ID

45550

Descrição

Principal Investigator: Edwin Cook, MD, University of Illinois at Chicago (UIC), Chicago, IL, USA MeSH: Autistic Disorder,Developmental Disabilities https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000712 Autism spectrum disorder (ASD) is highly heritable with recent sibling recurrence risk estimates of 19% overall and 26% in males. The heritable phenotype of hyperserotonemia, or elevated levels of platelet serotonin (5HT), in ~35% of people with ASD is a well-established biomarker. The efficacy of drugs like risperidone and potent serotonin transporter inhibitors at treating behaviors related to Insistence on Sameness, along with evidence of the contribution of hyperserotonemia to autism susceptibility collectively support the hypothesis that dysfunction in the 5HT system is a significant etiological target for investigation of the genetic component to autism. ASD genetic architecture is complex; common variants of large effect do not contribute substantially to overall ASD risk, but there are clearly common variants with small effects and rare genetic/genomic variation of larger effect among ASD genetic risk factors. The NIH ARRA Autism Sequencing Consortium, including Dr. Sutcliffe and Dr. Cook among others, has initiated exome sequencing studies to identify more of the rare variants contributing to ASD. Data from our group and others reveal numerous rare *de novo* and inherited sequence mutations, and the number of *de novo* and other functional mutations that are found to affect molecules encoding 5HT signaling and its regulation further reinforces our hypothesis that regulation of serotonin levels is important in autism genetic susceptibility. Integrin receptor signaling pathways were prominently featured among identified de novo mutations, thus defining a set of interrelated gene networks that control 5HT signaling. We propose to extend our findings to date by conducting exome sequencing on ACE subjects, for whom we also have 5HT biochemical data, to identify rare variants (including CNVs) in 5HT-related gene networks. In total we propose to have exome sequencing completed on 523 samples. The purpose of the proposed research is two-fold: 1) we will conduct more extensive investigations to determine the support for the hypothesis that genetic variation at genes regulating platelet serotonin levels affect susceptibility to ASD and 2) we will combine the exome sequence data from these studies with sequence data for autism being accumulated in a variety of other research projects to further the goal of identifying and characterizing the genetic component to ASD.

Link

dbGaP-study=phs000712

Palavras-chave

  1. 09/01/2023 09/01/2023 - Chiara Middel
Titular dos direitos

Edwin Cook, MD, University of Illinois at Chicago (UIC), Chicago, IL, USA

Transferido a

9 de janeiro de 2023

DOI

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Licença

Creative Commons BY 4.0

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dbGaP phs000712 UIC ACE Exome Sequencing Analysis

Eligibility Criteria

  1. StudyEvent: SEV1
    1. Eligibility Criteria
    2. The subject consent data table contains subject IDs, consent information, subject aliases, and affection status.
    3. The pedigree table includes subject ID, family ID, father and mother ID, and subject gender to link subjects of the same family.
    4. This data table contains mapping of study subject IDs to sample IDs. Samples are the final preps submitted for genotyping, sequencing, and/or expression data. For example, if one patient (subject ID) gave one sample, and that sample was processed differently to generate 2 sequencing runs, there would be two rows, both using the same subject ID, but having 2 unique sample IDs. The data table also includes sample aliases and sample use.
    5. This subject phenotype table includes subject gender, ancestry, ethnicity, race, paternal and maternal age at proband's birth, blood draw age, subject's relationship to proband, and final diagnosis. Physical observations include Tanner staging (n=6 variables) and CHARGE physical exam (n=9 variables). Laboratory measurements include serotonin (WB5HT) measurements (n=6 variables), karotype abnormalities, fragile-X test, duplication testing, and MRI. Psychological and Psychiatric Measurements include the following: cognitive measurments (n=11 variables), ADI-R (n=21 variables), VABS-II (n=6 variables), ADOS (n=12 variables), PPVT-4 (n=4 variables), EOWPVT (n=4 variables), CELF (n=3 variables), PLS-4 (n=4 variables), ABC-CV (n=6 variables), SCQ (n=3 variables), SRS (n=11 variables), RBS-R (n=9 variables), OCI-R (n=8 variables), CRI (n=4 variables), BAPQ (n=11 variables), PRL (n=9 variables), and SST (n=4 variables).
    6. This sample attributes table includes body site where sample was extracted, analyte type, tumor status, histological type, DNA extraction method, genotyping and sequencing center.
Inclusion and exclusion criteria
Descrição

Inclusion and exclusion criteria

Alias
UMLS CUI [1,1]
C1512693
UMLS CUI [1,2]
C0680251
Family-based association design;
Descrição

Elig.phs000712.v1.p1.1

Tipo de dados

boolean

Alias
UMLS CUI [1,1]
C4050355
UMLS CUI [1,2]
C1707689
Probands met ADI and ADOS algorithm criteria for Autism or ASD as well as a best estimate diagnosis of either Autism or ASD; and,
Descrição

Elig.phs000712.v1.p1.2

Tipo de dados

boolean

Alias
UMLS CUI [1,1]
C0679228
UMLS CUI [1,2]
C0002045
UMLS CUI [1,3]
C1510586
UMLS CUI [1,4]
C0004352
UMLS CUI [2,1]
C1441495
UMLS CUI [2,2]
C0011900
UMLS CUI [2,3]
C0004352
UMLS CUI [2,4]
C1510586
At enrollment, no known genetic disorders.
Descrição

Elig.phs000712.v1.p1.3

Tipo de dados

boolean

Alias
UMLS CUI [1,1]
C1516879
UMLS CUI [1,2]
C1298908
UMLS CUI [1,3]
C0019247

Similar models

Eligibility Criteria

  1. StudyEvent: SEV1
    1. Eligibility Criteria
    2. The subject consent data table contains subject IDs, consent information, subject aliases, and affection status.
    3. The pedigree table includes subject ID, family ID, father and mother ID, and subject gender to link subjects of the same family.
    4. This data table contains mapping of study subject IDs to sample IDs. Samples are the final preps submitted for genotyping, sequencing, and/or expression data. For example, if one patient (subject ID) gave one sample, and that sample was processed differently to generate 2 sequencing runs, there would be two rows, both using the same subject ID, but having 2 unique sample IDs. The data table also includes sample aliases and sample use.
    5. This subject phenotype table includes subject gender, ancestry, ethnicity, race, paternal and maternal age at proband's birth, blood draw age, subject's relationship to proband, and final diagnosis. Physical observations include Tanner staging (n=6 variables) and CHARGE physical exam (n=9 variables). Laboratory measurements include serotonin (WB5HT) measurements (n=6 variables), karotype abnormalities, fragile-X test, duplication testing, and MRI. Psychological and Psychiatric Measurements include the following: cognitive measurments (n=11 variables), ADI-R (n=21 variables), VABS-II (n=6 variables), ADOS (n=12 variables), PPVT-4 (n=4 variables), EOWPVT (n=4 variables), CELF (n=3 variables), PLS-4 (n=4 variables), ABC-CV (n=6 variables), SCQ (n=3 variables), SRS (n=11 variables), RBS-R (n=9 variables), OCI-R (n=8 variables), CRI (n=4 variables), BAPQ (n=11 variables), PRL (n=9 variables), and SST (n=4 variables).
    6. This sample attributes table includes body site where sample was extracted, analyte type, tumor status, histological type, DNA extraction method, genotyping and sequencing center.
Name
Tipo
Description | Question | Decode (Coded Value)
Tipo de dados
Alias
Item Group
Inclusion and exclusion criteria
C1512693 (UMLS CUI [1,1])
C0680251 (UMLS CUI [1,2])
Elig.phs000712.v1.p1.1
Item
Family-based association design;
boolean
C4050355 (UMLS CUI [1,1])
C1707689 (UMLS CUI [1,2])
Elig.phs000712.v1.p1.2
Item
Probands met ADI and ADOS algorithm criteria for Autism or ASD as well as a best estimate diagnosis of either Autism or ASD; and,
boolean
C0679228 (UMLS CUI [1,1])
C0002045 (UMLS CUI [1,2])
C1510586 (UMLS CUI [1,3])
C0004352 (UMLS CUI [1,4])
C1441495 (UMLS CUI [2,1])
C0011900 (UMLS CUI [2,2])
C0004352 (UMLS CUI [2,3])
C1510586 (UMLS CUI [2,4])
Elig.phs000712.v1.p1.3
Item
At enrollment, no known genetic disorders.
boolean
C1516879 (UMLS CUI [1,1])
C1298908 (UMLS CUI [1,2])
C0019247 (UMLS CUI [1,3])

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