Genetic compendium of 1511 human brains available through the UK Medical Research Council Brain Banks Network Resource.
Given the central role of genetic factors in the pathogenesis of common neurodegenerative disorders, it is critical that mechanistic studies in human tissue are interpreted in a genetically enlightened context. To address this, we performed exome sequencing and copy number variant analysis on 1511 f...
| Auteurs principaux: | , , , , , , , , , , , , , , , , , , , , |
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| Format: | Journal article |
| Langue: | English |
| Publié: |
Cold Spring Harbor Laboratory Press
2016
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| _version_ | 1826276229917966336 |
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| author | Keogh, M Wei, W Wilson, I Coxhead, J Ryan, S Rollinson, S Griffin, H Kurzawa-Akanbi, M Santibanez-Koref, M Talbot, K Turner, M McKenzie, C Troakes, C Attems, J Smith, C Al Sarraj, S Morris, C Ansorge, O Pickering-Brown, S Ironside, J Chinnery, P |
| author_facet | Keogh, M Wei, W Wilson, I Coxhead, J Ryan, S Rollinson, S Griffin, H Kurzawa-Akanbi, M Santibanez-Koref, M Talbot, K Turner, M McKenzie, C Troakes, C Attems, J Smith, C Al Sarraj, S Morris, C Ansorge, O Pickering-Brown, S Ironside, J Chinnery, P |
| author_sort | Keogh, M |
| collection | OXFORD |
| description | Given the central role of genetic factors in the pathogenesis of common neurodegenerative disorders, it is critical that mechanistic studies in human tissue are interpreted in a genetically enlightened context. To address this, we performed exome sequencing and copy number variant analysis on 1511 frozen human brains with a diagnosis of Alzheimer's disease (AD, n = 289), frontotemporal dementia/amyotrophic lateral sclerosis (FTD/ALS, n = 252), Creutzfeldt-Jakob disease (CJD, n = 239), Parkinson's disease (PD, n = 39), dementia with Lewy bodies (DLB, n = 58), other neurodegenerative, vascular, or neurogenetic disorders (n = 266), and controls with no significant neuropathology (n = 368). Genomic DNA was extracted from brain tissue in all cases before exome sequencing (Illumina Nextera 62 Mb capture) with variants called by FreeBayes; copy number variant (CNV) analysis (Illumina HumanOmniExpress-12 BeadChip); C9orf72 repeat expansion detection; and APOE genotyping. Established or likely pathogenic heterozygous, compound heterozygous, or homozygous variants, together with the C9orf72 hexanucleotide repeat expansions and a copy number gain of APP, were found in 61 brains. In addition to known risk alleles in 349 brains (23.9% of 1461 undergoing exome sequencing), we saw an association between rare variants in GRN and DLB. Rare CNVs were found in <1.5% of brains, including copy number gains of PRPH that were overrepresented in AD. Clinical, pathological, and genetic data are available, enabling the retrieval of specific frozen brains through the UK Medical Research Council Brain Banks Network. This allows direct access to pathological and control human brain tissue based on an individual's genetic architecture, thus enabling the functional validation of known genetic risk factors and potentially pathogenic alleles identified in future studies. |
| first_indexed | 2024-03-06T23:10:54Z |
| format | Journal article |
| id | oxford-uuid:656eaedc-56eb-4a1f-8e74-136815c22bc7 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-06T23:10:54Z |
| publishDate | 2016 |
| publisher | Cold Spring Harbor Laboratory Press |
| record_format | dspace |
| spelling | oxford-uuid:656eaedc-56eb-4a1f-8e74-136815c22bc72022-03-26T18:25:30ZGenetic compendium of 1511 human brains available through the UK Medical Research Council Brain Banks Network Resource.Journal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:656eaedc-56eb-4a1f-8e74-136815c22bc7EnglishSymplectic Elements at OxfordCold Spring Harbor Laboratory Press2016Keogh, MWei, WWilson, ICoxhead, JRyan, SRollinson, SGriffin, HKurzawa-Akanbi, MSantibanez-Koref, MTalbot, KTurner, MMcKenzie, CTroakes, CAttems, JSmith, CAl Sarraj, SMorris, CAnsorge, OPickering-Brown, SIronside, JChinnery, PGiven the central role of genetic factors in the pathogenesis of common neurodegenerative disorders, it is critical that mechanistic studies in human tissue are interpreted in a genetically enlightened context. To address this, we performed exome sequencing and copy number variant analysis on 1511 frozen human brains with a diagnosis of Alzheimer's disease (AD, n = 289), frontotemporal dementia/amyotrophic lateral sclerosis (FTD/ALS, n = 252), Creutzfeldt-Jakob disease (CJD, n = 239), Parkinson's disease (PD, n = 39), dementia with Lewy bodies (DLB, n = 58), other neurodegenerative, vascular, or neurogenetic disorders (n = 266), and controls with no significant neuropathology (n = 368). Genomic DNA was extracted from brain tissue in all cases before exome sequencing (Illumina Nextera 62 Mb capture) with variants called by FreeBayes; copy number variant (CNV) analysis (Illumina HumanOmniExpress-12 BeadChip); C9orf72 repeat expansion detection; and APOE genotyping. Established or likely pathogenic heterozygous, compound heterozygous, or homozygous variants, together with the C9orf72 hexanucleotide repeat expansions and a copy number gain of APP, were found in 61 brains. In addition to known risk alleles in 349 brains (23.9% of 1461 undergoing exome sequencing), we saw an association between rare variants in GRN and DLB. Rare CNVs were found in <1.5% of brains, including copy number gains of PRPH that were overrepresented in AD. Clinical, pathological, and genetic data are available, enabling the retrieval of specific frozen brains through the UK Medical Research Council Brain Banks Network. This allows direct access to pathological and control human brain tissue based on an individual's genetic architecture, thus enabling the functional validation of known genetic risk factors and potentially pathogenic alleles identified in future studies. |
| spellingShingle | Keogh, M Wei, W Wilson, I Coxhead, J Ryan, S Rollinson, S Griffin, H Kurzawa-Akanbi, M Santibanez-Koref, M Talbot, K Turner, M McKenzie, C Troakes, C Attems, J Smith, C Al Sarraj, S Morris, C Ansorge, O Pickering-Brown, S Ironside, J Chinnery, P Genetic compendium of 1511 human brains available through the UK Medical Research Council Brain Banks Network Resource. |
| title | Genetic compendium of 1511 human brains available through the UK Medical Research Council Brain Banks Network Resource. |
| title_full | Genetic compendium of 1511 human brains available through the UK Medical Research Council Brain Banks Network Resource. |
| title_fullStr | Genetic compendium of 1511 human brains available through the UK Medical Research Council Brain Banks Network Resource. |
| title_full_unstemmed | Genetic compendium of 1511 human brains available through the UK Medical Research Council Brain Banks Network Resource. |
| title_short | Genetic compendium of 1511 human brains available through the UK Medical Research Council Brain Banks Network Resource. |
| title_sort | genetic compendium of 1511 human brains available through the uk medical research council brain banks network resource |
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