Inference of Protein-Protein Interactions by Using Co-evolutionary Information

机译：使用共进化信息推断蛋白质与蛋白质的相互作用

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The mirror tree is a method to predict protein-protein interaction by evaluating the similarity between distance matrices of proteins. It is known, however, that predictions by the mirror tree method include many false positives. We suspected that the information about the evolutionary relationship of source organisms may be the cause of the false positives, because the information is shared by the distance matrices. Therefore, we excluded the information from the distance matrices and evaluated the similarity of the residuals as the intensity of co-evolution. We developed two different methods with a projection operation and partial correlation coefficient. The number of false positives were drastically reduced by our methods.

机译：镜像树是一种通过评估蛋白质距离矩阵之间的相似性来预测蛋白质与蛋白质相互作用的方法。然而，已知通过镜像树方法的预测包括许多误报。我们怀疑有关源生物进化关系的信息可能是假阳性的原因，因为该信息由距离矩阵共享。因此，我们从距离矩阵中排除了信息，并评估了残差的相似度作为协同进化的强度。我们用投影运算和偏相关系数开发了两种不同的方法。我们的方法大大减少了误报的数量。

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来源
《International Conference on Algebraic Biology(AB 2007); 20070702-04; Castle of Hagenberg(AT)》|2007年|P.322-333|共12页
会议地点 Castle of Hagenberg(AT)
作者
Tetsuya Sato; Yoshihiro Yamanishi; Katsuhisa Horimoto; Minoru Kanehisa; Hiroyuki Toh;
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作者单位

Division of Bioinformatics, Medical Institute of Bioregulation, Kyushu University, 3-1-1, Maidashi, Higashi-ku, Fukuoka 812-8582, Japan;

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan;

Computat;

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会议组织
原文格式 PDF
正文语种 eng
中图分类代数、数论、组合理论;生物工程学（生物技术）;
关键词
protein-protein; co-evolution; projection operation; partial correlation coefficient;

机译：蛋白质；蛋白质；协同进化；投影运算；偏相关系数;

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专利

1. The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships [J] . Sato T, Yamanishi Y, Kanehisa M, Bioinformatics . 2005,第17期

机译：通过排除有关系统发育关系的信息，可以改善通过协同进化分析得出的蛋白质相互作用的推断
2. The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships [J] . Sato T, Yamanishi Y, Kanehisa M, Bioinformatics . 2005,第17期

机译：通过排除有关系统发育关系的信息，可以改善通过共进化分析得出的蛋白质相互作用的推断
3. Co-evolutionary Analysis of Domains in Interacting Proteins Reveals Insights into Domain-Domain Interactions Mediating Protein-Protein Interactions. [J] . Jothi R, Cherukuri PF, Tasneem A, Journal of Molecular Biology . 2006,第4期

机译：相互作用蛋白中域的共同进化分析揭示了对介导蛋白-蛋白质相互作用的域-域相互作用的见解。
4. Inference of Protein-Protein Interactions by Using Co-evolutionary Information [C] . Tetsuya Sato, Yoshihiro Yamanishi, Katsuhisa Horimoto, International Conference on Algebraic Biology . 2007

机译：通过使用共同进化信息推理蛋白质 - 蛋白质相互作用
5. Small molecule modulation of protein-protein interactions: A. Microtubule-associated proteins affected by paclitaxel. B. Protein-protein interactions induced by bifunctional molecules. [D] . Barco, Joseph William. 2001

机译：蛋白质-蛋白质相互作用的小分子调节：A.受紫杉醇影响的微管相关蛋白质。 B.双功能分子诱导的蛋白质-蛋白质相互作用。
6. Co-evolutionary landscape at the interface and non-interface regions of protein-protein interaction complexes [O] . Ishita Mukherjee, Saikat Chakrabarti 2021

机译：蛋白质 - 蛋白质相互作用复合物界面和非界面区域的共同进化景观
7. 1SA1-04 Analysis of thermal stability and protein-protein interaction in BPTI from a co-evolutionary viewpoint(1SA1 Co-evolutionary analyses as the methods to investigate protein-protein interaction,The 47th Annual Meeting of the Biophysical Society of Japan) [O] . Yutaka Kuroda 2009

机译：1SA1-04从共进进化的观点分析BPTI中的热稳定性和蛋白质 - 蛋白质相互作用（1SA1共同进化分析作为探讨蛋白质 - 蛋白质互动的方法，日本生物物理学学会第47届年会）

Inference of Protein-Protein Interactions by Using Co-evolutionary Information

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