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Updated: Sep 5, 2025

Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics

Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics

Published on: June 17, 2012

Gene Co-Expression Network Tools and Databases for Crop Improvement.

Rabiatul-Adawiah Zainal-Abidin¹, Sarahani Harun², Vinothienii Vengatharajuloo²

¹Biotechnology and Nanotechnology Research Centre, Malaysian Agricultural Research and Development Institute (MARDI), Serdang 43400, Selangor, Malaysia.

Plants (Basel, Switzerland)

|July 9, 2022

Summary

This review highlights recent gene co-expression network databases and tools for crops. These resources aid researchers in functional genomics and crop improvement by analyzing gene expression data.

Keywords:

bioinformatics tool crop database gene co-expression network transcriptomics

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Area of Science:

Functional genomics
Bioinformatics
Plant science

Background:

Transcriptomics data analysis is crucial for understanding biological systems.
Gene co-expression networks are essential downstream analyses of omics data.
Existing gene co-expression network databases are valuable but scattered.

Purpose of the Study:

To review recent gene co-expression network databases for crops.
To summarize tools for constructing gene co-expression networks.
To facilitate robust interpretation of biological information for crop improvement.

Main Methods:

Literature review of transcriptomics and gene co-expression network resources.
Analysis of features of existing crop gene co-expression databases.
Summary of widely used tools for gene co-expression network construction.

Main Results:

Identified and described recent gene co-expression network databases specific to crops.
Cataloged and evaluated tools for building gene co-expression networks.
Highlighted the complementary nature of scattered databases.

Conclusions:

Gene co-expression network databases and tools are vital for functional genomics in crops.
Centralized access and robust interpretation of these resources can accelerate crop improvement.
This review provides a guide for researchers utilizing these tools for agricultural advancement.