RNA剪接的惊人复杂性。
The incredible complexity of RNA splicing.
作者信息
Robert Christelle, Watson Mick
机构信息
The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Edinburgh, UK.
出版信息
Genome Biol. 2016 Dec 30;17(1):265. doi: 10.1186/s13059-016-1121-y.
Abstract
Alternative splice isoforms are common and important and have been shown to impact many human diseases. A new study by Nellore et al. offers a comprehensive study of splice junctions in humans by re-analyzing over 21,500 public human RNA sequencing datasets.
摘要
可变剪接异构体普遍且重要，已被证明会影响许多人类疾病。内洛尔等人的一项新研究通过重新分析超过21500个公开的人类RNA测序数据集，对人类的剪接位点进行了全面研究。
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2
GO-FAANG meeting: a Gathering On Functional Annotation of Animal Genomes.GO-FAANG会议：动物基因组功能注释研讨会
Anim Genet. 2016 Oct;47(5):528-33. doi: 10.1111/age.12466. Epub 2016 Jul 24.
3
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4
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Nucleic Acids Res. 2015 Feb 18;43(3):1345-56. doi: 10.1093/nar/gku1392. Epub 2015 Jan 10.
5
Design and development of exome capture sequencing for the domestic pig (Sus scrofa).家猪（Sus scrofa）外显子捕获测序的设计与开发。
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7
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8
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