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The Fundamentals of Constructing and Interpreting Heat Maps

  • Nathaniel M. Vacanti
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1862)

Abstract

This chapter is intended to introduce the fundamental principles of the heat map, the most widely used medium to present high-throughput data, to scientists unaccustomed to analyzing large data sets. Its scope includes describing the general features of heat maps, how their components are designed, the meaning of parameters such as “distance method” and “linkage method,” and the influence of manipulations such as row-scaling and logarithmic transformations on data interpretation and presentation. This chapter may serve as a guide to understanding the use of heat maps in published analyses or to aid in their design, allowing efficient interpretations of high-throughput experiments, exploration of hypotheses, or clear communications of findings.

Key words

Heat map Dendrogram Hierarchical clustering Linkage method Correlation 

References

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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  1. 1.Division of Nutritional SciencesCornell UniversityIthacaUSA
  2. 2.Department of Oncology-Pathology, Science for Life LaboratoryKarolinska InstitutetStockholmSweden

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