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Related Experiment Video

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Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information

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FunMappOne: a tool to hierarchically organize and visually navigate functional gene annotations in multiple

Giovanni Scala^1,2,3, Angela Serra^1,2, Veer Singh Marwah^1,2

¹Faculty of Medicine and Life Sciences, University of Tampere, Arvo Ylpön katu 34 - Arvo building, Tampere, FI-33014, Finland.

BMC Bioinformatics

|February 16, 2019

Summary

This summary is machine-generated.

We developed FunMappOne, a user-friendly R-Shiny tool that summarizes and visualizes gene functional annotations from omics data. This interactive application facilitates the interpretation of complex results, especially when dealing with multiple experiments and high-dimensional data.

Keywords:

Functional annotation Gene Ontology KEGG Ontology visualization Pathway visualization R-Shiny Reactome

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Area of Science:

Bioinformatics
Computational Biology
Genomics

Background:

Functional gene annotation is crucial for omics data analysis, enabling understanding of regulatory dynamics and comparison of experimental conditions.
Existing tools struggle with high-dimensional data, necessitating interactive solutions for navigating and summarizing complex functional annotations.
Interpreting large sets of enriched functional terms across multiple experiments remains a challenge.

Purpose of the Study:

To develop an interactive and user-friendly tool for visualizing and summarizing gene functional annotations.
To address the challenges of interpreting high-dimensional omics data by leveraging hierarchical annotation structures.
To facilitate the comparison of functional profiles across multiple experiments.

Main Methods:

Developed an approach utilizing the hierarchical structure of functional annotations.
Created a user-friendly graphical interface implemented as an R-Shiny application.
Integrated gene lists, optional modification magnitudes, and enrichment analyses from Gene Ontology, KEGG, and Reactome databases.

Main Results:

The FunMappOne tool provides interactive maps of functional terms and pathways organized into logical groups.
It enables visualization of functional annotations for one or multiple experiments simultaneously.
The approach effectively summarizes enrichment analysis results to higher levels of interpretation.

Conclusions:

FunMappOne is an R-Shiny application designed for interactive exploration and summarization of gene functional annotations.
It supports human and mouse gene data, offering convenient comparison of multiple experiments and simplified results interpretation.
The tool aids in navigating complex functional data, making omics results more accessible.