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Features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome
High-throughput omics technologies have enabled the profiling of entire biological systems. For the biological interpretation of such omics data, two analyses, hypothesis- and data-driven analyses including tensor decomposition, have been used. Both analyses have their own advantages and disadvantag...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9931158/ https://www.ncbi.nlm.nih.gov/pubmed/36791130 http://dx.doi.org/10.1371/journal.pone.0281594 |
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author | Fujita, Suguru Karasawa, Yasuaki Hironaka, Ken-ichi Taguchi, Y.-h. Kuroda, Shinya |
author_facet | Fujita, Suguru Karasawa, Yasuaki Hironaka, Ken-ichi Taguchi, Y.-h. Kuroda, Shinya |
author_sort | Fujita, Suguru |
collection | PubMed |
description | High-throughput omics technologies have enabled the profiling of entire biological systems. For the biological interpretation of such omics data, two analyses, hypothesis- and data-driven analyses including tensor decomposition, have been used. Both analyses have their own advantages and disadvantages and are mutually complementary; however, a direct comparison of these two analyses for omics data is poorly examined.We applied tensor decomposition (TD) to a dataset representing changes in the concentrations of 562 blood molecules at 14 time points in 20 healthy human subjects after ingestion of 75 g oral glucose. We characterized each molecule by individual dependence (constant or variable) and time dependence (later peak or early peak). Three of the four features extracted by TD were characterized by our previous hypothesis-driven study, indicating that TD can extract some of the same features obtained by hypothesis-driven analysis in a non-biased manner. In contrast to the years taken for our previous hypothesis-driven analysis, the data-driven analysis in this study took days, indicating that TD can extract biological features in a non-biased manner without the time-consuming process of hypothesis generation. |
format | Online Article Text |
id | pubmed-9931158 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-99311582023-02-16 Features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome Fujita, Suguru Karasawa, Yasuaki Hironaka, Ken-ichi Taguchi, Y.-h. Kuroda, Shinya PLoS One Research Article High-throughput omics technologies have enabled the profiling of entire biological systems. For the biological interpretation of such omics data, two analyses, hypothesis- and data-driven analyses including tensor decomposition, have been used. Both analyses have their own advantages and disadvantages and are mutually complementary; however, a direct comparison of these two analyses for omics data is poorly examined.We applied tensor decomposition (TD) to a dataset representing changes in the concentrations of 562 blood molecules at 14 time points in 20 healthy human subjects after ingestion of 75 g oral glucose. We characterized each molecule by individual dependence (constant or variable) and time dependence (later peak or early peak). Three of the four features extracted by TD were characterized by our previous hypothesis-driven study, indicating that TD can extract some of the same features obtained by hypothesis-driven analysis in a non-biased manner. In contrast to the years taken for our previous hypothesis-driven analysis, the data-driven analysis in this study took days, indicating that TD can extract biological features in a non-biased manner without the time-consuming process of hypothesis generation. Public Library of Science 2023-02-15 /pmc/articles/PMC9931158/ /pubmed/36791130 http://dx.doi.org/10.1371/journal.pone.0281594 Text en © 2023 Fujita et al https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Fujita, Suguru Karasawa, Yasuaki Hironaka, Ken-ichi Taguchi, Y.-h. Kuroda, Shinya Features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome |
title | Features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome |
title_full | Features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome |
title_fullStr | Features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome |
title_full_unstemmed | Features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome |
title_short | Features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome |
title_sort | features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9931158/ https://www.ncbi.nlm.nih.gov/pubmed/36791130 http://dx.doi.org/10.1371/journal.pone.0281594 |
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