Centre for Integrative Genomics, University of Lausanne, Lausanne, Switzerland.
Vital-IT, Swiss Institute of Bioinformatics, Lausanne, Switzerland.
Sci Data. 2019 Oct 31;6(1):258. doi: 10.1038/s41597-019-0171-x.
With the aim to uncover the molecular pathways underlying the regulation of sleep, we recently assembled an extensive and comprehensive systems genetics dataset interrogating a genetic reference population of mice at the levels of the genome, the brain and liver transcriptomes, the plasma metabolome, and the sleep-wake phenome. To facilitate a meaningful and efficient re-use of this public resource by others we designed, describe in detail, and made available a Digital Research Object (DRO), embedding data, documentation, and analytics. We present and discuss both the advantages and limitations of our multi-modal resource and analytic pipeline. The reproducibility of the results was tested by a bioinformatician not implicated in the original project and the robustness of results was assessed by re-annotating genetic and transcriptome data from the mm9 to the mm10 mouse genome assembly.
为了揭示睡眠调控的分子途径，我们最近组装了一个广泛而全面的系统遗传学数据集，从基因组、大脑和肝脏转录组、血浆代谢组和睡眠-觉醒表型水平，对一个遗传参考群体的小鼠进行了检测。为了方便其他人有意义且高效地重复使用这一公共资源，我们设计、详细描述并提供了一个数字研究对象（Digital Research Object，DRO），其中嵌入了数据、文档和分析。我们展示并讨论了我们的多模态资源和分析管道的优点和局限性。结果的可重复性通过一个没有参与原始项目的生物信息学家进行了测试，结果的稳健性通过重新注释从 mm9 到 mm10 小鼠基因组组装的遗传和转录组数据进行了评估。
