Probands from the Simons Simplex Collection
 2377
 Diagnosis of ASD
 N/A
 N/A
 84439
 0
 3
 3
 prasad_12_ASD_discovery_cases
 Unrelated ASD cases recruited from three Canadian sites (Hospital for Sick Children, McMaster University, and Memorial University of Newfoundland); the majority of cases had been previously genotyped with results published in Marshall et al., 2008 and Pinto et al., 2010. 20 cases from initial cohort of 696 were excluded from further analysis (due to CNVs > 5 Mb).
 676
 Diagnosis of ASD based on meeting criteria on ADI-R and/or ADOS
 NA
 82.84% Male
 29147
 0
 1
 1
 sanders_11_ASD_discovery_cases
 Autistic probands from the Simons Simplex Collection (SSC). 872 probands in quartet families, 272 probands in trios.
 1124
 ASD diagnosis: 89.5% autism; 8.5% PDD-NOS, 2% Asperger syndrome. Mean full-scale IQ 85.1 1.5 (mean verbal IQ, 81.9 1.7; mean non-verbal IQ, 88.4 1.4)
 Mean, 9.1 yrs.
 86.1% Male
 105587
 2
 1
 3
 stamouli_18_ASD/NDD_discovery_cases
  NA NA
 Affected individuals from 100 twin pairs (69 monozygotic, 31 dizygotic), corresponding to 97 families, that were enriched for neurodevelopmental disorders from the Roots of Autism and ADHD Study in Sweden (RATSS)
 100 twin pairs
 Diagnoses based on DSM-5 criteria following evaluation using standard diagnostic tools [a psychosocial and anamnestic interview, the Autism Diagnosis Interview-Revised (ADI-R), the Autism Diagnostic Observation Schedule Second Edition (ADOS-2), the Kiddie Schedule for Affective Disorders and Schizophrenia (K-SADS), or the Diagnostic Interview for ADHD in Adults (DIVA)]; Wechsler Intelligence Scale for Children or Adults, Fourth Edition (WISC-IV) or the Leiter-revised scales in combination with the Peabody Picture Vocabulary Test, Third Edition, and the parent-based Adaptive Behavior Assessment Scale, 2nd Edition (ABAS-2) were also used to evaluate adaptive, cognitive, and verbal abilities an
 N/A
 N/A
 25954
 0
 1
 1

Controls

Cohort ID
Author, Year
Descripton
Cohort Size
Diagnosis
Age
Gender
CNV Size
Deletion
Duplication
Total CNV's
 glessner_09_ASD_discovery_controls
 Controls
 1409
 Controls
 
 
 44284
 0
 0
 0
 glessner_09_ASD_replication_controls
 Controls
 1110
 Controls
 
 
 44284
 0
 0
 0
 kanduri_15_ASD_discovery_controls
 Unrelated Finnish samples from the cohort of Health 2000 survey from an initial sample of 288 individuals following quality control
 269
 Controls screened for DSM-IV mental disorders using the Composite International Diagnostic Interview and psychotic disorders using the research version of the Structured Clinical Interview for DSM-IV
 N/A
 N/A
 34534
 1
 0
 1
 krumm_15_ASD_discovery_controls
 Unaffected siblings from quad families from the Simons Simplex Collection
 1786
 Control
 N/A
 N/A
 0
 0
 0
 0
 prasad_12_ASD_discovery_controls
 PDx controls [1000 DNA samples from reportedly healthy donors (50.2% male) from BioServe (Beltsville, MD)] and 4139 in-house controls previously reported in Krawcak et al. 2006, Stewart et al. 2009, and Bierut et al. 2010. CNVs identified in controls were used to define rare ASD-specific CNVs.
 5139
 Control
 NA
 NA (PDx controls 50.2% male)
 29147
 0
 0
 0
 sanders_11_ASD_discovery_controls
 Matched siblings of autistic probands from the Simons Simplex Collection (SSC).
 872
 Controls
 Mean, 10.0 yrs.
 
 1248
 2
 0
 2

Cases

Cohort ID
Geographical Ancestry
Discovery Method
Platform
Algorithm
Software
Validation Method
 gazzellone_14_ASD_discovery_cases
  Han Chinese
 Array SNP
  Affymetrix CytoScan HD
 ChAS, iPattern, Nexus, Partek
 
 None
 glessner_09_ASD_discovery_cases
  European
 Solid phase hybridization
  HumanHap550 BeadChip
 PennCNV
 
 qPCR, MLPA, array SNP
 glessner_09_ASD_replication_cases
  European
 Solid phase hybridization
  HumanHap550 BeadChip
 PennCNV
 
 qPCR, MLPA, array SNP
 krumm_15_ASD_discovery_cases
  N/A
 WES
 
 CoNIFER, XHMM
 
 Solid phase hybridization (Illumina 1M, 1 M Duo, or Omni 2.5)
 prasad_12_ASD_discovery_cases
  Canada
 aCGH
  Agilent 1M
 ADM-2, DNAcopy (R Bioconductor)
 DNA Analytics v4.0.85 (Agilent), DNAcopy
 qPCR
 sanders_11_ASD_discovery_cases
  White non-Hispanic, 74.5%; mixed, 9.3%, Asian, 4.3%, White Hispanic, 4.0%, African-American, 3.8%; other, 4.2&
 Solid phase hybridization
  Illumina 1M v1, Illumina 1M v3
 PennCNV, QuantiSNP, GNOSIS
 
 
 stamouli_18_ASD/NDD_discovery_cases
  Swedish
 Solid phase hybridization
  Illumina Infinium PsychArray-24 v1.1
 PennCNV, QuantiSNP, iPattern, iPsychCNV
 
 None

Controls

Cohort ID
Geographical Ancestry
Discovery Method
Platform
Algorithm
Software
Validation Method
  glessner_09_ASD_discovery_controls
  Caucasian
  Solid phase hybridization
  HumanHap550 BeadChip
  PennCNV
 
 
  glessner_09_ASD_replication_controls
  Caucasian
  Solid phase hybridization
  HumanHap550 BeadChip
  PennCNV
 
 
  kanduri_15_ASD_discovery_controls
  Finnish
  Solid phase hybridization
  Illumina Infinium HD Human610-Quad BeadChip
  QuantiSNP, PennCNV
  Illumina BeadStudio
  None
  krumm_15_ASD_discovery_controls
  N/A
  WES
 
  CoNIFER, XHMM
 
  None
  prasad_12_ASD_discovery_controls
  NA
  aCGH
  Agilent 1M
  ADM-2, DNAcopy (R Bioconductor)
  DNA Analytics v4.0.85 (Agilent), DNAcopy
 
  sanders_11_ASD_discovery_controls
 
  Solid phase hybridization
  Illumina 1M v1 or Illumina 1M v3
  PennCNV, QuantiSNP, GNOSIS
 
 

Cases

Patient ID
Author, Year
Age
Gender
Primary Diagnosis
Clinical Profile
Cognitive Profile
CNV Start
CNV End
CNV Size
Genome Build
Type Method
Validation
  gazzellone_14_ASD_discovery_cases-case681-3
 N/A
 M
 ASD
 ASD; no other clinical information provided
 N/A
 120896075
 120926419
  30345
 GRCh38
 Deletion
 No
  glessner_09_ASD_discovery_cases-200606089_3608
 NA
 
 ASD
 NA
 NA
 121624653
 121668937
  44285
 GRCh38
 Duplication
 No
  glessner_09_ASD_discovery_cases-AU38503
 NA
 
 ASD
 NA
 NA
 121624653
 121668937
  44285
 GRCh38
 Duplication
 No
  glessner_09_ASD_discovery_cases-AU56903
 NA
 
 ASD
 NA
 NA
 121624653
 121668937
  44285
 GRCh38
 Duplication
 Yes
  krumm_15_ASD_discovery_cases-case12951.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Quad
 
 121407242
 121419097
  11856
 GRCh38
 Duplication
 Yes
  krumm_15_ASD_discovery_cases-case12951.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Quad
 
 121584916
 121669355
  84440
 GRCh38
 Duplication
 Yes
  krumm_15_ASD_discovery_cases-case13764.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Quad
 
 119726170
 119733506
  7337
 GRCh38
 Duplication
 Yes
  prasad_12_ASD_discovery_cases-case55310
 NA
 M
 ASD
 Diagnosis of ASD based on meeting criteria on ADI-R and/or ADOS. Novel CNV
 
 120589481
 120618627
  29147
 Unknown
 Duplication
 Yes
  sanders_11_ASD_discovery_cases-12187.p1
 7.8
 M
 Autism
 NA
 Full-scale IQ, 109; non-verbal IQ, 110; verbal IQ, 105
 119634338
 119635586
  1249
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12481.p1
 5.6
 M
 Autism
 NA
 Full-scale IQ, 42; non-verbal IQ, 47; verbal IQ, 37
 119634338
 119635046
  709
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12951.p1
 15.3
 M
 Autism
 NA
 Full-scale IQ, 57; non-verbal IQ, 64; verbal IQ, 44
 121566184
 121671771
  105588
 GRCh38
 Duplication
 No
  stamouli_18_ASD/NDD_discovery_cases-family31_Twin_2
  NA NA
 N/A
 N/A
 ASD/NDD
 Case is from a dizygotic twin pair from the Discordant ASD/Discordant NDD diagnostic group
 
 121692494
 121718447
  25954
 GRCh38
 Duplication
 No

Controls

Patient ID
Author, Year
Age
Gender
Primary Diagnosis
Clinical Profile
Cognitive Profile
CNV Start
CNV End
CNV Size
Genome Build
Type Method
Validation
  kanduri_15_ASD_discovery_controls-control_split625
  N/A
  N/A
  Control
  Control screened for DSM-IV mental disorders using the Composite International Diagnostic Interview and psychotic disorders using the research version of the Structured Clinical Interview for DSM-IV
 
  121563355
  121597888
  34534
  Unknown
  Deletion
  No
  sanders_11_ASD_discovery_controls-11700.s1
  11
  F
  Control (matched sibling)
  NA
  NA
  119634338
  119635586
  1249
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12481.s1
  9
  M
  Control (matched sibling)
  NA
  NA
  119634338
  119635046
  709
  GRCh38
  Deletion
  No

Cases

Patient ID
Validation Description
Primary Disorder Inheritence
Inheritence
Family Profile
Disease Segregation
Gene Content
Altered Gene Expression
 gazzellone_14_ASD_discovery_cases-case681-3
 
 
 Unknown
 Unknown
 Unknown
 STXBP5L
 
 glessner_09_ASD_discovery_cases-200606089_3608
 
 
 Unknown
 Unknown
 NA
 RN7SL172P,RNU4-62P,FBXO40,GOLGB1,HCLS1
 
 glessner_09_ASD_discovery_cases-AU38503
 
 
 Unknown
 Unknown
 NA
 RN7SL172P,RNU4-62P,FBXO40,GOLGB1,HCLS1
 
 glessner_09_ASD_discovery_cases-AU56903
 qPCR
 
 Unknown
 Unknown
 NA
 RN7SL172P,RNU4-62P,FBXO40,GOLGB1,HCLS1
 
 krumm_15_ASD_discovery_cases-case12951.p1
 Illumina 1MDuo
 
 Maternal
 Simplex
 Segregated
 STXBP5L
 
 krumm_15_ASD_discovery_cases-case12951.p1
 Illumina 1MDuo
 
 Maternal
 Simplex
 Segregated
 RN7SL172P,RNU4-62P,ARGFX,FBXO40,GOLGB1,HCLS1
 
 krumm_15_ASD_discovery_cases-case13764.p1
 Omni2.5-4v1
 
 Paternal
 Simplex
 Segregated
 MAATS1
 
 prasad_12_ASD_discovery_cases-case55310
 qPCR
 
 Paternal
 Simplex
 Unknown
 ARHGAP31
 
 sanders_11_ASD_discovery_cases-12187.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Segregated
 RPL10P7
 
 sanders_11_ASD_discovery_cases-12481.p1
 
 
 Both parents
 Simplex (quad-proband matched)
 Not segregated
 
 
 sanders_11_ASD_discovery_cases-12951.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Segregated
 RN7SL172P,RNU4-62P,ARGFX,FBXO40,GOLGB1,HCLS1
 
 stamouli_18_ASD/NDD_discovery_cases-family31_Twin_2
 
 
 Unknown
 Simplex
 Segregated (CNV not present in unaffected twin)
 GOLGB1
 

Controls

Patient ID
Validation Description
Primary Disorder Inheritence
Inheritence
Family Profile
Disease Segregation
Gene Content
Altered Gene Expression
kanduri_15_ASD_discovery_controls-control_split625
 
 
  Unknown
 
 
  EAF2
 
sanders_11_ASD_discovery_controls-11700.s1
 
 
  Maternal
  Simplex (quad)
  NA
  RPL10P7
 
sanders_11_ASD_discovery_controls-12481.s1
 
 
  Both parents
  Simplex (quad)
  NA
 
 

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