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Updated: Jun 23, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

CodonExplorer: an interactive online database for the analysis of codon usage and sequence composition.

Jesse Zaneveld¹, Micah Hamady, Noboru Sueoka

¹Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO, USA.

Methods in Molecular Biology (Clifton, N.J.)

|April 21, 2009

Summary

This summary is machine-generated.

CodonExplorer, a web tool, aids in understanding gene and genome evolution by analyzing DNA composition and codon usage. It simplifies identifying gene expression, horizontal transfer, and mutation impacts.

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An Integrated Approach for Microprotein Identification and Sequence Analysis

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Novel Sequence Discovery by Subtractive Genomics

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

Area of Science:

Genomics
Molecular Biology
Bioinformatics

Background:

Gene and genome evolution are influenced by DNA composition and codon usage patterns.
Understanding these evolutionary forces requires sophisticated analytical tools.

Purpose of the Study:

To introduce CodonExplorer, a web tool and database for analyzing gene and genome evolution.
To demonstrate how GC content and codon usage analyses can reveal evolutionary insights.

Main Methods:

Utilizing CodonExplorer, a database of millions of genes.
Performing analyses of GC content and codon usage frequency.
Applying these analyses to identify gene expression, horizontal gene transfer, and mutation impacts.

Main Results:

CodonExplorer facilitates straightforward identification of highly expressed genes.
The tool aids in detecting horizontally transferred genes.
Compositional analyses reveal the contribution of different mutation types to genome evolution.

Conclusions:

CodonExplorer is a powerful, user-friendly tool for diverse genomic compositional analyses.
It simplifies and automates complex evolutionary studies at gene and genome levels.