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4q33CNV Type: Deletion


Largest CNV size: 24663 bp

Statistics Box:
Number of Reports: 4



Summary Information

Summary statement in development

Additional Locus Information

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USCS Symbol             NCBI Symbol

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            Decipher Symbol

References

Major Reports

Title
Author, Year
Report Class
CNV Type
Copy number variations associated with autism spectrum disorders contribute to a spectrum of neurodevelopmental disorders.
Deletion
Contribution of copy number variants involving nonsense-mediated mRNA decay pathway genes to neuro-developmental disorders.
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
Copy number variation analysis of patients with intellectual disability from North-West Spain.
Duplication

Cases

Cohort ID
Author, Year
Descripton
Cohort Size
Diagnosis
Age
Gender
CNV Size
Deletion
Duplication
Total CNV's
 nguyen_13_DD/ID/MCA/ASD_discovery_cases
 Patients from the Developmental Gene Anatomy Project at Harvard Medical School (DGAP), the Developmental Gene Discovery Project at Georgia Health Sciences University (DGDP), the National Institute of General Medical Sciences Human Genetic Cell Repository (NIGMS), the Signature Genomic Laboratories Genoglyphix Chromosome Aberration Database, and DECIPHER
 57365
 Predominant cohort diagnosis of developmental delay/intellectual disability and/or mulitple congenital anomalies (MCA); 5 cases with additional diagnosis of autism/ASD
 N/A
 N/A
 1914644
 0
 1
 1
 quintela_17_DD/ID_discovery_cases
 Galician (NW Spain) patients recruited from the Complexo Hospitalario Universitario de Santiago de Compostela and referred to the Fundacion Publica Galega de Medicina Xenomica for genetic study
 573
 All participants had a clinical diagnosis of idiopathic intellectual disability (ID) or global developmental delay (DD) with or without another medical condition [e.g. autism spectrum disorder (ASD), attention deficit hyperactivity disorder (ADHD), epilepsy, dysmorphic features, and/or congenital anomalies]
 Range, 3 months-18 years
 60.38% Male
 223201
 0
 1
 1
 rosenfeld_10_ASD_discovery_cases
 Samples submitted between 3/2004 and 7/2008 that had ASD as indication for study (Signature Genomic Labs, Spokane, WA)
 1461
 ASD
 
 
 705955
 1
 0
 1
 rosenfeld_10_non-ASD_discovery_cases
 Samples submitted between 3/2004 and 7/2008 that did not have ASD as indication for study (Signature Genomic Labs, Spokane, WA)
 21219
 Controls (no diagnosis or indication of ASD)
 
 
 
 4
 0
 4
 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
 24663
 10
 0
 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
 143241
 1
 0
 1
 nguyen_13_DD/ID/MCA/ASD_discovery_controls
 Control data from the Database of Genomic Variants (DGV, n=12,145) and a published dataset of 8,329 individuals from Moriarty et al., 1998.
 20474
 Control
 N/A
 N/A
 N/A
 N/A
 N/A
 N/A
 poultney_13_ASD_discovery_controls
 Controls matched for European ancestry from NIMH and CEPH retained after filtering (original cohort size of 379 controls)
 260
 Control
 N/A
 47.49% Male (before filtering)
 98317
 1
 0
 1
 sanders_11_ASD_discovery_controls
 Matched siblings of autistic probands from the Simons Simplex Collection (SSC).
 872
 Controls
 Mean, 10.0 yrs.
 
 2143
 3
 0
 3

Cases

Cohort ID
Geographical Ancestry
Discovery Method
Platform
Algorithm
Software
Validation Method
 nguyen_13_DD/ID/MCA/ASD_discovery_cases
  N/A
 aCGH
  SignatureChip BACs aCGH, SignatureChip Oligo whole-genome microarray
 
 
 FISH
 quintela_17_DD/ID_discovery_cases
  North West Spain
 Array SNP
  Affymetrix Cytogenetics Whole-Genome 2M SNP array, Affymetrix CytoScan HD
 
 Affymetrix ChAS v.1.2.2
 None
 rosenfeld_10_ASD_discovery_cases
 
 aCGH
  BACs aCGH, whole-genome oligo-aCGH
 
 
 FISH
 rosenfeld_10_non-ASD_discovery_cases
 
 aCGH
  BACs aCGH, whole-genome oligo-aCGH
 
 
 FISH
 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
  nguyen_13_DD/ID/MCA/ASD_discovery_controls
  N/A
  N/A
  N/A
 
 
  N/A
  poultney_13_ASD_discovery_controls
  European
  WES
  Agilent SureSelect Human All Exon v.2
  XHMM
 
  None
  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
  nguyen_13_DD/ID/MCA/ASD_discovery_cases-GC40227
 N/A
 F
 DD/ID/MCA
 Database: Signature. Indication for study: Possible Trisomy 13 with 2 abnormal cell lines, mosaic r(13)
 
 170033346
 171947990
  1914645
 GRCh38
 Duplication
 Yes
  quintela_17_DD/ID_discovery_cases-caseID_28
 13 yrs.
 F
 Intellectual disability
 Language delay. Incomplete parental clinical history.
 Intellectual disability
 169689434
 169912634
  223201
 GRCh38
 Duplication
 No
  rosenfeld_10_ASD_discovery_cases-case25196
 NA
 NA
 ASD
 NA
 NA
 170841800
 171547755
  705955
 Unknown
 Deletion
 Yes
  sanders_11_ASD_discovery_cases-11168.p1
 11.3
 M
 Autism
 NA
 Full-scale IQ, 96; non-verbal IQ, 106; verbal IQ, 119
 170348353
 170350496
  2144
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11398.p1
 12.3
 M
 Autism
 NA
 Full-scale IQ, 94; non-verbal IQ, 106; verbal IQ, 77
 170348353
 170350496
  2144
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11429.p1
 11.3
 M
 Autism
 NA
 Full-scale IQ, 99; non-verbal IQ, 97; verbal IQ, 102
 170348353
 170350496
  2144
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11458.p1
 16.4
 M
 Autism
 NA
 Full-scale IQ, 117; non-verbal IQ, 106; verbal IQ, 126
 170348353
 170350496
  2144
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-11552.p1
 9.6
 M
 Autism
 NA
 Full-scale IQ, 87; non-verbal IQ, 85; verbal IQ, 92
 170348353
 170350496
  2144
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12102.p1
 5.1
 M
 Autism
 NA
 Full-scale IQ, 45; non-verbal IQ, 52; verbal IQ, 38
 169794452
 169819115
  24664
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12198.p1
 8.1
 M
 Autism
 NA
 Full-scale IQ, 117; non-verbal IQ, 119; verbal IQ, 108
 170348353
 170350496
  2144
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12430.p1
 9.8
 F
 Autism
 NA
 Full-scale IQ, 109; non-verbal IQ, 110; verbal IQ, 106
 170348353
 170350496
  2144
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-12976.p1
 4.9
 M
 Autism
 NA
 Full-scale IQ, 81; non-verbal IQ, 85; verbal IQ, 82
 170342524
 170350496
  7973
 GRCh38
 Deletion
 No
  sanders_11_ASD_discovery_cases-13266.p1
 7.9
 M
 Autism
 NA
 Full-scale IQ, 87; non-verbal IQ, 95; verbal IQ, 81
 169983014
 169985789
  2776
 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_900564_900564
  N/A
  N/A
  Control
  No previous psychiatric history
 
  170271859
  170415100
  143242
  GRCh38
  Deletion
  No
  poultney_13_ASD_discovery_controls-control05C43450A
  N/A
  F
  Control
  NIMH Control (NIMH ID 33253)
 
  169991376
  170089692
  98317
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-11307.s1
  13.1
  M
  Control (matched sibling)
  NA
  NA
  170348353
  170350496
  2144
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-11412.s1
  10.5
  F
  Control (matched sibling)
  NA
  NA
  170348353
  170350496
  2144
  GRCh38
  Deletion
  No
  sanders_11_ASD_discovery_controls-12430.s1
  8.3
  M
  Control (matched sibling)
  NA
  NA
  170348353
  170350496
  2144
  GRCh38
  Deletion
  No

Cases

Patient ID
Validation Description
Primary Disorder Inheritence
Inheritence
Family Profile
Disease Segregation
Gene Content
Altered Gene Expression
 nguyen_13_DD/ID/MCA/ASD_discovery_cases-GC40227
 FISH
 
 Paternal
 Unknown
 Unknown
 APOBEC3AP1,LINC02382,RNU6ATAC13P,MIR6082,AADAT,LINC01612,LINC02512,HSP90AA6P,LINC02504,LINC02174,LINC02431,GALNTL6
 
 quintela_17_DD/ID_discovery_cases-caseID_28
 
 
 Maternal
 
 Unknown
 PTGES3P3,CLCN3,HPF1
 
 rosenfeld_10_ASD_discovery_cases-case25196
 FISH
 
 Paternal
 Unknown
 Unknown
 CLCN3,C4orf27,MFAP3L,AADAT
 
 sanders_11_ASD_discovery_cases-11168.p1
 
 
 Both parents
 Simplex (quad-proband matched)
 Segregated
 LINC02512
 
 sanders_11_ASD_discovery_cases-11398.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Segregated
 LINC02512
 
 sanders_11_ASD_discovery_cases-11429.p1
 
 
 Both parents
 Simplex (quad-proband matched)
 Not segregated
 LINC02512
 
 sanders_11_ASD_discovery_cases-11458.p1
 
 
 Maternal
 Simplex (quad-proband matched)
 Not segregated
 LINC02512
 
 sanders_11_ASD_discovery_cases-11552.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 LINC02512
 
 sanders_11_ASD_discovery_cases-12102.p1
 
 
 Unknown
 Simplex (trio)
 NA
 
 
 sanders_11_ASD_discovery_cases-12198.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 LINC02512
 
 sanders_11_ASD_discovery_cases-12430.p1
 
 
 Both parents
 Simplex (quad-proband matched)
 Not segregated
 LINC02512
 
 sanders_11_ASD_discovery_cases-12976.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 LINC02512
 
 sanders_11_ASD_discovery_cases-13266.p1
 
 
 Paternal
 Simplex (quad-proband matched)
 Not segregated
 
 

Controls

Patient ID
Validation Description
Primary Disorder Inheritence
Inheritence
Family Profile
Disease Segregation
Gene Content
Altered Gene Expression
engchuan_15_ASD_discovery_controls-controlHABC_900564_900564
 
 
  Unknown
 
 
  LINC01612,LINC02512
 
poultney_13_ASD_discovery_controls-control05C43450A
 
 
  Unknown
 
 
  AADAT,MFAP3L
 
sanders_11_ASD_discovery_controls-11307.s1
 
 
  Paternal
  Simplex (quad)
  NA
  LINC02512
 
sanders_11_ASD_discovery_controls-11412.s1
 
 
  Maternal
  Simplex (quad)
  NA
  LINC02512
 
sanders_11_ASD_discovery_controls-12430.s1
 
 
  Both parents
  Simplex (quad)
  NA
  LINC02512
 

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