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Gene expression genetics of the striatum of Diversity Outbred mice
Brain transcriptional variation is a heritable trait that mediates complex behaviors, including addiction. Expression quantitative trait locus (eQTL) mapping reveals genomic regions harboring genetic variants that influence transcript abundance. In this study, we profiled transcript abundance in the...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Cold Spring Harbor Laboratory
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10197688/ https://www.ncbi.nlm.nih.gov/pubmed/37214980 http://dx.doi.org/10.1101/2023.05.11.540390 |
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author | Philip, Vivek M. He, Hao Saul, Michael C. Dickson, Price E. Bubier, Jason A. Chesler, Elissa J. |
author_facet | Philip, Vivek M. He, Hao Saul, Michael C. Dickson, Price E. Bubier, Jason A. Chesler, Elissa J. |
author_sort | Philip, Vivek M. |
collection | PubMed |
description | Brain transcriptional variation is a heritable trait that mediates complex behaviors, including addiction. Expression quantitative trait locus (eQTL) mapping reveals genomic regions harboring genetic variants that influence transcript abundance. In this study, we profiled transcript abundance in the striatum of 386 Diversity Outbred (J:DO) mice of both sexes using RNA-Seq. All mice were characterized using a behavioral battery of widely-used exploratory and risk-taking assays prior to transcriptional profiling. We performed eQTL mapping, incorporated the results into a browser-based eQTL viewer, and deposited co-expression network members in GeneWeaver. The eQTL viewer allows researchers to query specific genes to obtain allelic effect plots, analyze SNP associations, assess gene expression correlations, and apply mediation analysis to evaluate whether the regulatory variant is acting through the expression of another gene. GeneWeaver allows multi-species comparison of gene sets using statistical and combinatorial tools. This data resource allows users to find genetic variants that regulate differentially expressed transcripts and place them in the context of other studies of striatal gene expression and function in addiction-related behavior. |
format | Online Article Text |
id | pubmed-10197688 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Cold Spring Harbor Laboratory |
record_format | MEDLINE/PubMed |
spelling | pubmed-101976882023-05-20 Gene expression genetics of the striatum of Diversity Outbred mice Philip, Vivek M. He, Hao Saul, Michael C. Dickson, Price E. Bubier, Jason A. Chesler, Elissa J. bioRxiv Article Brain transcriptional variation is a heritable trait that mediates complex behaviors, including addiction. Expression quantitative trait locus (eQTL) mapping reveals genomic regions harboring genetic variants that influence transcript abundance. In this study, we profiled transcript abundance in the striatum of 386 Diversity Outbred (J:DO) mice of both sexes using RNA-Seq. All mice were characterized using a behavioral battery of widely-used exploratory and risk-taking assays prior to transcriptional profiling. We performed eQTL mapping, incorporated the results into a browser-based eQTL viewer, and deposited co-expression network members in GeneWeaver. The eQTL viewer allows researchers to query specific genes to obtain allelic effect plots, analyze SNP associations, assess gene expression correlations, and apply mediation analysis to evaluate whether the regulatory variant is acting through the expression of another gene. GeneWeaver allows multi-species comparison of gene sets using statistical and combinatorial tools. This data resource allows users to find genetic variants that regulate differentially expressed transcripts and place them in the context of other studies of striatal gene expression and function in addiction-related behavior. Cold Spring Harbor Laboratory 2023-05-12 /pmc/articles/PMC10197688/ /pubmed/37214980 http://dx.doi.org/10.1101/2023.05.11.540390 Text en https://creativecommons.org/licenses/by-nc-nd/4.0/This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License (https://creativecommons.org/licenses/by-nc-nd/4.0/) , which allows reusers to copy and distribute the material in any medium or format in unadapted form only, for noncommercial purposes only, and only so long as attribution is given to the creator. |
spellingShingle | Article Philip, Vivek M. He, Hao Saul, Michael C. Dickson, Price E. Bubier, Jason A. Chesler, Elissa J. Gene expression genetics of the striatum of Diversity Outbred mice |
title | Gene expression genetics of the striatum of Diversity Outbred mice |
title_full | Gene expression genetics of the striatum of Diversity Outbred mice |
title_fullStr | Gene expression genetics of the striatum of Diversity Outbred mice |
title_full_unstemmed | Gene expression genetics of the striatum of Diversity Outbred mice |
title_short | Gene expression genetics of the striatum of Diversity Outbred mice |
title_sort | gene expression genetics of the striatum of diversity outbred mice |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10197688/ https://www.ncbi.nlm.nih.gov/pubmed/37214980 http://dx.doi.org/10.1101/2023.05.11.540390 |
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