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Cis-regulatory Sequences

Cis-regulatory Sequences

Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...

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Updated: Jul 11, 2025

Mass-Rearing and Molecular Studies in Tortricidae Pest Insects

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Published on: March 25, 2022

昆虫转录组的功能注释:从白类虫的一个警告故事.

Naya McCartney¹, Gayathri Kondakath¹, Albert Tai²

¹Department of Biology, Tufts University, 200 Boston Ave, Medford, MA, 02155, USA.

Insect biochemistry and molecular biology

|November 12, 2023

概括

通过比较功能性注释工具,我们发现了Gene Ontology对昆虫基因组数据的术语分配中的显著差异. 这些变化凸显了生物信息学中对标准化计算方法的需求.

关键词:

博姆比克斯·莫里,RNAseqq 功能注释功能注释基因本体学是基因的本体学.曼杜卡·塞克斯塔 (Manduca sexta) 是一个

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Last Updated: Jul 11, 2025

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科学领域:

基因组学就是基因组学.
生物信息学是一种生物信息学.
计算生物学计算生物学

背景情况:

功能性注释对于解释基因组数据至关重要,为基因功能和生物通路提供了洞察力.
关于为准确的功能注释提供最佳计算方法存在缺乏共识.
基因本体学 (GO) 术语被广泛用于标准化基因功能描述.

研究的目的:

为了比较三个流行的功能注释工具的性能:BLAST,eggNOG-Mapper和InterProScan.
评估这些方法在两种昆虫物种Bombyx mori和Manduca sexta.中分配基因本体学术语的能力.
识别差异,并评估功能注释的每个计算方法的优缺点.

主要方法:

对三个不同的功能注释管道进行比较分析:BLAST,eggNOG-Mapper和InterProScan.
评价注释覆盖范围,分配的基因本体学术语数量,术语协议和独特的术语识别.
方法应用于两种昆虫物种的基因组数据集,Bombyx mori和Manduca sexta,具有不同的注释状态.

主要成果:

在三种评估的计算方法中,在基因本体学术语赋值中观察到显著的差异.
在BLAST,eggNOG-Mapper和InterProScan之间注意到注释覆盖范围和分配术语数量的差异.
重叠和非重叠的基因本体学术语的实质性差异表明可能存在冲突的数据解释.

结论:

该研究表明,根据所使用的计算工具,功能注释结果存在相当大的变化.
这些差异可能导致混的解释,并阻碍基因组分析结果的可比性.
对于基因组学中功能注释的更标准化的计算方法的开发和采用,有着至关重要的需求.