A Comprehensive Database and Analysis Framework to Incorporate Multiscale Data Types and Enable Integrated Analysis of Bioactive Polyphenols

Lap Ho, Haoxiang Cheng, Jun Wang, James E. Simon, Qingli Wu, Danyue Zhao, Eileen Carry, Mario G. Ferruzzi, Jeremiah Faith, Breanna Valcarcel, Ke Hao, Giulio M. Pasinetti

Research output: Journal article publicationJournal articleAcademic researchpeer-review

4 Citations (Scopus)


The development of a given botanical preparation for eventual clinical application requires extensive, detailed characterizations of the chemical composition, as well as the biological availability, biological activity, and safety profiles of the botanical. These issues are typically addressed using diverse experimental protocols and model systems. Based on this consideration, in this study we established a comprehensive database and analysis framework for the collection, collation, and integrative analysis of diverse, multiscale data sets. Using this framework, we conducted an integrative analysis of heterogeneous data from in vivo and in vitro investigation of a complex bioactive dietary polyphenol-rich preparation (BDPP) and built an integrated network linking data sets generated from this multitude of diverse experimental paradigms. We established a comprehensive database and analysis framework as well as a systematic and logical means to catalogue and collate the diverse array of information gathered, which is securely stored and added to in a standardized manner to enable fast query. We demonstrated the utility of the database in (1) a statistical ranking scheme to prioritize response to treatments and (2) in depth reconstruction of functionality studies. By examination of these data sets, the system allows analytical querying of heterogeneous data and the access of information related to interactions, mechanism of actions, functions, etc., which ultimately provide a global overview of complex biological responses. Collectively, we present an integrative analysis framework that leads to novel insights on the biological activities of a complex botanical such as BDPP that is based on data-driven characterizations of interactions between BDPP-derived phenolic metabolites and their mechanisms of action, as well as synergism and/or potential cancellation of biological functions. Out integrative analytical approach provides novel means for a systematic integrative analysis of heterogeneous data types in the development of complex botanicals such as polyphenols for eventual clinical and translational applications.

Original languageEnglish
Pages (from-to)840-850
Number of pages11
JournalMolecular Pharmaceutics
Issue number3
Publication statusPublished - 5 Mar 2018
Externally publishedYes


  • dietary botanicals and polyphenol metabolites
  • directional networks
  • integrated analysis
  • multiple scale data set

ASJC Scopus subject areas

  • Molecular Medicine
  • Pharmaceutical Science
  • Drug Discovery


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