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Application of support vector machines in viral biology

TLDR
This chapter provides lucid and easy to understand details of SVM algorithms along with applications in virology, one such robust tool based rigorously on statistical learning theory.
Abstract
Novel experimental and sequencing techniques have led to an exponential explosion and spiraling of data in viral genomics. To analyse such data, rapidly gain information, and transform this information to knowledge, interdisciplinary approaches involving several different types of expertise are necessary. Machine learning has been in the forefront of providing models with increasing accuracy due to development of newer paradigms with strong fundamental bases. Support Vector Machines (SVM) is one such robust tool, based rigorously on statistical learning theory. SVM provides very high quality and robust solutions to classification and regression problems. Several studies in virology employ high performance tools including SVM for identification of potentially important gene and protein functions. This is mainly due to the highly beneficial aspects of SVM. In this chapter we briefly provide lucid and easy to understand details of SVM algorithms along with applications in virology.

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Early prediction of developing spontaneous activity in cultured neuronal networks.

TL;DR: In this paper, the authors used machine learning techniques to characterize and predict the developing spontaneous activity in mouse cortical neurons on microelectrode arrays (MEAs) during the first three weeks in vitro.
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Detection of A and B Influenza Viruses by Surface-Enhanced Raman Scattering Spectroscopy and Machine Learning

TL;DR: In this article , the authors demonstrate the possibility of applying surface-enhanced Raman spectroscopy (SERS) combined with machine learning technology to detect and differentiate influenza type A and B viruses in a buffer environment.
Posted ContentDOI

A machine learning based analysis to probe the relationship between odorant structure and olfactory behaviour in C. elegans

TL;DR: In this paper, the authors use olfactory behaviour data from the nematode C. elegans, which has isogenic populations in a laboratory setting, and employ machine learning approaches for a binary classification task predicting whether or not the worm will be attracted to a given monomolecular odorant.
References
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Journal ArticleDOI

Viral metagenome analysis to guide human pathogen monitoring in environmental samples

TL;DR: The aim of this study was to develop and demonstrate an approach for describing the diversity of human pathogenic viruses in an environmentally isolated viral metagenome.
Journal ArticleDOI

Prediction of protein-protein interactions between viruses and human by an SVM model

TL;DR: A new method for representing a protein sequence of variable length in a frequency vector of fixed length, which encodes the relative frequency of three consecutive amino acids of a sequence, and predicted new interactions between virus proteins and human proteins.
Journal ArticleDOI

SVM-based prediction of linear B-cell epitopes using Bayes Feature Extraction

TL;DR: A support vector machines (SVM) prediction model utilizing Bayes Feature Extraction was developed and showed that it was effective in discriminating epitopes from non-epitopes in benchmark datasets and annotated antigenic proteins.
Journal ArticleDOI

DeNovo: virus-host sequence-based protein-protein interaction prediction.

TL;DR: DeNovo is a sequence-based negative sampling and machine learning framework that learns from PPIs of different viruses to predict for a novel one, exploiting the shared host proteins, and achieves near optimal accuracy when tested on bacteria-human interactions.
Journal ArticleDOI

SVMHC: a server for prediction of MHC-binding peptides.

TL;DR: The SVMHC server for prediction of both MHC class I and class II binding peptides is presented and offers fast analysis of a wide range of alleles and prediction results are given in several comprehensive formats.
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Trending Questions (1)
What are the potential applications of machine learning in virology?

Machine learning, specifically Support Vector Machines (SVM), is used in virology for tasks such as epitope prediction, virus-host interaction detection, and influenza host prediction.