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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...

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Autores principales: Fujita, Suguru, Karasawa, Yasuaki, Hironaka, Ken-ichi, Taguchi, Y.-h., Kuroda, Shinya
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2023
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.
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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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