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Current Bioinformatics

Author(s): Muhammad Tahir* and Adnan Idris

DOI: 10.2174/1574893614666190723120716

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MD-LBP: An Efficient Computational Model for Protein Subcellular Localization from HeLa Cell Lines Using SVM

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Abstract

Background: The knowledge of subcellular location of proteins is essential to the comprehension of numerous protein functions.

Objective: Accurate as well as computationally efficient and reliable automated analysis of protein localization imagery greatly depend on the calculation of features from these images.

Methods: In the current work, a novel method termed as MD-LBP is proposed for feature extraction from fluorescence microscopy protein images. For a given neighborhood, the value of central pixel is computed as the difference of global and local means of the input image that is further used as threshold to generate a binary pattern for that neighborhood.

Results: The performance of our method is assessed for 2D HeLa dataset using 5-fold crossvalidation protocol. The performance of MD-LBP method with RBF-SVM as base classifier, is superior to that of standard LBP algorithm, Threshold Adjacency Statistics, and Haralick texture features.

Conclusion: Development of specialized systems for different kinds of medical imagery will certainly pave the path for effective drug discovery in pharmaceutical industry. Furthermore, biological and bioinformatics based procedures can be simplified to facilitate pharmaceutical industry for drug designing.

Keywords: Protein images, subcellular localization, local binary patterns, support vector machine, classification, threshold.

Graphical Abstract

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