Cited by 258Bioinformatics and Genomic NetworksMicrobial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Trans-Omics: How To Reconstruct Biochemical Networks Across Multiple ‘Omic’ Layers

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Yugi, Katsuyuki, Kubota, Hiroyuki, Hatano, Atsushi, Kuroda, Shinya·2016·Trends in Biotechnology

Abstract

We propose 'trans-omic' analysis for reconstructing global biochemical networks across multiple omic layers by use of both multi-omic measurements and computational data integration. We introduce technologies for connecting multi-omic data based on prior knowledge of biochemical interactions and characterize a biochemical trans-omic network by concepts of a static and dynamic nature. We introduce case studies of metabolism-centric trans-omic studies to show how to reconstruct a biochemical trans-omic network by connecting multi-omic data and how to analyze it in terms of the static and dynamic nature. We propose a trans-ome-wide association study (trans-OWAS) connecting phenotypes with trans-omic networks that reflect both genetic and environmental factors, which can characterize several complex lifestyle diseases as breakdowns in the trans-omic system.

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Crossref · 10.1016/j.tibtech.2015.12.013

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Authors
Yugi, K., Kubota, H., Hatano, A., & Kuroda, S.
Affiliations
  • Japan Science and Technology Agency (JP)
  • Kyushu University (JP)
  • The University of Tokyo (JP)
Corresponding author
  • Yugi, Katsuyuki
  • Kuroda, Shinya
Venue
Trends in Biotechnology
Publisher
Elsevier BV
Published
2016-04
Volume
34
Issue
4
Pages
276-290
ISSN
0167-7799 (ISSN-L)
OpenAlex
W2274879598
Cited by
258
References
140
Citations by year
2026: 7 · 2025: 13 · 2024: 19 · 2023: 18 · 2022: 29 · 2021: 23 · 2020: 43 · 2019: 38 · 2018: 32 · 2017: 25 · 2016: 11
FWCI
3.19
Type
journal article
Language
en
Open access
Locations
  • Trends in biotechnology (acceptedVersion)
  • PubMed (publishedVersion)
Funders
Japan Society for the Promotion of Science (15H05582)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Microbial Metabolic Engineering and Bioproduction
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
Keywords
trans-omics, multi-omics integration, metabolic networks, biochemical interactions, lifestyle-related diseases, genetic and environmental factors
MeSH terms
Computational Biology, Gene Regulatory Networks, Metabolic Networks and Pathways, Protein Interaction Maps

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