28. Bioinformatics for High-Throughput Toxico-Epigenomics Studies

  1. Saura C. Sahu
  1. Maureen A. Sartor1,2,
  2. Dana C. Dolinoy3,
  3. Laura S. Rozek3,4 and
  4. Gilbert S. Omenn1,5

Published Online: 8 AUG 2012

DOI: 10.1002/9781118349045.ch28

Toxicology and Epigenetics

Toxicology and Epigenetics

How to Cite

Sartor, M. A., Dolinoy, D. C., Rozek, L. S. and Omenn, G. S. (2012) Bioinformatics for High-Throughput Toxico-Epigenomics Studies, in Toxicology and Epigenetics (ed S. C. Sahu), John Wiley & Sons, Ltd, Chichester, UK. doi: 10.1002/9781118349045.ch28

Editor Information

  1. Division of Toxicology, Center for Food Safety and Applied Nutrition, Food and Drug Administration, Laurel, Maryland, USA

Author Information

  1. 1

    Department of Computational Medicine and Bioinformatics, Medical School, University of Michigan, Ann Arbor, MI, USA

  2. 2

    Department of Biostatistics, School of Public Health, University of Michigan, Ann Arbor, MI, USA

  3. 3

    Department of Environmental Health Sciences, School of Public Health, University of Michigan, Ann Arbor, MI, USA

  4. 4

    Department of Otolaryngology, Medical School, University of Michigan, Ann Arbor, MI, USA

  5. 5

    Department of Internal Medicine, Human Genetics and School of Public Health, Medical School, University of Michigan, Ann Arbor, MI, USA

Publication History

  1. Published Online: 8 AUG 2012
  2. Published Print: 7 SEP 2012

ISBN Information

Print ISBN: 9781119976097

Online ISBN: 9781118349045

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Keywords:

  • bioinformatics for high-throughput toxico-epigenomics;
  • bioinformatics, algorithms, biological into knowledge of biological systems;
  • advances in array-based/deep sequencing, novel types of integrative analyses;
  • imprinted gene expression, species/tissue/developmental stage dependent;
  • CHARM, in array design/statistical analysis, higher specificity/sensitivity;
  • deep sequencing to epigenomic, resolution not reached with array hybridization;
  • epigenomics, evidence of endogenous/exogenous environmental influences;
  • bioinformatics, epigenomic with other ‘omic’ data, and of multi-layered data

Summary

This chapter contains sections titled:

  • Introduction

  • Evaluating environmental influences on the epigenome

  • Establishment of the field of environmental epigenomics

  • An evolutionary perspective: the case of genomic imprinting

  • Transitioning from epigenetics to epigenomics and related bioinformatics

  • Observational studies in epigenomics

  • Integrative analyses with epigenomics data

  • Gene set enrichment and concept tools for pathway analyses

  • Databases and resources

  • Illustrative applications from environmental exposures/perturbations

  • University of Michigan NIEHS center approach to Lifestage Exposures and Adult Disease (LEAD)

  • Future directions

  • Acknowledgments

  • References