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PAI: Predicting adenosine to inosine editing sites by using pseudo nucleotide compositions

The adenosine to inosine (A-to-I) editing is the most prevalent kind of RNA editing and involves in many biological processes. Accurate identification of A-to-I editing site is invaluable for better understanding its biological functions. Due to the limitations of experimental methods, in the presen... Full description

Journal Title: Scientific Reports 2016, Vol.6
Main Author: Wei Chen
Other Authors: Pengmian Feng , Hui Ding , Hao Lin
Format: Electronic Article Electronic Article
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ID: ISSN: ; E-ISSN: 2045-2322 ; DOI: 10.1038/srep35123
Link: http://dx.doi.org/10.1038/srep35123
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recordid: nature_a10.1038/srep35123
title: PAI: Predicting adenosine to inosine editing sites by using pseudo nucleotide compositions
format: Article
creator:
  • Wei Chen
  • Pengmian Feng
  • Hui Ding
  • Hao Lin
subjects:
  • RNA Editing
  • Adenosine -- Metabolism
  • Drosophila Melanogaster -- Genetics
  • Inosine -- Metabolism
  • Molecular Biology -- Methods
  • Nucleotides -- Metabolism
ispartof: Scientific Reports, 2016, Vol.6
description: The adenosine to inosine (A-to-I) editing is the most prevalent kind of RNA editing and involves in many biological processes. Accurate identification of A-to-I editing site is invaluable for better understanding its biological functions. Due to the limitations of experimental methods, in the present study, a support vector machine based-model, called PAI, is proposed to identify A-to-I editing site in D. melanogaster. In this model, RNA sequences are encoded by "pseudo dinucleotide composition" into which six RNA physiochemical properties were incorporated. PAI achieves promising performances in jackknife test and independent dataset test, indicating that it holds very high potential to become a useful tool for identifying A-to-I editing site. For the convenience of experimental scientists, a web-server was constructed for PAI and it is freely accessible at http://lin.uestc.edu.cn/server/PAI.
language:
source:
identifier: ISSN: ; E-ISSN: 2045-2322 ; DOI: 10.1038/srep35123
fulltext: fulltext
issn:
  • 2045-2322
  • 20452322
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descriptionThe adenosine to inosine (A-to-I) editing is the most prevalent kind of RNA editing and involves in many biological processes. Accurate identification of A-to-I editing site is invaluable for better understanding its biological functions. Due to the limitations of experimental methods, in the present study, a support vector machine based-model, called PAI, is proposed to identify A-to-I editing site in D. melanogaster. In this model, RNA sequences are encoded by "pseudo dinucleotide composition" into which six RNA physiochemical properties were incorporated. PAI achieves promising performances in jackknife test and independent dataset test, indicating that it holds very high potential to become a useful tool for identifying A-to-I editing site. For the convenience of experimental scientists, a web-server was constructed for PAI and it is freely accessible at http://lin.uestc.edu.cn/server/PAI.
subjectRNA Editing ; Adenosine -- Metabolism ; Drosophila Melanogaster -- Genetics ; Inosine -- Metabolism ; Molecular Biology -- Methods ; Nucleotides -- Metabolism;
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