Lee Albert, Khiabanian Hossein, Kugelman Jeffrey, Elliott Oliver, Nagle Elyse, Yu Guo-Yun, Warren Travis, Palacios Gustavo, Rabadan Raul
Department of Biomedical Informatics, Columbia University College of Physicians and Surgeons, New York, New York, NY 10032, USA.
BMC Genomics. 2014 Oct 3;15(1):846. doi: 10.1186/1471-2164-15-846.
Non-human primates (NHPs) and humans share major biological mechanisms, functions, and responses due to their close evolutionary relationship and, as such, provide ideal animal models to study human diseases. RNA expression in NHPs provides specific signatures that are informative of disease mechanisms and therapeutic modes of action. Unlike the human transcriptome, the transcriptomes of major NHP animal models are yet to be comprehensively annotated.
In this manuscript, employing deep RNA sequencing of seven tissue samples, we characterize the transcriptomes of two commonly used NHP animal models: Cynomolgus macaque (Macaca fascicularis) and African green monkey (Chlorocebus aethiops). We present the Multi-Species Annotation (MSA) pipeline that leverages well-annotated primate species and annotates 99.8% of reconstructed transcripts. We elucidate tissue-specific expression profiles and report 13 experimentally validated novel transcripts in these NHP animal models.
We report comprehensively annotated transcriptomes of two non-human primates, which we have made publically available on a customized UCSC Genome Browser interface. The MSA pipeline is also freely available.
由于非人灵长类动物（NHPs）与人类有着密切的进化关系，它们共享主要的生物学机制、功能和反应，因此为研究人类疾病提供了理想的动物模型。NHPs中的RNA表达提供了特定的特征，有助于了解疾病机制和治疗作用方式。与人类转录组不同，主要NHP动物模型的转录组尚未得到全面注释。
在本论文中，我们对七个组织样本进行了深度RNA测序，从而对两种常用的NHP动物模型：食蟹猕猴（Macaca fascicularis）和非洲绿猴（Chlorocebus aethiops）的转录组进行了表征。我们提出了多物种注释（MSA）流程，该流程利用注释良好的灵长类物种对99.8%的重建转录本进行注释。我们阐明了组织特异性表达谱，并在这些NHP动物模型中报告了13个经实验验证的新转录本。
我们报告了两种非人灵长类动物的全面注释转录组，并已通过定制的UCSC基因组浏览器界面公开提供。MSA流程也可免费获取。
