Cohort profile: Genomic data for 26 622 individuals from the Canadian Longitudinal Study on Aging (CLSA)

Vincenzo Forgetta; Rui Li; Corinne Darmond-Zwaig; Alexandre Belisle; Cynthia Balion; Delnaz Roshandel; Christina Wolfson; Guillaume Lettre; Guillaume Pare; Andrew D. Paterson; Lauren E. Griffith; Chris Verschoor; Mark Lathrop; Susan Kirkland; Parminder Raina; J. Brent Richards; Jiannis Ragoussis

doi:10.1136/bmjopen-2021-059021

Cohort profile: Genomic data for 26 622 individuals from the Canadian Longitudinal Study on Aging (CLSA)

Vincenzo Forgetta, Rui Li, Corinne Darmond-Zwaig, Alexandre Belisle, Cynthia Balion, Delnaz Roshandel, Christina Wolfson, Guillaume Lettre, Guillaume Pare, Andrew D. Paterson, Lauren E. Griffith, Chris Verschoor, Mark Lathrop, Susan Kirkland, Parminder Raina, J. Brent Richards, Jiannis Ragoussis

Medicine

Résultat de recherche: Article › examen par les pairs

30 Citations (Scopus)

Résumé

Purpose The Canadian Longitudinal Study on Aging (CLSA) Comprehensive cohort was established to provide unique opportunities to study the genetic and environmental contributions to human disease as well as ageing process. The aim of this report was to describe the genomic data included in CLSA. Participants A total of 26 622 individuals from the CLSA Comprehensive cohort of men and women aged 45-85 recruited between 2010 and 2015 underwent genome-wide genotyping of DNA samples collected from blood. Comprehensive quality control metrics were measured for genetic markers and samples, respectively. The genotypes were imputed to the TOPMed reference panel. Sex chromosome abnormalities were identified by copy number profiling. Classical human leukocyte antigen gene haplotypes were imputed at two-field (four-digit). Findings to date Of the 26 622 genotyped participants, 24 655 (92.6%) were identified as having European ancestry. These genomic data were linked to physical, lifestyle, medical, economic, environmental and psychosocial factors collected longitudinally in CLSA. The combined analysis, including CLSA genomic data, uncovered over 100 novel loci associated with key parameters to define glaucoma. The CLSA genomic dataset validated the contribution of a polygenic risk score to screen individuals with high fracture risk. It is also a valuable resource to directly identify common genetic variations associated with conditions related to complex traits. Taking advantage of the comprehensive interview and physical information collected in CLSA, this genomic dataset has been linked to psychosocial factors to investigate both the independent and interactive effects on cardiovascular disease. Future plans The CLSA overall is ongoing. Follow-up data will continue to be collected from participants in the current genomic subcohort, including the DNA methylation and metabolomic data. Ongoing studies focus on elucidating the role of genetic factors in cognitive decline and cardiovascular diseases. This genomic data resource is available on request through the CLSA data access application process.

Langue d'origine	English
Numéro d'article	e059021
Journal	BMJ Open
Volume	12
Numéro de publication	3
DOI	https://doi.org/10.1136/bmjopen-2021-059021
Statut de publication	Published - mars 10 2022

Note bibliographique

Funding Information:
Funding This research was made possible using the data collected by the Canadian Longitudinal Study on Aging (CLSA). Funding for the CLSA is provided by the Government of Canada through the Canadian Institutes of Health Research (under grant reference LSA 94473) and the Canada Foundation for Innovation, as well as the following provinces (no award/grant number): Newfoundland, Nova Scotia, Quebec, Ontario, Manitoba, Alberta,and British Columbia. The CLSA is led by Drs Parminder Raina, Christina Wolfson and Susan Kirkland. The work was also supported by Genome Canada Technology Platform #12505 and CFI #33408 to ML and JR.

Publisher Copyright:
© 2022 BMJ Publishing Group. All rights reserved.

ASJC Scopus Subject Areas

General Medicine

PubMed: MeSH publication types

Journal Article
Research Support, Non-U.S. Gov't

ODD de l’ONU

Cette action contribue à la réalisation des objectifs de développement durable suivants

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10.1136/bmjopen-2021-059021

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Forgetta, V., Li, R., Darmond-Zwaig, C., Belisle, A., Balion, C., Roshandel, D., Wolfson, C., Lettre, G., Pare, G., Paterson, A. D., Griffith, L. E., Verschoor, C., Lathrop, M., Kirkland, S., Raina, P., Richards, J. B., & Ragoussis, J. (2022). Cohort profile: Genomic data for 26 622 individuals from the Canadian Longitudinal Study on Aging (CLSA). BMJ Open, 12(3), Article e059021. https://doi.org/10.1136/bmjopen-2021-059021

Forgetta, V, Li, R, Darmond-Zwaig, C, Belisle, A, Balion, C, Roshandel, D, Wolfson, C, Lettre, G, Pare, G, Paterson, AD, Griffith, LE, Verschoor, C, Lathrop, M, Kirkland, S, Raina, P, Richards, JB & Ragoussis, J 2022, 'Cohort profile: Genomic data for 26 622 individuals from the Canadian Longitudinal Study on Aging (CLSA)', BMJ Open, vol. 12, n° 3, e059021. https://doi.org/10.1136/bmjopen-2021-059021

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title = "Cohort profile: Genomic data for 26 622 individuals from the Canadian Longitudinal Study on Aging (CLSA)",

abstract = "Purpose The Canadian Longitudinal Study on Aging (CLSA) Comprehensive cohort was established to provide unique opportunities to study the genetic and environmental contributions to human disease as well as ageing process. The aim of this report was to describe the genomic data included in CLSA. Participants A total of 26 622 individuals from the CLSA Comprehensive cohort of men and women aged 45-85 recruited between 2010 and 2015 underwent genome-wide genotyping of DNA samples collected from blood. Comprehensive quality control metrics were measured for genetic markers and samples, respectively. The genotypes were imputed to the TOPMed reference panel. Sex chromosome abnormalities were identified by copy number profiling. Classical human leukocyte antigen gene haplotypes were imputed at two-field (four-digit). Findings to date Of the 26 622 genotyped participants, 24 655 (92.6%) were identified as having European ancestry. These genomic data were linked to physical, lifestyle, medical, economic, environmental and psychosocial factors collected longitudinally in CLSA. The combined analysis, including CLSA genomic data, uncovered over 100 novel loci associated with key parameters to define glaucoma. The CLSA genomic dataset validated the contribution of a polygenic risk score to screen individuals with high fracture risk. It is also a valuable resource to directly identify common genetic variations associated with conditions related to complex traits. Taking advantage of the comprehensive interview and physical information collected in CLSA, this genomic dataset has been linked to psychosocial factors to investigate both the independent and interactive effects on cardiovascular disease. Future plans The CLSA overall is ongoing. Follow-up data will continue to be collected from participants in the current genomic subcohort, including the DNA methylation and metabolomic data. Ongoing studies focus on elucidating the role of genetic factors in cognitive decline and cardiovascular diseases. This genomic data resource is available on request through the CLSA data access application process. ",

author = "Vincenzo Forgetta and Rui Li and Corinne Darmond-Zwaig and Alexandre Belisle and Cynthia Balion and Delnaz Roshandel and Christina Wolfson and Guillaume Lettre and Guillaume Pare and Paterson, {Andrew D.} and Griffith, {Lauren E.} and Chris Verschoor and Mark Lathrop and Susan Kirkland and Parminder Raina and Richards, {J. Brent} and Jiannis Ragoussis",

note = "Funding Information: Funding This research was made possible using the data collected by the Canadian Longitudinal Study on Aging (CLSA). Funding for the CLSA is provided by the Government of Canada through the Canadian Institutes of Health Research (under grant reference LSA 94473) and the Canada Foundation for Innovation, as well as the following provinces (no award/grant number): Newfoundland, Nova Scotia, Quebec, Ontario, Manitoba, Alberta,and British Columbia. The CLSA is led by Drs Parminder Raina, Christina Wolfson and Susan Kirkland. The work was also supported by Genome Canada Technology Platform #12505 and CFI #33408 to ML and JR. Publisher Copyright: {\textcopyright} 2022 BMJ Publishing Group. All rights reserved.",

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AU - Forgetta, Vincenzo

AU - Li, Rui

AU - Darmond-Zwaig, Corinne

AU - Belisle, Alexandre

AU - Balion, Cynthia

AU - Roshandel, Delnaz

AU - Wolfson, Christina

AU - Lettre, Guillaume

AU - Pare, Guillaume

AU - Paterson, Andrew D.

AU - Griffith, Lauren E.

AU - Verschoor, Chris

AU - Lathrop, Mark

AU - Kirkland, Susan

AU - Raina, Parminder

AU - Richards, J. Brent

AU - Ragoussis, Jiannis

N1 - Funding Information: Funding This research was made possible using the data collected by the Canadian Longitudinal Study on Aging (CLSA). Funding for the CLSA is provided by the Government of Canada through the Canadian Institutes of Health Research (under grant reference LSA 94473) and the Canada Foundation for Innovation, as well as the following provinces (no award/grant number): Newfoundland, Nova Scotia, Quebec, Ontario, Manitoba, Alberta,and British Columbia. The CLSA is led by Drs Parminder Raina, Christina Wolfson and Susan Kirkland. The work was also supported by Genome Canada Technology Platform #12505 and CFI #33408 to ML and JR. Publisher Copyright: © 2022 BMJ Publishing Group. All rights reserved.

PY - 2022/3/10

Y1 - 2022/3/10

N2 - Purpose The Canadian Longitudinal Study on Aging (CLSA) Comprehensive cohort was established to provide unique opportunities to study the genetic and environmental contributions to human disease as well as ageing process. The aim of this report was to describe the genomic data included in CLSA. Participants A total of 26 622 individuals from the CLSA Comprehensive cohort of men and women aged 45-85 recruited between 2010 and 2015 underwent genome-wide genotyping of DNA samples collected from blood. Comprehensive quality control metrics were measured for genetic markers and samples, respectively. The genotypes were imputed to the TOPMed reference panel. Sex chromosome abnormalities were identified by copy number profiling. Classical human leukocyte antigen gene haplotypes were imputed at two-field (four-digit). Findings to date Of the 26 622 genotyped participants, 24 655 (92.6%) were identified as having European ancestry. These genomic data were linked to physical, lifestyle, medical, economic, environmental and psychosocial factors collected longitudinally in CLSA. The combined analysis, including CLSA genomic data, uncovered over 100 novel loci associated with key parameters to define glaucoma. The CLSA genomic dataset validated the contribution of a polygenic risk score to screen individuals with high fracture risk. It is also a valuable resource to directly identify common genetic variations associated with conditions related to complex traits. Taking advantage of the comprehensive interview and physical information collected in CLSA, this genomic dataset has been linked to psychosocial factors to investigate both the independent and interactive effects on cardiovascular disease. Future plans The CLSA overall is ongoing. Follow-up data will continue to be collected from participants in the current genomic subcohort, including the DNA methylation and metabolomic data. Ongoing studies focus on elucidating the role of genetic factors in cognitive decline and cardiovascular diseases. This genomic data resource is available on request through the CLSA data access application process.

AB - Purpose The Canadian Longitudinal Study on Aging (CLSA) Comprehensive cohort was established to provide unique opportunities to study the genetic and environmental contributions to human disease as well as ageing process. The aim of this report was to describe the genomic data included in CLSA. Participants A total of 26 622 individuals from the CLSA Comprehensive cohort of men and women aged 45-85 recruited between 2010 and 2015 underwent genome-wide genotyping of DNA samples collected from blood. Comprehensive quality control metrics were measured for genetic markers and samples, respectively. The genotypes were imputed to the TOPMed reference panel. Sex chromosome abnormalities were identified by copy number profiling. Classical human leukocyte antigen gene haplotypes were imputed at two-field (four-digit). Findings to date Of the 26 622 genotyped participants, 24 655 (92.6%) were identified as having European ancestry. These genomic data were linked to physical, lifestyle, medical, economic, environmental and psychosocial factors collected longitudinally in CLSA. The combined analysis, including CLSA genomic data, uncovered over 100 novel loci associated with key parameters to define glaucoma. The CLSA genomic dataset validated the contribution of a polygenic risk score to screen individuals with high fracture risk. It is also a valuable resource to directly identify common genetic variations associated with conditions related to complex traits. Taking advantage of the comprehensive interview and physical information collected in CLSA, this genomic dataset has been linked to psychosocial factors to investigate both the independent and interactive effects on cardiovascular disease. Future plans The CLSA overall is ongoing. Follow-up data will continue to be collected from participants in the current genomic subcohort, including the DNA methylation and metabolomic data. Ongoing studies focus on elucidating the role of genetic factors in cognitive decline and cardiovascular diseases. This genomic data resource is available on request through the CLSA data access application process.

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Cohort profile: Genomic data for 26 622 individuals from the Canadian Longitudinal Study on Aging (CLSA)

Résumé

Note bibliographique

ASJC Scopus Subject Areas

PubMed: MeSH publication types

ODD de l’ONU

Accès au document

Autres fichiers et liens

Empreinte numérique

Citer