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A novel multi-omics data analysis of dose-dependent and temporal changes in regulatory pathways due to chemical

Yufan Liu1, Guoping Lian1,2, Tao Chen1

  • 1School of Chemistry and Chemical Engineering, University of Surrey, Guildford, UK.

Toxicology Mechanisms and Methods
|October 5, 2023
PubMed

Insights

This study presents a new multi-omics data analysis to understand cellular responses to chemical exposure. It reveals dose-dependent and temporal patterns, aiding in chemical toxicity mechanism comprehension.

Area of Science:

  • Toxicology
  • Systems Biology
  • Bioinformatics

Background:

  • Chemical exposure can alter cellular regulatory pathways.
  • Understanding molecular-level biological processes is key to characterizing toxicity.
  • Multi-omics data analysis offers insights into dose-dependent and dynamic cellular responses.

Purpose of the Study:

  • To introduce a novel multi-omics data analysis method.
  • To concurrently examine dose-dependent and temporal patterns of cellular responses to chemical perturbations.
  • To provide a comprehensive perspective on dynamic cellular behaviors under chemical stimuli.

Main Methods:

  • The study employed a multi-omics data analysis approach.
  • This included preliminary exploration, pattern deconstruction, and network reconstruction.
  • The method was applied to HepG2 cells exposed to varying doses and durations of caffeine.

Main Results:

  • Six distinct cellular response patterns were identified.
  • Associated biomolecules and regulatory pathways for each pattern were determined.
  • The analysis captured multidimensional patterns of cellular response to chemical perturbation.

Conclusions:

  • The proposed multi-omics analysis effectively captures dynamic cellular responses to chemical exposure.
  • This approach enhances the understanding of pathway regulation in chemical risk assessment.
  • The method is adaptable to various omics layers, including phosphoproteomics.
Keywords:
caffeinedose-dependentmulti-omicspathway analysistemporal dynamicstoxicology mechanisms

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