Motalign: A Multiple Sequence Alignment Algorithm Based on a New Distance and a New Score Function

A. Mokaddem, M. Elloumi
{"title":"Motalign: A Multiple Sequence Alignment Algorithm Based on a New Distance and a New Score Function","authors":"A. Mokaddem, M. Elloumi","doi":"10.1109/DEXA.2013.43","DOIUrl":null,"url":null,"abstract":"In this paper, we present our new progressive alignment algorithm, called Motalign, for Multiple Sequence Alignment (MSA). Our algorithm adopts a new profile based distance [1] to compare two biological sequences and a new score function, called gPSP, to align profiles. We benchmarked our algorithm on different benchmarks. We compared the results obtained by our algorithm to those obtained by other ones, like CLUSTALW2, MUSCLE and MAFFT, by using the Column Score (CS) [2] and the Sum of Pairs Score (SPS) [2]. We obtained interesting results.","PeriodicalId":428515,"journal":{"name":"2013 24th International Workshop on Database and Expert Systems Applications","volume":"15 1","pages":"0"},"PeriodicalIF":0.0000,"publicationDate":"2013-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"7","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"2013 24th International Workshop on Database and Expert Systems Applications","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.1109/DEXA.2013.43","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
引用次数: 7

Abstract

In this paper, we present our new progressive alignment algorithm, called Motalign, for Multiple Sequence Alignment (MSA). Our algorithm adopts a new profile based distance [1] to compare two biological sequences and a new score function, called gPSP, to align profiles. We benchmarked our algorithm on different benchmarks. We compared the results obtained by our algorithm to those obtained by other ones, like CLUSTALW2, MUSCLE and MAFFT, by using the Column Score (CS) [2] and the Sum of Pairs Score (SPS) [2]. We obtained interesting results.
基于新距离和新分数函数的多序列比对算法
本文提出了一种新的用于多序列比对(MSA)的渐进式比对算法——Motalign。我们的算法采用一种新的基于轮廓的距离[1]来比较两个生物序列,并采用一种新的评分函数gPSP来对齐轮廓。我们在不同的基准上对我们的算法进行了基准测试。我们使用Column Score (CS)[2]和Sum of Pairs Score (SPS)[2]将我们的算法得到的结果与CLUSTALW2、MUSCLE、MAFFT等算法得到的结果进行比较。我们得到了有趣的结果。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 求助全文
来源期刊
自引率
0.00%
发文量
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:604180095
Book学术官方微信