Data from: Hypothalamic transcriptomes of 99 mouse strains reveal trans eQTL hotspots, splicing QTLs and novel non-coding genes

Hasin-Brumshtein, Yehudit, University of California Los Angeles

Khan, Arshad H., University of California Los Angeles

Hormozdiari, Farhad, University of California Los Angeles

Pan, Calvin, University of California Los Angeles

Parks, Brian W., University of California Los Angeles

Petyuk, Vladislav A., Pacific Northwest National Laboratory

Piehowski, Paul D., Pacific Northwest National Laboratory

Brümmer, Anneke, University of California Los Angeles

Pellegrini, Matteo, University of California Los Angeles

Xiao, Xinshu, University of California Los Angeles

Eskin, Eleazar, University of California Los Angeles

Smith, Richard D., Pacific Northwest National Laboratory

Lusis, Aldons J., University of California Los Angeles

Smith, Desmond J., University of California Los Angeles

Published Sep 13, 2017 on Dryad. https://doi.org/10.5061/dryad.vm525

Cite this dataset

Hasin-Brumshtein, Yehudit et al. (2017). Data from: Hypothalamic transcriptomes of 99 mouse strains reveal trans eQTL hotspots, splicing QTLs and novel non-coding genes [Dataset]. Dryad. https://doi.org/10.5061/dryad.vm525

Abstract

Previous studies had shown that integration of genome wide expression profiles, in metabolic tissues, with genetic and phenotypic variance, provided valuable insight into the underlying molecular mechanisms. We used RNA-Seq to characterize hypothalamic transcriptome in 99 inbred strains of mice from the Hybrid Mouse Diversity Panel (HMDP), a reference resource population for cardiovascular and metabolic traits. We report numerous novel transcripts supported by proteomic analyses, as well as novel non coding RNAs. High resolution genetic mapping of transcript levels in HMDP, reveals both local and trans expression Quantitative Trait Loci (eQTLs) demonstrating 2 trans eQTL 'hotspots' associated with expression of hundreds of genes. We also report thousands of alternative splicing events regulated by genetic variants. Finally, comparison with about 150 metabolic and cardiovascular traits revealed many highly significant associations. Our data provides a rich resource for understanding the many physiologic functions mediated by the hypothalamus and their genetic regulation.

Usage notes

FileS2_ExpressionQTL

Expression QTL supplementary file, analyzed in "Hypothalamic transcriptomes of 99 mouse strains reveal trans eQTL hotspots, splicing QTLs and novel non-coding genes". Data file that includes all identified expression QTL associations. Includes tracking IDs of the feature and SNP, positions, p value of association, SNP odds ratio and weight, SNP distance to gene and interaction type (local or trans).