mail inquiry Inquiry


Online Inquiry

Introduction of Heatmap

Heatmap. Heatmap is a graph that displays a matrix of data with color changes. It is often used in statistics of different fields. Toussaint Loua used heatmap in 1873 to draw sociological statistics of the districts of Paris. In biology, heatmaps are often used to display the expression levels of multiple genes in different samples, and the unique patterns between different groups such as disease groups and control groups can be viewed through clustering and other methods. Heatmap can also be used to display the abundance of other substances, such as the relative abundance of microorganisms, the content of different substances in the metabolite and so on. In addition, another important use of heatmap is to show the correlation between different indicators and different samples.

Many software can be used to make heatmaps. In the process of biological information analysis, the commonly used method is the heatmap function package in R, and the commonly used function packages include ggplot2, gplots, pheatmap, etc.

Heatmap of beta cell markers genes in beta cells from Fluidigm 800HT platforms. Fig 1. Heatmap of beta cell markers genes in beta cells from Fluidigm 800HT platforms. (Wang Y J , Kaestner K H . 2019)

Application Field

The following are some application scenarios of the heatmap:

In RNA-seq data analysis, heatmaps can visually present the global expression changes of multiple samples and multiple genes, as well as the clustering relationship of multiple samples or multiple gene expression.

Visualize the relative abundance of microorganisms.

Visualize the content of different substances.

Show the correlation between different indicators and different samples.

Heatmap is a common visualization result map in biological data analysis. The readability of the data is greatly increased when visualizing with a heatmap. If you would like to show your results accurately using heatmap, please contact CD Genomics' professional biological information analysis team at any time. We look forward to working with you.


  1. Wang Y J , Kaestner K H . Single-Cell RNA-Seq of the Pancreatic Islets––a Promise Not yet Fulfilled?[J]. Cell Metabolism, 2019, 29(3):539-544.
* For Research Use Only. Not for use in diagnostic procedures.
Refresh to display the verification code
Online Inquiry
Join our upcoming FREE webinar

Tuesday, May 30, 2023
Jorge Bouças, PhD

Jorge Boucas, PhD

Flaski – A Bioinformatics Tool for Data Analysis and Visualization

Register Now
No Thanks