一种高效分析DNA纤维数据的算法及应用

IF 1.5 4区 生物学 Q4 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Biotechnology & Biotechnological Equipment Pub Date : 2023-05-12 DOI:10.1080/13102818.2023.2206488
Teodor Kirilov, Anastas Gospodinov, Kiril Kirilov
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引用次数: 1

摘要

遗传信息的复制(DNA复制)是生命的核心。许多控制机制确保每个细胞分裂过程的精确过程。DNA复制的干扰对受影响的细胞有严重的后果,目前的模型将它们与癌症的发展联系起来。研究DNA复制最准确的方法之一是用卤化核苷酸标记新合成的DNA分子,然后是免疫荧光和显微镜检测,称为DNA纤维标记。该方法允许通过测量每个复制复合体留下的“痕迹”的长度来登记单个复制复合体的活性。该方法的主要困难是劳动密集型的分析,这需要测量大量标记片段的长度。近年来,人们对这类图像分析的兴趣迅速增长。在这个项目中,我们开发了一个算法和一个轻量级的Java应用程序来自动分析单个DNA分子图像,我们将其命名为“DNA大小查找器”。DNA大小查找器大大简化了实验数据的分析,同时通过对更多DNA分子的标准化测量提高了可靠性。它是免费的,不需要使用任何付费平台或服务。我们希望这一应用将促进DNA复制控制的研究以及人类活动中使用的各种化合物对DNA复制过程的影响。
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An algorithm and application to efficiently analyse DNA fibre data
The duplication of genetic information (DNA replication) is central to life. Numerous control mechanisms ensure the exact course of the process during each cell division. Disturbances of DNA replication have severe consequences for the affected cell, and current models link them to cancer development. One of the most accurate methods for studying DNA replication is labelling newly synthesised DNA molecules with halogenated nucleotides, followed by immunofluorescence and microscopy detection, known as DNA fibre labelling. The method allows the registration of the activity of single replication complexes by measuring the length of the “trace” left by each of them. The major difficulty of the method is the labor-intensive analysis, which requires measuring the lengths of a large number of labelled fragments. Recently, the interest in this kind of image analysis has grown rapidly. In this project we have developed an algorithm and a lightweight Java application to automatically analyse single DNA molecule images that we have named “DNA size finder”. DNA size finder significantly simplified the analysis of the experimental data while increasing reliability by the standardised measurement of a greater number of DNA molecules. It is freely available and does not require any paid platforms or services to be used. We hope that the application will facilitate both the study of DNA replication control and the effects of various compounds used in human activity on the process of DNA replication.
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来源期刊
Biotechnology & Biotechnological Equipment
Biotechnology & Biotechnological Equipment 工程技术-生物工程与应用微生物
CiteScore
3.10
自引率
0.00%
发文量
90
审稿时长
1 months
期刊介绍: Biotechnology & Biotechnological Equipment (B&BE) is an international open access journal publishing cutting-edge research. A modern world requires modern biotechnology and nanobiology. The journal is a forum that provides society with valuable information for a healthy and better life and promotes “the Science and Culture of Nature”. The journal publishes original research and reviews with a multidisciplinary perspective; expanded case reports with a focus on molecular medical research and advanced practice in evidence-based medicine are also considered.
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