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1q32.2CNV Type: Deletion-Duplication


Largest CNV size: 161374 bp

Statistics Box:
Number of Reports: 10



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
Sporadic autism exomes reveal a highly interconnected protein network of de novo mutations.
Duplication
Excess of rare, inherited truncating mutations in autism.
Duplication
Impact of on-site clinical genetics consultations on diagnostic rate in children and young adults with autism spectrum disorder.
Duplication

Minor Reports

Title
Author, Year
Report Class
CNV Type
Rare structural variation of synapse and neurotransmission genes in autism.
Duplication
Multiple recurrent de novo CNVs, including duplications of the 7q11.23 Williams syndrome region, are strongly associated with autism.
Deletion-Duplication
Rare de novo and transmitted copy-number variation in autistic spectrum disorders.
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.
Duplication
Copy number variation in Han Chinese individuals with autism spectrum disorder.
Duplication
Performance of case-control rare copy number variation annotation in classification of autism.
Deletion

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
 873
 0
 1
 1
 engchuan_15_ASD_discovery_cases
 Samples from the Autism Genome Project (AGP)
 1892
 Diagnosis of ASD based on Autism Diagnostic Observation Schedule (ADOS) and Autism Diagnostic Interview-Revised (ADI-R)
 N/A
 85.78% Male
 246466
 1
 0
 1
 gai_11_ASD_discovery_cases
 Discovery case samples derived from AGRE set 4 (most recent patient recruitment)
 631
 Idiopathic autism; cases designated as 'spectrum' and 'not quite autism' excluded, as were cases with known genetic syndromes or other non-idiopathic causes
 
 
 487810
 0
 2
 2
 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
 42690
 0
 1
 1
 krumm_15_ASD_discovery_cases
 Probands from the Simons Simplex Collection
 2377
 Diagnosis of ASD
 N/A
 N/A
 15028
 0
 1
 1
 levy_11_ASD_discovery_cases
 Autistic probands from 887 families from the Simons Simplex Collection (SSC)
 858
 ASD
 
 87.06% Male
 132705
 0
 1
 1
 munnich_19_ASD_discovery_cases
 Children and young adults with ASD recruited from 26 day-care hospitals and specialized institutions within the Greater Paris region
 502
 Diagnosis of ASD based on DSM criteria, with standardized clinical assessment performed using CARS, ADOS, and/or ADI-R
 < 10 years, 34 cases; 11-20 years, 194 cases; 21-30 years, 211 cases; > 30 years, 63 cases
 69.92% Male
 515000
 0
 1
 1
 o'roak_12_ASD_discovery_cases
 Autistic probands from the Simons Simplex Collection (SSC), from an initial cohort of 189 autism families
 122
 ASD/autism
 NA
 NA
 215852
 0
 1
 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
 479954
 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
 161374
 4
 5
 9

Controls

Cohort ID
Author, Year
Descripton
Cohort Size
Diagnosis
Age
Gender
CNV Size
Deletion
Duplication
Total CNV's
 engchuan_15_ASD_discovery_controls
 Platform-matched controls from three large studies: SAGE (Study of Addiction Genetics and Environment), Ontario Colorectal Cancer study, and HABC (Health Aging and Body Composition)
 2342
 Controls; subjects had no previous psychiatric history
 N/A
 46.67% Male
 198718
 1
 2
 3
 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
 levy_11_ASD_discovery_controls
 Unaffected siblings of autistic probands from 887 families from the Simons Simplex Collection (SSC)
 863
 Control
 
 47.97% Male
 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)
 479954
 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.
 
 17833
 5
 2
 7

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
 engchuan_15_ASD_discovery_cases
  Caucasian
 Solid phase hybridization
  Illumina 1M
 
 
 None
 gai_11_ASD_discovery_cases
  European
 Solid phase hybridization
  Illumina Infinium II HumanHap550 BeadChip
 
 BeadStudio 3.0
 None
 gazzellone_14_ASD_discovery_cases
  Han Chinese
 Array SNP
  Affymetrix CytoScan HD
 ChAS, iPattern, Nexus, Partek
 
 None
 krumm_15_ASD_discovery_cases
  N/A
 WES
 
 CoNIFER, XHMM
 
 Solid phase hybridization (Illumina 1M, 1 M Duo, or Omni 2.5)
 levy_11_ASD_discovery_cases
 
 aCGH
  NimbleGen HD2
 HMM
 
 
 munnich_19_ASD_discovery_cases
  France
 aCGH, karyotyping
  Agilent 60K
 
 
 FISH
 o'roak_12_ASD_discovery_cases
  NA
 WES
  NimbleGen EZ Exome V2.0, Illumina GAIIx or HiSeq2000
 HMM
 mrsFAST aligner
 aCGH, Sanger sequencing
 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
 
 

Controls

Cohort ID
Geographical Ancestry
Discovery Method
Platform
Algorithm
Software
Validation Method
  engchuan_15_ASD_discovery_controls
  Caucasian
  Solid phase hybridization
  Illumina 1M
 
 
  None
  krumm_15_ASD_discovery_controls
  N/A
  WES
 
  CoNIFER, XHMM
 
  None
  levy_11_ASD_discovery_controls
 
  aCGH
  NimbleGen HD2
  HMM
 
 
  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
  celestino-soper_11_ASD_discovery_cases-11189
 NA
 M
 ASD
 NA
 NA
 209675066
 209675939
  874
 GRCh38
 Duplication
 No
  engchuan_15_ASD_discovery_cases-case5079_4
 N/A
 N/A
 ASD
 Diagnosis of ASD based on Autism Diagnostic Observation Schedule (ADOS) and Autism Diagnostic Interview-Revised (ADI-R)
 
 210828735
 211075201
  246467
 GRCh38
 Deletion
 No
  gai_11_ASD_discovery_cases-AU1608301
 
 
 Autism
 
 
 205426690
 205914499
  487810
 Unknown
 Duplication
 No
  gai_11_ASD_discovery_cases-AU1608302
 
 
 Autism
 
 
 205426690
 205914499
  487810
 Unknown
 Duplication
 No
  gazzellone_14_ASD_discovery_cases-case691-3
 N/A
 M
 ASD
 ASD; no other clinical information provided
 N/A
 208340171
 208382861
  42691
 GRCh38
 Duplication
 No
  krumm_15_ASD_discovery_cases-case11707.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Trio
 
 207322381
 207337409
  15029
 GRCh38
 Duplication
 Yes
  levy_11_ASD_discovery_cases-11707.p1
 NA
 M
 ASD
 NA
 NA
 207223846
 207356550
  132705
 GRCh38
 Duplication
 No
  munnich_19_ASD_discovery_cases-case23
 N/A
 M
 ASD
 Case diagnosed with ASD based on DSM criteria. CNV detected by aCGH (Agilent 60K)
 
 207607224
 208122236
  515013
 GRCh38
 Duplication
 Yes
  o'roak_12_ASD_discovery_cases-case11707.p1
 NA
 M
 ASD/Autism
 Case also identified with de novo PDCD1 frameshift mutation. No additional clinical info available.
 Low IQ. Non verbal IQ, 23
 207143817
 207359669
  215853
 GRCh38
 Duplication
 Yes
  prasad_12_ASD_discovery_cases-case129927
 NA
 M
 ASD
 Diagnosis of ASD based on meeting criteria on ADI-R and/or ADOS. Novel CNV
 
 208660638
 209140591
  479954
 Unknown
 Duplication
 No
  sanders_11_ASD_discovery_cases-11208.p1
 14.4
 F
 Autism
 NA
 Full-scale IQ, 141; non-verbal IQ, 128; verbal IQ, 149
 208272455
 208279636
  7182
 GRCh38
 Duplication
 No
  sanders_11_ASD_discovery_cases-11371.p1
 6.3
 M
 Autism
 NA
 Full-scale IQ, 78; non-verbal IQ, 84; verbal IQ 75
 207522535
 207683909
  161375
 GRCh38
 Duplication
 No
  sanders_11_ASD_discovery_cases-11537.p1
 14.3
 F
 Autism
 NA
 Full-scale IQ, 64; non-verbal IQ, 66; verbal IQ, 63
 208272455
 208283577
  11123
 GRCh38
 Duplication
 No
  sanders_11_ASD_discovery_cases-11707.p1
 13.5
 M
 Autism
 NA
 Full-scale IQ, 19; non-verbal IQ, 23; verbal IQ, 16
 207230495
 207359810
  129316
 GRCh38
 Duplication
 No
  sanders_11_ASD_discovery_cases-11710.p1
 6.1
 M
 Autism
 NA
 Full-scale IQ, 74; non-verbal IQ, 79; verbal IQ, 73
 210432219
 210440272
  8054
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12029.p1
 8.6
 M
 Autism
 NA
 Full-scale IQ, 103; non-verbal IQ, 108; verbal IQ, 94
 208272455
 208283577
  11123
 GRCh38
 Duplication
 No
  sanders_11_ASD_discovery_cases-12184.p1
 12.9
 F
 Autism
 NA
 Full-scale IQ, 28; non-verbal IQ, 31; verbal IQ, 21
 210432219
 210440272
  8054
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12517.p1
 13.4
 M
 Autism
 NA
 Full-scale IQ, 34; non-verbal IQ, 41; verbal IQ, 20
 210422439
 210440272
  17834
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12541.p1
 6.5
 M
 Autism
 NA
 Full-scale IQ, 127; non-verbal IQ, 133; verbal IQ, 108
 209328062
 209332567
  4506
 GRCh38
 Deletion
 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
  engchuan_15_ASD_discovery_controls-control110036017192_
  N/A
  N/A
  Control
  No previous psychiatric history
 
  208610261
  208808979
  198719
  GRCh38
  Duplication
  No
  engchuan_15_ASD_discovery_controls-controlB147560_1007872587
  N/A
  N/A
  Control
  No previous psychiatric history
 
  208411457
  208515067
  103611
  GRCh38
  Deletion
  No
  engchuan_15_ASD_discovery_controls-controlB669410_0067942584
  N/A
  N/A
  Control
  No previous psychiatric history
 
  208890561
  208950843
  60283
  GRCh38
  Duplication
  No
  sanders_11_ASD_discovery_controls-11235.s1
  4.8
  M
  Control (matched sibling)
  NA
  NA
  210433436
  210440272
  6837
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-11537.s1
  10.3
  F
  Control (matched sibling)
  NA
  NA
  208272455
  208279636
  7182
  GRCh38
  Duplication
  No
  sanders_11_ASD_discovery_controls-12029.s1
  12.6
  M
  Control (matched sibling)
  NA
  NA
  208272455
  208279636
  7182
  GRCh38
  Duplication
  No
  sanders_11_ASD_discovery_controls-12541.s1
  8.3
  M
  Control (matched sibling)
  NA
  NA
  209328062
  209332567
  4506
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12656.s1
  16.3
  M
  Control (matched sibling)
  NA
  NA
  209328062
  209332567
  4506
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12972.s1
  7.2
  F
  Control (matched sibling)
  NA
  NA
  210432219
  210440272
  8054
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-13097.s1
  12.4
  F
  Control (matched sibling)
  NA
  NA
  210422439
  210440272
  17834
  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-11189
 
 
 Unknown
 Simplex
 NA
 G0S2
 
 engchuan_15_ASD_discovery_cases-case5079_4
 
 
 Unknown
 
 
 IPO8P1,KCNH1
 
 gai_11_ASD_discovery_cases-AU1608301
 
 
 Inherited
 
 
 CD55, CR2, CR1, CR1L
 
 gai_11_ASD_discovery_cases-AU1608302
 
 
 Inherited
 
 
 CD55, CR2, CR1, CR1L
 
 gazzellone_14_ASD_discovery_cases-case691-3
 
 
 Unknown
 Unknown
 Unknown
 
 
 krumm_15_ASD_discovery_cases-case11707.p1
 Illumina 1MDuo
 
 Paternal
 Simplex
 Segregated
 CD55
 
 levy_11_ASD_discovery_cases-11707.p1
 
 
 Paternal
 Simplex
 Segregated
 C4BPAP2,CD55
 
 munnich_19_ASD_discovery_cases-case23
 FISH
 
 Unknown
 
 
 CDCA4P3,RNA5SP534,CDCA4P4,MIR29C,MIR29B2,CR1L,CD46P1,CD46,MIR29B2CHG,CD34,PLXNA2,CR1
 
 o'roak_12_ASD_discovery_cases-case11707.p1
 aCGH, Sanger sequencing
 
 Paternal
 Simplex (quad)
 Unknown
 C4BPAP2,C4BPA,C4BPAP1,CD55
 
 prasad_12_ASD_discovery_cases-case129927
 
 
 Unknown
 Unknown
 Unknown
 HHAT,KCNH1
 
 sanders_11_ASD_discovery_cases-11208.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Segregated
 
 
 sanders_11_ASD_discovery_cases-11371.p1
 
 
 Paternal
 Simplex (trio)
 NA
 CDCA4P3,CR1L,CD46P1,CR1
 
 sanders_11_ASD_discovery_cases-11537.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Not segregated
 
 
 sanders_11_ASD_discovery_cases-11707.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Segregated
 CD55
 
 sanders_11_ASD_discovery_cases-11710.p1
 
 
 Paternal
 Simplex (trio)
 NA
 HHAT
 
 sanders_11_ASD_discovery_cases-12029.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Not segregated
 
 
 sanders_11_ASD_discovery_cases-12184.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Segregated
 HHAT
 
 sanders_11_ASD_discovery_cases-12517.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 HHAT
 
 sanders_11_ASD_discovery_cases-12541.p1
 
 
 Unknown
 Simplex (quad-proband matched)
 Not segregated
 LINC01696
 

Controls

Patient ID
Validation Description
Primary Disorder Inheritence
Inheritence
Family Profile
Disease Segregation
Gene Content
Altered Gene Expression
engchuan_15_ASD_discovery_controls-control110036017192_
 
 
  Unknown
 
 
  LINC01735,RPS26P13,LINC01717
 
engchuan_15_ASD_discovery_controls-controlB147560_1007872587
 
 
  Unknown
 
 
 
 
engchuan_15_ASD_discovery_controls-controlB669410_0067942584
 
 
  Unknown
 
 
 
 
sanders_11_ASD_discovery_controls-11235.s1
 
 
  Paternal
  Simplex (quad)
  NA
  HHAT
 
sanders_11_ASD_discovery_controls-11537.s1
 
 
  Maternal
  Simplex (quad)
  NA
 
 
sanders_11_ASD_discovery_controls-12029.s1
 
 
  Maternal
  Simplex (quad)
  NA
 
 
sanders_11_ASD_discovery_controls-12541.s1
 
 
  Unknown
  Simplex (quad)
  NA
  LINC01696
 
sanders_11_ASD_discovery_controls-12656.s1
 
 
  Unknown
  Simplex (quad)
  NA
  LINC01696
 
sanders_11_ASD_discovery_controls-12972.s1
 
 
  Both parents
  Simplex (quad)
  NA
  HHAT
 
sanders_11_ASD_discovery_controls-13097.s1
 
 
  Unknown
  Simplex (quad)
  NA
  HHAT
 

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