ProtExt: a Web-based Protein-protein Interaction Extraction System for PubMed Abstracts
Date Issued
2004
Date
2004
Author(s)
Peng, Chin-Lin
DOI
en-US
Abstract
Functional proteomics is aimed at understanding the protein-protein and gene-protein interactions. The function of a protein can be characterized more precisely through knowledge of protein-protein interactions. Moreover, networks of interacting proteins provide a first level of understanding the cellular mechanism. The cellular functions of uncharacterized proteins are revealed through their linkages to characterized proteins. The networks of linkages offer a new view of the meaning of protein function, and a deepened understanding of the functioning of cells. ProtExt is a web-based software package which automatically extracts information of protein-protein interactions from the literature abstracts available at the NCBI Entrez-PubMed system and provides a visualization tool for constructing protein-protein interaction network. The engine of ProtExt is based on a Naïve Bayes learning method to efficiently process sentences from abstracts and generate possible protein-protein interactions. In the further, more accurate link grammar based extraction system is proposed. Users can specify their interested proteins and a network of the predicted interacting proteins will be generated and visualized on the web page. This system will provide a valuable resource for discovery of protein-protein interactions and further study of the related proteins from PubMed abstracts.
Subjects
交互作用
蛋白質
擷取系統
extraction system
abstract
protein
interaction
Type
thesis
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