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Sci Rep. 2017 Jun 23;7(1):4200. doi: 10.1038/s41598-017-04520-z.

A Comprehensive Mouse Transcriptomic BodyMap across 17 Tissues by RNA-seq.

Li B1,2, Qing T1,2, Zhu J1, Wen Z1,3, Yu Y1,2, Fukumura R4, Zheng Y5,6, Gondo Y7, Shi L8,9.

Author information

1
Center for Pharmacogenomics, School of Pharmacy, and State Key Laboratory of Genetic Engineering, School of Life Sciences and Shanghai Cancer Hospital/Cancer Institute, Fudan University, Shanghai, 200438, China.
2
Collaborative Innovation Center for Genetics and Development, Fudan University, Shanghai, 200438, China.
3
College of Chemistry, Sichuan University, Chengdu, 610064, China.
4
Mutagenesis and Genomics Team, RIKEN BioResource Center, Tsukuba, Ibaraki, 305-0074, Japan.
5
Center for Pharmacogenomics, School of Pharmacy, and State Key Laboratory of Genetic Engineering, School of Life Sciences and Shanghai Cancer Hospital/Cancer Institute, Fudan University, Shanghai, 200438, China. yuantingzheng@fudan.edu.cn.
6
Collaborative Innovation Center for Genetics and Development, Fudan University, Shanghai, 200438, China. yuantingzheng@fudan.edu.cn.
7
Mutagenesis and Genomics Team, RIKEN BioResource Center, Tsukuba, Ibaraki, 305-0074, Japan. gondo@riken.jp.
8
Center for Pharmacogenomics, School of Pharmacy, and State Key Laboratory of Genetic Engineering, School of Life Sciences and Shanghai Cancer Hospital/Cancer Institute, Fudan University, Shanghai, 200438, China. lemingshi@fudan.edu.cn.
9
Collaborative Innovation Center for Genetics and Development, Fudan University, Shanghai, 200438, China. lemingshi@fudan.edu.cn.

Abstract

The mouse has been widely used as a model organism for studying human diseases and for evaluating drug safety and efficacy. Many diseases and drug effects exhibit tissue specificity that may be reflected by tissue-specific gene-expression profiles. Here we construct a comprehensive mouse transcriptomic BodyMap across 17 tissues of six-weeks old C57BL/6JJcl mice using RNA-seq. We find different expression patterns between protein-coding and non-coding genes. Liver expressed the least complex transcriptomes, that is, the smallest number of genes detected in liver across all 17 tissues, whereas testis and ovary harbor more complex transcriptomes than other tissues. We report a comprehensive list of tissue-specific genes across 17 tissues, along with a list of 4,781 housekeeping genes in mouse. In addition, we propose a list of 27 consistently and highly expressed genes that can be used as reference controls in expression-profiling analysis. Our study provides a unique resource of mouse gene-expression profiles, which is helpful for further biomedical research.

PMID:
28646208
PMCID:
PMC5482823
DOI:
10.1038/s41598-017-04520-z
[Indexed for MEDLINE]
Free PMC Article

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