G4Killer 网页应用程序：设计 G-四链体突变的工具。

G4Killer web application: a tool to design G-quadruplex mutations.

机构信息

Institute of Biophysics of the Czech Academy of Sciences, Brno 612 65, Czech Republic.

Department of Informatics, Mendel University in Brno, Brno 613 00, Czech Republic.

出版信息

Bioinformatics. 2020 May 1;36(10):3246-3247. doi: 10.1093/bioinformatics/btaa057.

DOI:10.1093/bioinformatics/btaa057

PMID:31985802

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7214026/

Abstract

MOTIVATION

G-quadruplexes (G4) are important regulatory non-B DNA structures with therapeutic potential. A tool for rational design of mutations leading to decreased propensity for G4 formation should be useful in studying G4 functions. Although tools exist for G4 prediction, no easily accessible tool for the rational design of G4 mutations has been available.

RESULTS

We developed a web-based tool termed G4Killer that is based on the G4Hunter algorithm. This new tool is a platform-independent and user-friendly application to design mutations crippling G4 propensity in a parsimonious way (i.e., keeping the primary sequence as close as possible to the original one). The tool is integrated into our DNA analyzer server and allows for generating mutated DNA sequences having the desired lowered G4Hunter score with minimal mutation steps.

AVAILABILITY AND IMPLEMENTATION

The G4Killer web tool can be accessed at: http://bioinformatics.ibp.cz.

SUPPLEMENTARY INFORMATION

Supplementary data are available at Bioinformatics online.

摘要

动机

四链体（G4）是具有治疗潜力的重要调控非 B 型 DNA 结构。用于合理设计导致 G4 形成倾向降低的突变的工具对于研究 G4 功能应该是有用的。尽管存在用于 G4 预测的工具，但尚无易于访问的用于 G4 突变的合理设计的工具。

结果

我们开发了一种基于 G4Hunter 算法的名为 G4Killer 的基于网络的工具。这个新工具是一个与平台无关且用户友好的应用程序，用于以简约的方式设计突变，从而削弱 G4 的倾向（即，使原始序列尽可能接近原始序列）。该工具集成到我们的 DNA 分析仪服务器中，并允许生成具有所需降低的 G4Hunter 得分的突变 DNA 序列，突变步骤最少。