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9q22.33CNV Type: Deletion-Duplication


Largest CNV size: 15270 bp

Statistics Box:
Number of Reports: 7



Summary Information

Summary statement in development

Additional Locus Information

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USCS Symbol             NCBI Symbol

Decipher

            Decipher Symbol

References

Major Reports

Title
Author, Year
Report Class
CNV Type
Convergence of genes and cellular pathways dysregulated in autism spectrum disorders.
Deletion
Excess of rare, inherited truncating mutations in autism.
Deletion-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
Use of array CGH to detect exonic copy number variants throughout the genome in autism families detects a novel deletion in TMLHE.
Duplication
A discovery resource of rare copy number variations in individuals with autism spectrum disorder.
Deletion
Genome-wide analysis of copy number variations identifies PARK2 as a candidate gene for autism spectrum disorder.
Duplication
NA
Duplication

Cases

Cohort ID
Author, Year
Descripton
Cohort Size
Diagnosis
Age
Gender
CNV Size
Deletion
Duplication
Total CNV's
 celestino-soper_11_ASD_discovery_cases
 ASD probands from Simons Simplex Collection (SSC) trios. 90 of the probands in this study were also used in the Sanders et al. 2011 CNV report.
 99
 ASD
 
 87.88% Male
 322
 0
 2
 2
 krumm_15_ASD_discovery_cases
 Probands from the Simons Simplex Collection
 2377
 Diagnosis of ASD
 N/A
 N/A
 221129
 2
 1
 3
 maini_18_ASD/DD/ID_discovery_cases
  NA NA
 Patients evaluated at the Clinical Genetics Unit of Arcispedale Santa Maria Nuova, AUSL-IRCCS of Reggio Emilia that were investigated through aCGH between 2005 and 2016
 293
 Cases presented with one or more neurodevelopmental disorders (NDD), multiple congenital anomalies (MCA), and/or dysmorphic features. Most frequent neurodevelopmental diagnoses include language delay (78.5%), intellectual disability (66.4%), motor delay (50.7%), and ASD (13.9%); dysmorphic features were also frequently observed (52.7%)
 Mean age, 7 yrs. (range, 1 mo.-29 yrs.)
 57.5% Male
 20000
 0
 1
 1
 pinto_14_ASD_discovery_cases
 ASD probands from simplex and multiplex families collected as part of stage 2 of the Autism Genome Project (AGP) after quality control (1,604 before QC)
 1359
 Cases classified according to ADOS and ADI-R
 N/A
 N/A
 12349
 1
 0
 1
 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
 17224
 1
 0
 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
 15270
 11
 1
 12
 yin_16_ASD_discovery_cases
 Discovery cohort of ASD cases recruited from the Department of Psychiatry of National Taiwan University Hospital (NTUH), Chang Gung Memorial Hospital (CGMH), Taoyuan, and Taoyuan Mental Hospital (TMH), Taiwan.
 335
 Cases diagnosed with autistic disorder according to DSM-IV and confirmed by using the Chinese version of ADI-R. Cases' autistic behaviors assessed by Social Responsiveness Scale (SRS), and cognitive functions assessed by the Weschler Intelligence Scale for Children-Third Edition (WISC-III) and the Wisconsin Card Sorting Test (WCST).
 Mean, 9.39 4.04 yrs.
 89.3% Male
 332391
 0
 1
 1

Controls

Cohort ID
Author, Year
Descripton
Cohort Size
Diagnosis
Age
Gender
CNV Size
Deletion
Duplication
Total CNV's
 krumm_15_ASD_discovery_controls
 Unaffected siblings from quad families from the Simons Simplex Collection
 1786
 Control
 N/A
 N/A
 10058
 1
 0
 1
 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)
 17224
 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.
 
 27782
 7
 0
 7
 yin_16_ASD_discovery_controls
 Individuals from the Han Chinese Cell and Genome Bank (HCCGB) in Taiwan
 1093
 Controls
 Mean, 68.07 10.12 yrs.
 48.0% Male
 332391
 0
 0
 0

Cases

Cohort ID
Geographical Ancestry
Discovery Method
Platform
Algorithm
Software
Validation Method
 celestino-soper_11_ASD_discovery_cases
 
 aCGH
  Agilent 1M
 ADM-2
 Agilent Feature Extraction v10.7.3.1, Agilent DNA Analytics v4.0.76
 None
 krumm_15_ASD_discovery_cases
  N/A
 WES
 
 CoNIFER, XHMM
 
 Solid phase hybridization (Illumina 1M, 1 M Duo, or Omni 2.5)
 maini_18_ASD/DD/ID_discovery_cases
  Italian
 aCGH, array SNP
  Multiple platforms, including Agilent and Affymetrix arrays (8x60K oligochips since 2012)
 
 
 None
 pinto_14_ASD_discovery_cases
  Predominantly European
 Solid phase hybridization
  Illumina 1M (v.1 and v.3)
 
 
 qPCR, MLPA, long-range PCR
 prasad_12_ASD_discovery_cases
  Canada
 aCGH
  Agilent 1M
 ADM-2, DNAcopy (R Bioconductor)
 DNA Analytics v4.0.85 (Agilent), DNAcopy
 None
 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
 
 
 yin_16_ASD_discovery_cases
  Han Chinese
 Array SNP
  Affymetrix 6.0
 
 Affymetrix Genotyping Console v.4.1
 None

Controls

Cohort ID
Geographical Ancestry
Discovery Method
Platform
Algorithm
Software
Validation Method
  krumm_15_ASD_discovery_controls
  N/A
  WES
 
  CoNIFER, XHMM
 
  Solid phase hybridization (Illumina 1M, 1 M Duo, or Omni 2.5)
  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
 
 
  yin_16_ASD_discovery_controls
  Han Chinese
  Array SNP
  Affymetrix 6.0
 
  Affymetrix Genotyping Console v.4.1
  None

Cases

Patient ID
Author, Year
Age
Gender
Primary Diagnosis
Clinical Profile
Cognitive Profile
CNV Start
CNV End
CNV Size
Genome Build
Type Method
Validation
  celestino-soper_11_ASD_discovery_cases-11303
 NA
 M
 ASD
 NA
 NA
 97994610
 97994821
  212
 GRCh38
 Duplication
 No
  celestino-soper_11_ASD_discovery_cases-11345
 NA
 M
 ASD
 NA
 NA
 96465531
 96465853
  323
 GRCh38
 Duplication
 No
  krumm_15_ASD_discovery_cases-case12621.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Trio
 
 98094866
 98100164
  5299
 GRCh38
 Deletion
 Yes
  krumm_15_ASD_discovery_cases-case13334.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Trio
 
 98012420
 98233549
  221130
 GRCh38
 Duplication
 Yes
  krumm_15_ASD_discovery_cases-case13933.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Trio
 
 98293784
 98303425
  9642
 GRCh38
 Deletion
 Yes
  maini_18_ASD/DD/ID_discovery_cases-case_unknown215
  NA NA
 N/A
 N/A
 NDD/MCA/dysmorphic features
 CNV was identified in an individual with one or more neurodevelopmental disorders (NDD), multiple congenital anomalies (MCA), and/or dysmorphic features (detailed clinical information was not available). CNV classified as variant of unknown significance-likely benign (VOUS-LB)
 
 98097799
 98117895
  20097
 GRCh38
 Amplification
 No
  pinto_14_ASD_discovery_cases2-case16089_1571115001
 11 yrs. 9 mos.
 M
 ASD
 Autism (ADI-R and ADOS positive), language delay, uses few words. Family history: mother is bipolar; father with OCD-like features.
 Borderline IQ (Leiter-R Brief at 11 y 9 mo: PIQ 73).
 99138128
 99150476
  12349
 GRCh38
 Deletion
 Yes
  prasad_12_ASD_discovery_cases-case90278
 NA
 M
 ASD
 Diagnosis of ASD based on meeting criteria on ADI-R and/or ADOS. Novel CNV
 
 98466237
 98483460
  17224
 Unknown
 Deletion
 No
  sanders_11_ASD_discovery_cases-11011.p1
 8.3
 M
 Autism
 NA
 Full-scale IQ, 78; non-verbal IQ, 88; verbal IQ, 69
 97211544
 97223065
  11522
 GRCh38
 Duplication
 No
  sanders_11_ASD_discovery_cases-11044.p1
 5.5
 M
 Aspergers
 NA
 Full-scale IQ, 106; non-verbal IQ, 101; verbal IQ 112
 98024635
 98026317
  1683
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11047.p1
 10.4
 M
 Autism
 NA
 Full-scale IQ, 60; non-verbal IQ, 74; verbal IQ, 36
 98024635
 98026317
  1683
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11197.p1
 10.1
 M
 Autism
 NA
 Full-scale IQ, 112; non-verbal IQ, 110; verbal IQ, 110
 98024635
 98026317
  1683
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11397.p1
 11.2
 M
 Autism
 NA
 Full-scale IQ, 129; non-verbal IQ, 128; verbal IQ, 120
 98024635
 98026317
  1683
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11452.p1
 8.5
 M
 Autism
 NA
 Full-scale IQ, 80; non-verbal IQ, 80; verbal IQ, 85
 98024635
 98026317
  1683
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11578.p1
 5.1
 M
 ASD
 NA
 Full-scale IQ, 120; non-verbal IQ, 120; verbal IQ, 115
 98024635
 98026317
  1683
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11941.p1
 10.9
 M
 Autism
 NA
 Full-scale IQ, 85; non-verbal IQ, 87; verbal IQ, 86
 96747342
 96756266
  8925
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12053.p1
 4.1
 M
 Autism
 NA
 Full-scale IQ, 78; non-verbal IQ, 90; verbal IQ, 71
 98021768
 98026317
  4550
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12444.p1
 9.5
 F
 Autism
 NA
 Full-scale IQ, 65; non-verbal IQ, 59; verbal IQ, 79
 98024635
 98034663
  10029
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12472.p1
 5.6
 F
 Autism
 NA
 Full-scale IQ, 106; non-verbal IQ, 101; verbal IQ, 112
 99232892
 99244656
  11765
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12621.p1
 5.8
 M
 Autism
 NA
 Full-scale IQ, 113; non-verbal IQ, 120; verbal IQ, 96
 98094165
 98109435
  15271
 GRCh38
 Deletion
 No
  yin_16_ASD_discovery_cases-case368
 N/A
 N/A
 ASD
 Cases diagnosed with autistic disorder according to DSM-IV and confirmed by using the Chinese version of ADI-R.
 
 98580000
 98912390
  332391
 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
  krumm_15_ASD_discovery_controls-control13107.s1
  N/A
  Male
  Control
  Unaffected sibling from the Simons Simplex Collection (SSC)
 
  98099930
  98109988
  10059
  GRCh38
  Deletion
  Yes
  sanders_11_ASD_discovery_controls-11452.s1
  6.8
  M
  Control (matched sibling)
  NA
  NA
  98024635
  98026317
  1683
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-11521.s1
  15.1
  F
  Control (matched sibling)
  NA
  NA
  98024635
  98026317
  1683
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-11897.s1
  8
  M
  Control (matched sibling)
  NA
  NA
  99232892
  99244656
  11765
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-11918.s1
  12.3
  M
  Control (matched sibling)
  NA
  NA
  99173949
  99201731
  27783
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12610.s1
  8.8
  F
  Control (matched sibling)
  NA
  NA
  99293775
  99304426
  10652
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12621.s1
  8.8
  M
  Control (matched sibling)
  NA
  NA
  98094165
  98109435
  15271
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12821.s1
  9
  F
  Control (matched sibling)
  NA
  NA
  99232892
  99237116
  4225
  GRCh38
  Deletion
  No

Cases

Patient ID
Validation Description
Primary Disorder Inheritence
Inheritence
Family Profile
Disease Segregation
Gene Content
Altered Gene Expression
 celestino-soper_11_ASD_discovery_cases-11303
 
 
 Unknown
 Simplex
 NA
 ANP32B
 
 celestino-soper_11_ASD_discovery_cases-11345
 
 
 Unknown
 Simplex
 NA
 HABP4
 
 krumm_15_ASD_discovery_cases-case12621.p1
 Illumina 1MDuo
 
 Maternal
 Simplex
 Segregated
 TRIM14
 
 krumm_15_ASD_discovery_cases-case13334.p1
 1M-Duov3
 
 Maternal
 Simplex
 Segregated
 RNU6-918P,MIR6854,ANP32B,NANS,TRIM14,TBC1D2,CORO2A
 
 krumm_15_ASD_discovery_cases-case13933.p1
 Omni2.5-4v1
 
 Paternal
 Simplex
 Segregated
 GABBR2
 
 maini_18_ASD/DD/ID_discovery_cases-case_unknown215
 
 
 Maternal
 Unknown
 Unknown
 TRIM14
 
 pinto_14_ASD_discovery_cases2-case16089_1571115001
 qPCR
 
 Maternal
 Simplex
 Unknown (unaffected sibling not tested)
 RNA5SP290,TGFBR1
 
 prasad_12_ASD_discovery_cases-case90278
 
 
 Unknown
 Unknown
 Unknown
 0 genes
 
 sanders_11_ASD_discovery_cases-11011.p1
 
 
 Both parents
 Simplex (quad-proband matched)
 Segregated
 ANKRD18CP
 
 sanders_11_ASD_discovery_cases-11044.p1
 
 
 Maternal
 Simplex (trio)
 NA
 
 
 sanders_11_ASD_discovery_cases-11047.p1
 
 
 Both parents
 Simplex (quad-proband matched)
 Segregated
 
 
 sanders_11_ASD_discovery_cases-11197.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Segregated
 
 
 sanders_11_ASD_discovery_cases-11397.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 
 
 sanders_11_ASD_discovery_cases-11452.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 
 
 sanders_11_ASD_discovery_cases-11578.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Segregated
 
 
 sanders_11_ASD_discovery_cases-11941.p1
 
 
 Unknown
 Simplex (quad-proband matched)
 Not segregated
 ZNF510
 
 sanders_11_ASD_discovery_cases-12053.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 
 
 sanders_11_ASD_discovery_cases-12444.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 RNU6-918P
 
 sanders_11_ASD_discovery_cases-12472.p1
 
 
 Unknown
 Simplex (trio)
 NA
 
 
 sanders_11_ASD_discovery_cases-12621.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Not segregated
 TRIM14
 
 yin_16_ASD_discovery_cases-case368
 
 
 Unknown
 Unknown
 Unknown
 SEPT7P7,ANKS6,GALNT12,GABBR2
 

Controls

Patient ID
Validation Description
Primary Disorder Inheritence
Inheritence
Family Profile
Disease Segregation
Gene Content
Altered Gene Expression
krumm_15_ASD_discovery_controls-control13107.s1
  1M-Duov3
 
  Paternal
 
 
  TRIM14
 
sanders_11_ASD_discovery_controls-11452.s1
 
 
  Paternal
  Simplex (quad)
  NA
 
 
sanders_11_ASD_discovery_controls-11521.s1
 
 
  Paternal
  Simplex (quad)
  NA
 
 
sanders_11_ASD_discovery_controls-11897.s1
 
 
  Unknown
  Simplex (quad)
  NA
 
 
sanders_11_ASD_discovery_controls-11918.s1
 
 
  Unknown
  Simplex (quad)
  NA
  RN7SL794P
 
sanders_11_ASD_discovery_controls-12610.s1
 
 
  Unknown
  Simplex (quad)
  NA
 
 
sanders_11_ASD_discovery_controls-12621.s1
 
 
  Maternal
  Simplex (quad)
  NA
  TRIM14
 
sanders_11_ASD_discovery_controls-12821.s1
 
 
  Unknown
  Simplex (quad)
  NA
 
 

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