Identifying gene targets for brain-related traits using transcriptomic and methylomic data from blood

Understanding the difference in genetic regulation of gene expression between brain and blood is important for discovering genes for brain-related traits and disorders. Here, we estimate the correlation of genetic effects at the top-associated cis-expression or -DNA methylation (DNAm) quantitative t...

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Autores principales: Qi, Ting, Wu, Yang, Zeng, Jian, Zhang, Futao, Xue, Angli, Jiang, Longda, Zhu, Zhihong, Kemper, Kathryn, Yengo, Loic, Zheng, Zhili, Marioni, Riccardo E., Montgomery, Grant W., Deary, Ian J., Wray, Naomi R., Visscher, Peter M., McRae, Allan F., Yang, Jian
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2018
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5995828/
https://www.ncbi.nlm.nih.gov/pubmed/29891976
http://dx.doi.org/10.1038/s41467-018-04558-1
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author Qi, Ting
Wu, Yang
Zeng, Jian
Zhang, Futao
Xue, Angli
Jiang, Longda
Zhu, Zhihong
Kemper, Kathryn
Yengo, Loic
Zheng, Zhili
Marioni, Riccardo E.
Montgomery, Grant W.
Deary, Ian J.
Wray, Naomi R.
Visscher, Peter M.
McRae, Allan F.
Yang, Jian
author_facet Qi, Ting
Wu, Yang
Zeng, Jian
Zhang, Futao
Xue, Angli
Jiang, Longda
Zhu, Zhihong
Kemper, Kathryn
Yengo, Loic
Zheng, Zhili
Marioni, Riccardo E.
Montgomery, Grant W.
Deary, Ian J.
Wray, Naomi R.
Visscher, Peter M.
McRae, Allan F.
Yang, Jian
author_sort Qi, Ting
collection PubMed
description Understanding the difference in genetic regulation of gene expression between brain and blood is important for discovering genes for brain-related traits and disorders. Here, we estimate the correlation of genetic effects at the top-associated cis-expression or -DNA methylation (DNAm) quantitative trait loci (cis-eQTLs or cis-mQTLs) between brain and blood (r(b)). Using publicly available data, we find that genetic effects at the top cis-eQTLs or mQTLs are highly correlated between independent brain and blood samples ([Formula: see text] for cis-eQTLs and [Formula: see text] for cis-mQTLs). Using meta-analyzed brain cis-eQTL/mQTL data (n = 526 to 1194), we identify 61 genes and 167 DNAm sites associated with four brain-related phenotypes, most of which are a subset of the discoveries (97 genes and 295 DNAm sites) using data from blood with larger sample sizes (n = 1980 to 14,115). Our results demonstrate the gain of power in gene discovery for brain-related phenotypes using blood cis-eQTL/mQTL data with large sample sizes.
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spelling pubmed-59958282018-06-13 Identifying gene targets for brain-related traits using transcriptomic and methylomic data from blood Qi, Ting Wu, Yang Zeng, Jian Zhang, Futao Xue, Angli Jiang, Longda Zhu, Zhihong Kemper, Kathryn Yengo, Loic Zheng, Zhili Marioni, Riccardo E. Montgomery, Grant W. Deary, Ian J. Wray, Naomi R. Visscher, Peter M. McRae, Allan F. Yang, Jian Nat Commun Article Understanding the difference in genetic regulation of gene expression between brain and blood is important for discovering genes for brain-related traits and disorders. Here, we estimate the correlation of genetic effects at the top-associated cis-expression or -DNA methylation (DNAm) quantitative trait loci (cis-eQTLs or cis-mQTLs) between brain and blood (r(b)). Using publicly available data, we find that genetic effects at the top cis-eQTLs or mQTLs are highly correlated between independent brain and blood samples ([Formula: see text] for cis-eQTLs and [Formula: see text] for cis-mQTLs). Using meta-analyzed brain cis-eQTL/mQTL data (n = 526 to 1194), we identify 61 genes and 167 DNAm sites associated with four brain-related phenotypes, most of which are a subset of the discoveries (97 genes and 295 DNAm sites) using data from blood with larger sample sizes (n = 1980 to 14,115). Our results demonstrate the gain of power in gene discovery for brain-related phenotypes using blood cis-eQTL/mQTL data with large sample sizes. Nature Publishing Group UK 2018-06-11 /pmc/articles/PMC5995828/ /pubmed/29891976 http://dx.doi.org/10.1038/s41467-018-04558-1 Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Qi, Ting
Wu, Yang
Zeng, Jian
Zhang, Futao
Xue, Angli
Jiang, Longda
Zhu, Zhihong
Kemper, Kathryn
Yengo, Loic
Zheng, Zhili
Marioni, Riccardo E.
Montgomery, Grant W.
Deary, Ian J.
Wray, Naomi R.
Visscher, Peter M.
McRae, Allan F.
Yang, Jian
Identifying gene targets for brain-related traits using transcriptomic and methylomic data from blood
title Identifying gene targets for brain-related traits using transcriptomic and methylomic data from blood
title_full Identifying gene targets for brain-related traits using transcriptomic and methylomic data from blood
title_fullStr Identifying gene targets for brain-related traits using transcriptomic and methylomic data from blood
title_full_unstemmed Identifying gene targets for brain-related traits using transcriptomic and methylomic data from blood
title_short Identifying gene targets for brain-related traits using transcriptomic and methylomic data from blood
title_sort identifying gene targets for brain-related traits using transcriptomic and methylomic data from blood
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5995828/
https://www.ncbi.nlm.nih.gov/pubmed/29891976
http://dx.doi.org/10.1038/s41467-018-04558-1
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