RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning

RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning

The limited availability of high-resolution 3D RNA structures for model training limits RNA secondary structure prediction. Here, the authors overcome this challenge by pre-training a DNN on a large set of predicted RNA structures and using transfer learning with high-resolution structures.

Bibliographic Details
Main Authors: Jaswinder Singh, Jack Hanson, Kuldip Paliwal, Yaoqi Zhou
Format: Article
Language:English
Published: Nature Publishing Group 2019-11-01
Series:Nature Communications
Online Access:https://doi.org/10.1038/s41467-019-13395-9
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spelling doaj-90cc291b0b6b40a7a04fcac4f370cd902021-05-11T11:32:52ZengNature Publishing GroupNature Communications2041-17232019-11-0110111310.1038/s41467-019-13395-9RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learningJaswinder Singh0Jack Hanson1Kuldip Paliwal2Yaoqi Zhou3Signal Processing Laboratory, School of Engineering and Built Environment, Griffith UniversitySignal Processing Laboratory, School of Engineering and Built Environment, Griffith UniversitySignal Processing Laboratory, School of Engineering and Built Environment, Griffith UniversityInstitute for Glycomics and School of Information and Communication Technology, Griffith UniversityThe limited availability of high-resolution 3D RNA structures for model training limits RNA secondary structure prediction. Here, the authors overcome this challenge by pre-training a DNN on a large set of predicted RNA structures and using transfer learning with high-resolution structures.https://doi.org/10.1038/s41467-019-13395-9
collection DOAJ
language English
format Article
sources DOAJ
author Jaswinder Singh
Jack Hanson
Kuldip Paliwal
Yaoqi Zhou
spellingShingle Jaswinder Singh
Jack Hanson
Kuldip Paliwal
Yaoqi Zhou
RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning
Nature Communications
author_facet Jaswinder Singh
Jack Hanson
Kuldip Paliwal
Yaoqi Zhou
author_sort Jaswinder Singh
title RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning
title_short RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning
title_full RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning
title_fullStr RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning
title_full_unstemmed RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning
title_sort rna secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning
publisher Nature Publishing Group
series Nature Communications
issn 2041-1723
publishDate 2019-11-01
description The limited availability of high-resolution 3D RNA structures for model training limits RNA secondary structure prediction. Here, the authors overcome this challenge by pre-training a DNN on a large set of predicted RNA structures and using transfer learning with high-resolution structures.
url https://doi.org/10.1038/s41467-019-13395-9
work_keys_str_mv AT jaswindersingh rnasecondarystructurepredictionusinganensembleoftwodimensionaldeepneuralnetworksandtransferlearning
AT jackhanson rnasecondarystructurepredictionusinganensembleoftwodimensionaldeepneuralnetworksandtransferlearning
AT kuldippaliwal rnasecondarystructurepredictionusinganensembleoftwodimensionaldeepneuralnetworksandtransferlearning
AT yaoqizhou rnasecondarystructurepredictionusinganensembleoftwodimensionaldeepneuralnetworksandtransferlearning
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