Cargando…

DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture

It is critical, but difficult, to catch the small variation in genomic or other kinds of data that differentiates phenotypes or categories. A plethora of data is available, but the information from its genes or elements is spread over arbitrarily, making it challenging to extract relevant details fo...

Descripción completa

Detalles Bibliográficos
Autores principales: Sharma, Alok, Vans, Edwin, Shigemizu, Daichi, Boroevich, Keith A., Tsunoda, Tatsuhiko
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6684600/
https://www.ncbi.nlm.nih.gov/pubmed/31388036
http://dx.doi.org/10.1038/s41598-019-47765-6
_version_ 1783442277720391680
author Sharma, Alok
Vans, Edwin
Shigemizu, Daichi
Boroevich, Keith A.
Tsunoda, Tatsuhiko
author_facet Sharma, Alok
Vans, Edwin
Shigemizu, Daichi
Boroevich, Keith A.
Tsunoda, Tatsuhiko
author_sort Sharma, Alok
collection PubMed
description It is critical, but difficult, to catch the small variation in genomic or other kinds of data that differentiates phenotypes or categories. A plethora of data is available, but the information from its genes or elements is spread over arbitrarily, making it challenging to extract relevant details for identification. However, an arrangement of similar genes into clusters makes these differences more accessible and allows for robust identification of hidden mechanisms (e.g. pathways) than dealing with elements individually. Here we propose, DeepInsight, which converts non-image samples into a well-organized image-form. Thereby, the power of convolution neural network (CNN), including GPU utilization, can be realized for non-image samples. Furthermore, DeepInsight enables feature extraction through the application of CNN for non-image samples to seize imperative information and shown promising results. To our knowledge, this is the first work to apply CNN simultaneously on different kinds of non-image datasets: RNA-seq, vowels, text, and artificial.
format Online
Article
Text
id pubmed-6684600
institution National Center for Biotechnology Information
language English
publishDate 2019
publisher Nature Publishing Group UK
record_format MEDLINE/PubMed
spelling pubmed-66846002019-08-11 DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture Sharma, Alok Vans, Edwin Shigemizu, Daichi Boroevich, Keith A. Tsunoda, Tatsuhiko Sci Rep Article It is critical, but difficult, to catch the small variation in genomic or other kinds of data that differentiates phenotypes or categories. A plethora of data is available, but the information from its genes or elements is spread over arbitrarily, making it challenging to extract relevant details for identification. However, an arrangement of similar genes into clusters makes these differences more accessible and allows for robust identification of hidden mechanisms (e.g. pathways) than dealing with elements individually. Here we propose, DeepInsight, which converts non-image samples into a well-organized image-form. Thereby, the power of convolution neural network (CNN), including GPU utilization, can be realized for non-image samples. Furthermore, DeepInsight enables feature extraction through the application of CNN for non-image samples to seize imperative information and shown promising results. To our knowledge, this is the first work to apply CNN simultaneously on different kinds of non-image datasets: RNA-seq, vowels, text, and artificial. Nature Publishing Group UK 2019-08-06 /pmc/articles/PMC6684600/ /pubmed/31388036 http://dx.doi.org/10.1038/s41598-019-47765-6 Text en © The Author(s) 2019 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Sharma, Alok
Vans, Edwin
Shigemizu, Daichi
Boroevich, Keith A.
Tsunoda, Tatsuhiko
DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture
title DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture
title_full DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture
title_fullStr DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture
title_full_unstemmed DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture
title_short DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture
title_sort deepinsight: a methodology to transform a non-image data to an image for convolution neural network architecture
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6684600/
https://www.ncbi.nlm.nih.gov/pubmed/31388036
http://dx.doi.org/10.1038/s41598-019-47765-6
work_keys_str_mv AT sharmaalok deepinsightamethodologytotransformanonimagedatatoanimageforconvolutionneuralnetworkarchitecture
AT vansedwin deepinsightamethodologytotransformanonimagedatatoanimageforconvolutionneuralnetworkarchitecture
AT shigemizudaichi deepinsightamethodologytotransformanonimagedatatoanimageforconvolutionneuralnetworkarchitecture
AT boroevichkeitha deepinsightamethodologytotransformanonimagedatatoanimageforconvolutionneuralnetworkarchitecture
AT tsunodatatsuhiko deepinsightamethodologytotransformanonimagedatatoanimageforconvolutionneuralnetworkarchitecture