P. Deschavanne, A. Giron, Joseph Vilain, Christine Dufraigne, B. Fertil
{"title":"Genomic signature is preserved in short DNA fragments","authors":"P. Deschavanne, A. Giron, Joseph Vilain, Christine Dufraigne, B. Fertil","doi":"10.1109/BIBE.2000.889603","DOIUrl":null,"url":null,"abstract":"The \"chaos game representation\" (CGR) paradigm has been implemented to display the use of short oligonucleotides in genomes in the form of fractal images. These images can be considered as a genomic signature. Using an unsupervised classification approach, it is shown that short fragments of genomic sequences retain most of the characteristics of the species they come from. It thus appears possible to perform a global comparison of species by means of genome fragments found in databases. The efficiency of this approach is evaluated as a function of the size of the fragments and the length of the oligonucleotides.","PeriodicalId":196846,"journal":{"name":"Proceedings IEEE International Symposium on Bio-Informatics and Biomedical Engineering","volume":"2 1","pages":"0"},"PeriodicalIF":0.0000,"publicationDate":"2000-11-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"53","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Proceedings IEEE International Symposium on Bio-Informatics and Biomedical Engineering","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.1109/BIBE.2000.889603","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
引用次数: 53
Abstract
The "chaos game representation" (CGR) paradigm has been implemented to display the use of short oligonucleotides in genomes in the form of fractal images. These images can be considered as a genomic signature. Using an unsupervised classification approach, it is shown that short fragments of genomic sequences retain most of the characteristics of the species they come from. It thus appears possible to perform a global comparison of species by means of genome fragments found in databases. The efficiency of this approach is evaluated as a function of the size of the fragments and the length of the oligonucleotides.
采用混沌博弈表示(chaos game representation, CGR)范式，以分形图像的形式展示短寡核苷酸在基因组中的应用。这些图像可以被认为是基因组的特征。使用非监督分类方法，研究表明基因组序列的短片段保留了它们来自的物种的大部分特征。因此，通过在数据库中找到的基因组片段，似乎有可能对物种进行全球比较。这种方法的效率被评价为片段大小和寡核苷酸长度的函数。
京公网安备 11010802042870号
京ICP备2023020795号-1
分享
求助内容：
应助结果提醒方式：
扫码关注我们
