{"title":"Breaking Ties in Weighted Interactomes","authors":"Ibrahim Youssef, Anna M. Ritz","doi":"10.1145/3107411.3108228","DOIUrl":null,"url":null,"abstract":"Automatic signaling pathway reconstruction methods using protein-protein interactomes are hindered by the unit/coarsely-weighted edges that lead to many paths sharing the same cost. We propose to use gene expression as an orthologous dataset from the pathway of interest to re-prioritize tied paths. The proposed method promotes/demotes paths based on the number of inferred true pathway edges. In general, it can be applied to any signaling pathway reconstruction method that outputs an ordered list of paths, trees, or other subgraphs.","PeriodicalId":246388,"journal":{"name":"Proceedings of the 8th ACM International Conference on Bioinformatics, Computational Biology,and Health Informatics","volume":"1 1","pages":"0"},"PeriodicalIF":0.0000,"publicationDate":"2017-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Proceedings of the 8th ACM International Conference on Bioinformatics, Computational Biology,and Health Informatics","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.1145/3107411.3108228","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
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Abstract

Automatic signaling pathway reconstruction methods using protein-protein interactomes are hindered by the unit/coarsely-weighted edges that lead to many paths sharing the same cost. We propose to use gene expression as an orthologous dataset from the pathway of interest to re-prioritize tied paths. The proposed method promotes/demotes paths based on the number of inferred true pathway edges. In general, it can be applied to any signaling pathway reconstruction method that outputs an ordered list of paths, trees, or other subgraphs.
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打破加权交互组中的联系
使用蛋白质-蛋白质相互作用组的自动信号通路重建方法受到单位/粗加权边缘的阻碍,导致许多路径共享相同的成本。我们建议使用基因表达作为感兴趣途径的同源数据集来重新确定绑定路径的优先级。提出的方法基于推断的真路径边的数量来提升/降级路径。一般来说,它可以应用于任何输出路径、树或其他子图的有序列表的信令路径重建方法。
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