Introducing the hypothome: a way to integrate predicted proteins in interactomes.

Q4 Health Professions International Journal of Bioinformatics Research and Applications Pub Date : 2014-01-01 DOI:10.1504/IJBRA.2014.065247

Claus Desler, Sine Zambach, Prashanth Suravajhala, Lene Juel Rasmussen

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引用次数: 3

Abstract

An interactome is defined as a network of protein-protein interactions built from experimentally verified interactions. Basic science as well as application-based research of potential new drugs can be promoted by including proteins that are only predicted into interactomes. The disadvantage of doing so is the risk of devaluing the definition of interactomes. By adding proteins that have only been predicted, an interactome can no longer be classified as experimentally verified and the integrity of the interactome will be endured. Therefore, we propose the term 'hypothome' (collection of hypothetical interactions of predicted proteins). The purpose of such a term is to provide a denotation to the interactome concept allowing the interaction of predicted proteins without devaluing the integrity of the interactome. We define a rule-set for a hypothome and have integrated the predicted protein interaction partners to the hypothetical protein. EAW74251 is an example for the usage of a hypothome.

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引入假设:一种在相互作用组中整合预测蛋白质的方法。

相互作用组被定义为由实验验证的相互作用建立的蛋白质-蛋白质相互作用网络。通过将仅预测到的蛋白质纳入相互作用组，可以促进基础科学以及基于应用的潜在新药研究。这样做的缺点是有贬低相互作用组定义的风险。通过添加仅被预测的蛋白质，相互作用组不能再被归类为实验验证，相互作用组的完整性将被忍受。因此，我们提出了术语“假设”(假设的相互作用预测蛋白质的集合)。这样一个术语的目的是为相互作用组概念提供一个外延，允许预测的蛋白质相互作用而不降低相互作用组的完整性。我们为假设定义了一个规则集，并将预测的蛋白质相互作用伙伴整合到假设的蛋白质中。EAW74251是使用抵押的一个示例。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

International Journal of Bioinformatics Research and Applications Health Professions-Health Information Management

CiteScore

0.60

自引率

0.00%

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期刊介绍： Bioinformatics is an interdisciplinary research field that combines biology, computer science, mathematics and statistics into a broad-based field that will have profound impacts on all fields of biology. The emphasis of IJBRA is on basic bioinformatics research methods, tool development, performance evaluation and their applications in biology. IJBRA addresses the most innovative developments, research issues and solutions in bioinformatics and computational biology and their applications. Topics covered include Databases, bio-grid, system biology Biomedical image processing, modelling and simulation Bio-ontology and data mining, DNA assembly, clustering, mapping Computational genomics/proteomics Silico technology: computational intelligence, high performance computing E-health, telemedicine Gene expression, microarrays, identification, annotation Genetic algorithms, fuzzy logic, neural networks, data visualisation Hidden Markov models, machine learning, support vector machines Molecular evolution, phylogeny, modelling, simulation, sequence analysis Parallel algorithms/architectures, computational structural biology Phylogeny reconstruction algorithms, physiome, protein structure prediction Sequence assembly, search, alignment Signalling/computational biomedical data engineering Simulated annealing, statistical analysis, stochastic grammars.