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1q32.3CNV Type: Deletion-Duplication


Largest CNV size: 45123 bp

Statistics Box:
Number of Reports: 4



Summary Information

Summary statement in development

Additional Locus Information

Genome browsers

USCS Symbol             NCBI Symbol

Decipher

            Decipher Symbol

References

Major Reports

Title
Author, Year
Report Class
CNV Type
Excess of rare, inherited truncating mutations in autism.
Deletion

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
A discovery resource of rare copy number variations in individuals with autism spectrum disorder.
Deletion
Transmission disequilibrium of small CNVs in simplex autism.
Deletion

Cases

Cohort ID
Author, Year
Descripton
Cohort Size
Diagnosis
Age
Gender
CNV Size
Deletion
Duplication
Total CNV's
 krumm_13_ASD_discovery_cases
 Probands from quad families ascertained as part of the Simons Simplex Collection (SSC); CNVs detected using data from four previously published exome sequencing studies (O'Roak et al., 2011; Iossifov et al., 2012; O'Roak et al., 2012; Sanders et al., 2012)
 411
 Diagnosis of ASD. Social Responsiveness Scale (SRS) used as a quantitative measure of social deficits
 N/A
 81.265% Male
 5908
 1
 0
 1
 krumm_15_ASD_discovery_cases
 Probands from the Simons Simplex Collection
 2377
 Diagnosis of ASD
 N/A
 N/A
 23924
 7
 0
 7
 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
 17298
 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
 45123
 9
 1
 10

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
 146474
 0
 1
 1
 krumm_13_ASD_discovery_controls
 Unaffected siblings of ASD probands from quad families ascertained as part of the Simons Simplex Collection (SSC); CNVs detected using data from four previously published exome sequencing studies (O'Roak et al., 2011; Iossifov et al., 2012; O'Roak et al., 2012; Sanders et al., 2012)
 411
 Control (unaffected siblings of ASD probands). Social Responsiveness Scale (SRS) used as a quantitative measure of social deficits
 N/A
 46.47% Male
 0
 0
 0
 0
 krumm_15_ASD_discovery_controls
 Unaffected siblings from quad families from the Simons Simplex Collection
 1786
 Control
 N/A
 N/A
 5908
 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)
 17298
 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.
 
 16037
 15
 0
 15

Cases

Cohort ID
Geographical Ancestry
Discovery Method
Platform
Algorithm
Software
Validation Method
 krumm_13_ASD_discovery_cases
  N/A
 WES
  Whole exome sequencing platforms used in four recent publications (O'Roak et al., 2011; Sanders et al., 2012; O'Roak et al., 2012, and Iossifov et al., 2012)
 DNACopy, CGHCall
 CoNIFER
 None
 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
 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_13_ASD_discovery_controls
  N/A
  WES
  Whole exome sequencing platforms used in four recent publications (O'Roak et al., 2011; Sanders et al., 2012; O'Roak et al., 2012, and Iossifov et al., 2012)
  DNACopy, CGHCall
  CoNIFER
  None
  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
 
 

Cases

Patient ID
Author, Year
Age
Gender
Primary Diagnosis
Clinical Profile
Cognitive Profile
CNV Start
CNV End
CNV Size
Genome Build
Type Method
Validation
  krumm_13_ASD_discovery_cases-case12175.p1
 N/A
 M
 ASD
 ASD proband from SSC quad family 12175. SRS score of 83.
 Full-scale IQ (FSIQ) score of 71.
 212830241
 212836149
  5909
 GRCh38
 Deletion
 No (not tested)
  krumm_15_ASD_discovery_cases-case11360.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Quad
 
 212830241
 212836149
  5909
 GRCh38
 Deletion
 Yes
  krumm_15_ASD_discovery_cases-case12369.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Quad
 
 212830241
 212836149
  5909
 GRCh38
 Deletion
 Yes
  krumm_15_ASD_discovery_cases-case12674.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Trio
 
 212812227
 212836151
  23925
 GRCh38
 Deletion
 Yes
  krumm_15_ASD_discovery_cases-case13658.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Trio
 
 212830241
 212836149
  5909
 GRCh38
 Deletion
 Yes
  krumm_15_ASD_discovery_cases-case13691.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Trio
 
 212830241
 212836149
  5909
 GRCh38
 Deletion
 Yes
  krumm_15_ASD_discovery_cases-case13717.p1
 N/A
 Male
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Trio
 
 212830241
 212836149
  5909
 GRCh38
 Deletion
 Yes
  krumm_15_ASD_discovery_cases-case13926.p1
 N/A
 Female
 ASD
 Proband from the Simons Simplex Collection (SSC). Family type: Quad
 
 212830241
 212836149
  5909
 GRCh38
 Deletion
 Yes
  prasad_12_ASD_discovery_cases-case46475
 NA
 M
 ASD
 Diagnosis of ASD based on meeting criteria on ADI-R and/or ADOS. Novel CNV
 
 211062891
 211080188
  17298
 Unknown
 Deletion
 No
  sanders_11_ASD_discovery_cases-11168.p1
 11.3
 M
 Autism
 NA
 Full-scale IQ, 96; non-verbal IQ, 106; verbal IQ, 119
 212828746
 212836127
  7382
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11206.p1
 6.1
 M
 Autism
 NA
 Full-scale IQ, 36; non-verbal IQ, 40; verbal IQ, 32
 213143203
 213146256
  3054
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11808.p1
 8.8
 F
 Autism
 NA
 Full-scale IQ, 84; non-verbal IQ, 81; verbal IQ, 95
 212828746
 212838470
  9725
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11811.p1
 16.9
 M
 Autism
 NA
 Full-scale IQ, 77; non-verbal IQ, 79; verbal IQ, 80
 212828746
 212838470
  9725
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12175.p1
 5.1
 M
 Autism
 NA
 Full-scale IQ, 71; non-verbal IQ, 73; verbal IQ, 79
 212828746
 212842482
  13737
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12313.p1
 11.8
 F
 Autism
 NA
 Full-scale IQ, 115; non-verbal IQ, 113; verbal IQ, 114
 212828746
 212838470
  9725
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12403.p1
 11.9
 M
 Autism
 NA
 Full-scale IQ, 104; non-verbal IQ, 102; verbal IQ, 108
 212828746
 212838470
  9725
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12921.p1
 11.4
 M
 Autism
 NA
 Full-scale IQ, 80; non-verbal IQ, 74; verbal IQ, 100
 213024487
 213069610
  45124
 GRCh38
 Duplication
 No
  sanders_11_ASD_discovery_cases-12976.p1
 4.9
 M
 Autism
 NA
 Full-scale IQ, 81; non-verbal IQ, 85; verbal IQ, 82
 212828746
 212838470
  9725
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-13120.p1
 8
 M
 Autism
 NA
 Full-scale IQ, 113; non-verbal IQ, 109; verbal IQ, 118
 212830086
 212838470
  8385
 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-controlHABC_900398_900398
  N/A
  N/A
  Control
  No previous psychiatric history
 
  212201588
  212348062
  146475
  GRCh38
  Duplication
  No
  krumm_15_ASD_discovery_controls-control11159.s1
  N/A
  Female
  Control
  Unaffected sibling from the Simons Simplex Collection (SSC)
 
  212830241
  212836149
  5909
  GRCh38
  Deletion
  Yes
  sanders_11_ASD_discovery_controls-11114.s1
  11.6
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212836127
  7382
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-11115.s1
  15.8
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212836127
  7382
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-11206.s1
  8.3
  F
  Control (matched sibling)
  NA
  NA
  213143203
  213146256
  3054
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-11984.s1
  7.7
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212838470
  9725
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12120.s1
  7.8
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212844783
  16038
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12175.s1
  6.7
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212838470
  9725
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12219.s1
  11.4
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212844783
  16038
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12325.s1
  16.3
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212844783
  16038
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12347.s1
  7.3
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212844783
  16038
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12568.s1
  15.7
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212838470
  9725
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12621.s1
  8.8
  M
  Control (matched sibling)
  NA
  NA
  212828746
  212838470
  9725
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12674.s1
  4.6
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212842482
  13737
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12962.s1
  8.3
  F
  Control (matched sibling)
  NA
  NA
  212828746
  212838470
  9725
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12984.s1
  12
  M
  Control (matched sibling)
  NA
  NA
  212828746
  212838470
  9725
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-13120.s1
  6.2
  M
  Control (matched sibling)
  NA
  NA
  212828746
  212838470
  9725
  GRCh38
  Deletion
  No

Cases

Patient ID
Validation Description
Primary Disorder Inheritence
Inheritence
Family Profile
Disease Segregation
Gene Content
Altered Gene Expression
 krumm_13_ASD_discovery_cases-case12175.p1
 
 
 Paternal
 Simplex
 Segregated
 SPATA45
 
 krumm_15_ASD_discovery_cases-case11360.p1
 Illumina 1M
 
 Maternal
 Simplex
 Segregated
 SPATA45
 
 krumm_15_ASD_discovery_cases-case12369.p1
 Illumina 1MDuo
 
 Paternal
 Simplex
 Segregated
 SPATA45
 
 krumm_15_ASD_discovery_cases-case12674.p1
 Illumina 1MDuo
 
 Maternal
 Simplex
 Segregated
 TATDN3,SPATA45
 
 krumm_15_ASD_discovery_cases-case13658.p1
 Omni2.5-4v1
 
 Paternal
 Simplex
 Segregated
 SPATA45
 
 krumm_15_ASD_discovery_cases-case13691.p1
 Omni2.5-4v1
 
 Maternal
 Simplex
 Segregated
 SPATA45
 
 krumm_15_ASD_discovery_cases-case13717.p1
 Omni2.5-4v1
 
 Paternal
 Simplex
 Segregated
 SPATA45
 
 krumm_15_ASD_discovery_cases-case13926.p1
 Omni2.5-4v1
 
 Maternal
 Simplex
 Segregated
 SPATA45
 
 prasad_12_ASD_discovery_cases-case46475
 
 
 Unknown
 Unknown
 Unknown
 C1orf227
 
 sanders_11_ASD_discovery_cases-11168.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Segregated
 SPATA45
 
 sanders_11_ASD_discovery_cases-11206.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 RPS6KC1
 
 sanders_11_ASD_discovery_cases-11808.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 SPATA45
 
 sanders_11_ASD_discovery_cases-11811.p1
 
 
 Maternal
 Simplex (trio)
 NA
 SPATA45
 
 sanders_11_ASD_discovery_cases-12175.p1
 
 
 Unknown
 Simplex (quad-proband matched)
 Not segregated
 SPATA45
 
 sanders_11_ASD_discovery_cases-12313.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Not segregated
 SPATA45
 
 sanders_11_ASD_discovery_cases-12403.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Not segregated
 SPATA45
 
 sanders_11_ASD_discovery_cases-12921.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Segregated
 RPS6KC1
 
 sanders_11_ASD_discovery_cases-12976.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Not segregated
 SPATA45
 
 sanders_11_ASD_discovery_cases-13120.p1
 
 
 Both parents
 Simplex (quad-proband matched)
 Not segregated
 SPATA45
 

Controls

Patient ID
Validation Description
Primary Disorder Inheritence
Inheritence
Family Profile
Disease Segregation
Gene Content
Altered Gene Expression
engchuan_15_ASD_discovery_controls-controlHABC_900398_900398
 
 
  Unknown
 
 
  RPL23AP18,PPP2R5A
 
krumm_15_ASD_discovery_controls-control11159.s1
  Illumina 1M
 
  Paternal
 
 
  SPATA45
 
sanders_11_ASD_discovery_controls-11114.s1
 
 
  Paternal
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-11115.s1
 
 
  Both parents
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-11206.s1
 
 
  Paternal
  Simplex (quad)
  NA
  RPS6KC1
 
sanders_11_ASD_discovery_controls-11984.s1
 
 
  Maternal
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12120.s1
 
 
  Both parents
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12175.s1
 
 
  Unknown
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12219.s1
 
 
  Both parents
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12325.s1
 
 
  Both parents
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12347.s1
 
 
  Paternal
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12568.s1
 
 
  Maternal
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12621.s1
 
 
  Maternal
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12674.s1
 
 
  Maternal
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12962.s1
 
 
  Maternal
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-12984.s1
 
 
  Paternal
  Simplex (quad)
  NA
  SPATA45
 
sanders_11_ASD_discovery_controls-13120.s1
 
 
  Both parents
  Simplex (quad)
  NA
  SPATA45
 

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