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DNNAce: prediction of prokaryote lysine acetylation sites through deep neural networks with multi-information fusion - 2020

Research Area:  Machine Learning

Abstract:

As a reversible and widely existing post-translational modification of proteins, acetylation plays a crucial role in transcriptional regulation, apoptosis, and cytokine signaling. To better understand the molecular mechanism of acetylation, identification of acetylation sites is vital. The traditional experimental methods are time-consuming and cost-prohibitive, and the majority of acetylation sites remain unknown. It is necessary to develpoe an effective and accurate computational approach to predict the acetylation sites, especially utilizing the advanced deep learning technique. In this study, we propose a prokaryote acetylation sites prediction method based on the deep neural networks, named DNNAce. We extract the protein features from sequence information, physicochemical information, and evolution information of amino acid residues and obtain the initial feature set All. Moreover, we use Group Lasso to remove the irrelevant features that are not effective for classification in the sites prediction area. Compared to other machine learning methods, we use deep neural networks to predict acetylation sites. The 10-fold cross-validation on independent test datasets indicates that DNNAce has the highest values of accuracy for predicting acetylation sites. That DNNAce accurately identifies acetylation sites assists us in understanding its molecular mechanism, and provides related theoretical foundation for the development of drug targets for various diseases.

Author(s) Name:  Bin Yu,Zhaomin Yu,Cheng Chen,Anjun Ma,Bingqiang Liu,Baoguang Tian,Qin Ma

Journal name:  Chemometrics and Intelligent Laboratory Systems

Conferrence name:  

Publisher name:  Elsevier

DOI:  10.1016/j.chemolab.2020.103999

Volume Information:   Volume 200, 15 May 2020, 103999