相关实验视频

Updated: May 27, 2025

RNA Next-Generation Sequencing and a Bioinformatics Pipeline to Identify Expressed LINE-1s at the Locus-Specific Level

RNA Next-Generation Sequencing and a Bioinformatics Pipeline to Identify Expressed LINE-1s at the Locus-Specific Level

Published on: May 19, 2019

比较基因组学揭示了LINE-1重组与各种RNA的重组

Cheuk-Ting Law^1,2,3, Kathleen H Burns^1,2,3

¹Department of Pathology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115, USA.

bioRxiv : the preprint server for biology

|February 20, 2025

概括

新的计算工具揭示了人类基因组中的新奇的长间隔元素-1 (LINE-1) 嵌合体. 这些发现扩大了我们对基因组进化和可转移元素化潜力的理解.

科学领域:

基因组学就是基因组学.
分子生物学分子生物学
进化生物学进化生物学

背景情况:

长间隔元素-1 (LINE-1,L1) 逆转移子在哺乳动物基因组中丰富,并影响基因组进化.
LINE-1元素可以调动其他序列,并与各种RNA类型形成嵌合体插入,但缺乏全面的目录.

研究的目的:

开发一个计算管道 (TiMEstamp) 用于识别和约会LINE-1插入,并发现新奇的嵌合体插入.
在人类基因组中创建LINE-1仿真体的全面目录.

主要方法:

开发使用多次序对齐 (MSA) 来估计LINE-1插入年龄的TiMEstamp计算管道.
通过分析同时相邻的序列来识别候选的嵌合体插入.
使用LINE-1逆转换的标志性特征,如目标部位重复 (TSD) 的候选者的改进.

主要成果:

TiMEstamp 管道成功地确定了人类基因组中所有已知的 LINE-1 嵌合体物种.
发现了新的嵌合体插入,涉及小RNA,Alu元素和mRNA片段.
有证据表明,新型的逆转换机制,包括转接,以及在已故的LINE-1位点中恢复活动.

结论:

LINE-1 RNA 具有显著的重组潜力,影响基因组进化.
这些发现表明由LINE-1活动驱动的基因组重排的新机制.
LINE-1元素可以通过获得调节元素来化,从而影响基因组可塑性.

关键词:

线路-1 线路-1 在线在U6 snRNA中.嵌入式嵌入式嵌入式嵌入式进行比较的基因组学.多个序列对齐的多重序列对齐.通过拼接进行跨拼接.可转移的元素可以转移.

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Detection of Retrotransposition Activity of Hot LINE-1s by Long-Distance Inverse PCR

Detection of Retrotransposition Activity of Hot LINE-1s by Long-Distance Inverse PCR

Published on: July 27, 2019

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

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