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Image-Based Human Protein Subcellular Location Prediction Using Local Tetra Patterns Descriptor

  • Fan YangEmail author
  • Yang Liu
  • Han Wei
Conference paper
Part of the Advances in Intelligent Systems and Computing book series (AISC, volume 905)

Abstract

Protein subcellular location has a huge positive influence on understanding protein function. In the past decades, many image-based automated approaches have been published for predicting protein subcellular location. However, in the reported literatures, there is a common deficiency for diverse prediction models in capturing local information of interest region of image. It motivates us to propose a novel approach by employing local feature descriptor named the Local Tetra Patterns (LTrP). In this paper, local features together with global features were fed to support vector machine to train chain classifiers, which can deal with multi-label datasets by using problem transformation pattern. To verify the validity of our approach, three different experiments were conducted based on the same benchmark dataset. The results show that the performance of the classification with LTrP descriptor not only captured more local information in interest region of images but also contributed to the improvement of prediction precision since the local descriptor is encoded along horizontal and vertical directions by LTrP. By applying the new approach, a more accurate classifier of protein subcellular location can be modeled, which is crucial to screen cancer biomarkers and research pathology mechanisms.

Keywords

Human protein Subcellular location prediction Local tetra patterns Multi-label learning 

Notes

Acknowledgements

This study was supported by the National Natural Science Foundation of China (61603161), and the Science Foundation of Artificial Intelligence and Bioinformatics Cognitive Research Base Fund of Jiangxi Science and Technology Normal University of China (2017ZDPYJD005) and the Key Science Foundation of Educational Commission of Jiangxi Province of China (GJJ160768).

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Copyright information

© Springer Nature Switzerland AG 2020

Authors and Affiliations

  1. 1.School of Communications and ElectronicsJiangxi Science and Technology Normal UniversityNanchangChina

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