scholarly journals DNA-binding protein prediction using plant specific support vector machines: validation and application of a new genome annotation tool

2015 ◽  
Vol 43 (22) ◽  
pp. e158-e158 ◽  
Author(s):  
Graham B. Motion ◽  
Andrew J. M. Howden ◽  
Edgar Huitema ◽  
Susan Jones
Keyword(s):  
Support Vector Machines ◽  
Dna Binding ◽  
Genome Annotation ◽  
Binding Protein ◽  
Dna Binding Protein ◽  
Support Vector ◽  
Annotation Tool ◽  
Protein Prediction ◽  
Vector Machines ◽  
Specific Support

scholarly journals HMMBinder: DNA-Binding Protein Prediction Using HMM Profile Based Features

2017 ◽  
Vol 2017 ◽  
pp. 1-10 ◽  
Author(s):  
Rianon Zaman ◽  
Shahana Yasmin Chowdhury ◽  
Mahmood A. Rashid ◽  
Alok Sharma ◽  
Abdollah Dehzangi ◽  
...  
Keyword(s):  
Dna Binding ◽  
Binding Protein ◽  
Prediction Method ◽  
Dna Binding Protein ◽  
Support Vector ◽  
Classification Technique ◽  
Protein Prediction ◽  
Wide Range ◽  
Vector Machines ◽  
Benchmark Datasets

DNA-binding proteins often play important role in various processes within the cell. Over the last decade, a wide range of classification algorithms and feature extraction techniques have been used to solve this problem. In this paper, we propose a novel DNA-binding protein prediction method called HMMBinder. HMMBinder uses monogram and bigram features extracted from the HMM profiles of the protein sequences. To the best of our knowledge, this is the first application of HMM profile based features for the DNA-binding protein prediction problem. We applied Support Vector Machines (SVM) as a classification technique in HMMBinder. Our method was tested on standard benchmark datasets. We experimentally show that our method outperforms the state-of-the-art methods found in the literature.

DPP-PseAAC: A DNA-binding protein prediction model using Chou’s general PseAAC

2018 ◽  
Vol 452 ◽  
pp. 22-34 ◽  
Author(s):  
M. Saifur Rahman ◽  
Swakkhar Shatabda ◽  
Sanjay Saha ◽  
M. Kaykobad ◽  
M. Sohel Rahman
Keyword(s):  
Dna Binding ◽  
Prediction Model ◽  
Binding Protein ◽  
Dna Binding Protein ◽  
Protein Prediction

Single-stranded and double-stranded DNA-binding protein prediction using HMM profiles

2021 ◽  
Vol 612 ◽  
pp. 113954
Author(s):  
Ronesh Sharma ◽  
Shiu Kumar ◽  
Tatsuhiko Tsunoda ◽  
Thirumananseri Kumarevel ◽  
Alok Sharma
Keyword(s):  
Dna Binding ◽  
Binding Protein ◽  
Dna Binding Protein ◽  
Double Stranded Dna ◽  
Protein Prediction
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