LimeMap: a comprehensive map of lipid mediator metabolic pathways

Abstract Lipid mediators are major factors in multiple biological functions and are strongly associated with disease. Recent lipidomics approaches have made it possible to analyze multiple metabolites and the associations of individual lipid mediators. Such systematic approaches have enabled us to i...

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Autores principales:	Akinori Nishi, Katsuya Ohbuchi, Noriko Kaifuchi, Chika Shimobori, Hirotaka Kushida, Masahiro Yamamoto, Yoshihiro Kita, Suzumi M. Tokuoka, Ayako Yachie, Yukiko Matsuoka, Hiroaki Kitano
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/7cb87851d61d409fb44ed690a98dcc1d
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spelling	oai:doaj.org-article:7cb87851d61d409fb44ed690a98dcc1d2021-12-02T13:57:39ZLimeMap: a comprehensive map of lipid mediator metabolic pathways10.1038/s41540-020-00163-52056-7189https://doaj.org/article/7cb87851d61d409fb44ed690a98dcc1d2021-01-01T00:00:00Zhttps://doi.org/10.1038/s41540-020-00163-5https://doaj.org/toc/2056-7189Abstract Lipid mediators are major factors in multiple biological functions and are strongly associated with disease. Recent lipidomics approaches have made it possible to analyze multiple metabolites and the associations of individual lipid mediators. Such systematic approaches have enabled us to identify key changes of biological relevance. Against this background, a knowledge-based pathway map of lipid mediators would be useful to visualize and understand the overall interactions of these factors. Here, we have built a precise map of lipid mediator metabolic pathways (LimeMap) to visualize the comprehensive profiles of lipid mediators that change dynamically in various disorders. We constructed the map by focusing on ω-3 and ω-6 fatty acid metabolites and their respective metabolic pathways, with manual curation of referenced information from public databases and relevant studies. Ultimately, LimeMap comprises 282 factors (222 mediators, and 60 enzymes, receptors, and ion channels) and 279 reactions derived from 102 related studies. Users will be able to modify the map and visualize measured data specific to their purposes using CellDesigner and VANTED software. We expect that LimeMap will contribute to elucidating the comprehensive functional relationships and pathways of lipid mediators.Akinori NishiKatsuya OhbuchiNoriko KaifuchiChika ShimoboriHirotaka KushidaMasahiro YamamotoYoshihiro KitaSuzumi M. TokuokaAyako YachieYukiko MatsuokaHiroaki KitanoNature PortfolioarticleBiology (General)QH301-705.5ENnpj Systems Biology and Applications, Vol 7, Iss 1, Pp 1-6 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Biology (General) QH301-705.5
spellingShingle	Biology (General) QH301-705.5 Akinori Nishi Katsuya Ohbuchi Noriko Kaifuchi Chika Shimobori Hirotaka Kushida Masahiro Yamamoto Yoshihiro Kita Suzumi M. Tokuoka Ayako Yachie Yukiko Matsuoka Hiroaki Kitano LimeMap: a comprehensive map of lipid mediator metabolic pathways
description	Abstract Lipid mediators are major factors in multiple biological functions and are strongly associated with disease. Recent lipidomics approaches have made it possible to analyze multiple metabolites and the associations of individual lipid mediators. Such systematic approaches have enabled us to identify key changes of biological relevance. Against this background, a knowledge-based pathway map of lipid mediators would be useful to visualize and understand the overall interactions of these factors. Here, we have built a precise map of lipid mediator metabolic pathways (LimeMap) to visualize the comprehensive profiles of lipid mediators that change dynamically in various disorders. We constructed the map by focusing on ω-3 and ω-6 fatty acid metabolites and their respective metabolic pathways, with manual curation of referenced information from public databases and relevant studies. Ultimately, LimeMap comprises 282 factors (222 mediators, and 60 enzymes, receptors, and ion channels) and 279 reactions derived from 102 related studies. Users will be able to modify the map and visualize measured data specific to their purposes using CellDesigner and VANTED software. We expect that LimeMap will contribute to elucidating the comprehensive functional relationships and pathways of lipid mediators.
format	article
author	Akinori Nishi Katsuya Ohbuchi Noriko Kaifuchi Chika Shimobori Hirotaka Kushida Masahiro Yamamoto Yoshihiro Kita Suzumi M. Tokuoka Ayako Yachie Yukiko Matsuoka Hiroaki Kitano
author_facet	Akinori Nishi Katsuya Ohbuchi Noriko Kaifuchi Chika Shimobori Hirotaka Kushida Masahiro Yamamoto Yoshihiro Kita Suzumi M. Tokuoka Ayako Yachie Yukiko Matsuoka Hiroaki Kitano
author_sort	Akinori Nishi
title	LimeMap: a comprehensive map of lipid mediator metabolic pathways
title_short	LimeMap: a comprehensive map of lipid mediator metabolic pathways
title_full	LimeMap: a comprehensive map of lipid mediator metabolic pathways
title_fullStr	LimeMap: a comprehensive map of lipid mediator metabolic pathways
title_full_unstemmed	LimeMap: a comprehensive map of lipid mediator metabolic pathways
title_sort	limemap: a comprehensive map of lipid mediator metabolic pathways
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/7cb87851d61d409fb44ed690a98dcc1d
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LimeMap: a comprehensive map of lipid mediator metabolic pathways

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