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ICAnnoLncRNA:在转录组序列中进行长期非编码RNA搜索和注释的蛇形管道

Artem Yu Pronozin^1,2,3, Dmitry A Afonnikov^1,2,3

¹Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, 630090 Novosibirsk, Russia.

|July 29, 2023

概括

我们开发了ICAnnoLncRNA,这是一个自动化管道,用于在植物转录组数据中识别,分类和注释长非编码RNA (lncRNA). 该工具通过简化复杂的分析来增强植物 lncRNA 研究.

科学领域:

植物分子生物学植物分子生物学
生物信息学是一种生物信息学.
基因组学就是基因组学.

背景情况:

长非编码RNAs (lncRNAs) 是植物中至关重要的调节分子,但它们在物种间的识别和分析仍然具有挑战性.
计算管道的最新进展促进了标准化和自动化的 lncRNA 数据处理.
了解 lncRNA 功能对于扩展植物生物学知识至关重要.

研究的目的:

引入ICAnnoLncRNA,一个用于植物 lncRNAs 的识别,分类和注释的自动计算管道.
提供一个标准化和用户友好的工具,用于分析 lncRNA 候选在组装的转录组序列.
为了更深入地了解植物中的lncRNA功能和特征.

主要方法:

开发ICAnnoLncRNA管道,集成LncFinder软件用于lncRNA识别.
使用可用的基因组lncRNA注释数据实现参数调整.
包括候选预测,基因组对齐,过,分类,数据库比较和结构/表达式分析的步骤.

主要成果:

ICAnnoLncRNA管道成功自动识别,分类和注释植物 lncRNAs.
该管道有效地过错误的转录和可转换元素,确保数据质量.
在15个由Trinity和Hisat2/StringTie.组装的玉米转录图书馆上展示了应用.

结论:

ICAnnoLncRNA为植物 lncRNA研究提供了一个强大的,自动化的解决方案.
该管道提高了lncRNA发现和表征的效率和准确性.
这种工具将加速在各种植物物种中探索 lncRNA 的作用.

关键词:

标注注释标注注释自动管道自动管道自动管道这是分类分类的分类.长非编码RNA是什么意思玉米玉米玉米是一种转录组 (transcriptome) 是一个转录组.

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lncRNA - Long Non-coding RNAs

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