Protein Function Prediction for Omics Era

Protein Function Prediction for Omics Era

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Gene function annotation has been a central question in molecular biology. The importance of computational function prediction is increasing because more and more large scale biological data, including genome sequences, protein structures, protein-protein interaction data, microarray expression data, and mass spectrometry data, are awaiting biological interpretation. Traditionally when a genome is sequenced, function annotation of genes is done by homology search methods, such as BLAST or FASTA. However, since these methods are developed before the genomics era, conventional use of them is not necessarily most suitable for analyzing a large scale data. Therefore we observe emerging development of computational gene function prediction methods, which are targeted to analyze large scale data, and also those which use such omics data as additional source of function prediction. In this book, we overview this emerging exciting field. The authors have been selected from 1) those who develop novel purely computational methods 2) those who develop function prediction methods which use omics data 3) those who maintain and update data base of function annotation of particular model organisms (E. coli), which are frequently referredFurther the pair wise protein functional similarity score is given by Eq. (14) where Gr is set of all proteins. ... [37] use probabilistic model to extract biologically relevant topics from GO annotation corpus and classify each word from MEDLINE document abstracts ... Once these annotations are included in the databases, they will be used as a source of function information in the annotation of new genomes.

Title:Protein Function Prediction for Omics Era
Author:Daisuke Kihara
Publisher:Springer Science & Business Media - 2011-04-19


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