Cyclebase 3.0: a multi-organism database on cell-cycle regulation and phenotypes.

Area of Science:

• Molecular Biology
• Genomics
• Bioinformatics

Background:

• The eukaryotic cell division cycle is a complex, highly regulated process involving thousands of proteins.
• High-throughput technologies generate vast amounts of cell cycle data, but heterogeneity hinders analysis.
• Previous efforts to consolidate cell cycle data were limited in scope and accessibility.

Purpose of the Study:

• To create an accessible online database, Cyclebase, for visualizing and downloading cell cycle data.
• To integrate diverse genome-wide experimental results related to cell cycle regulation.
• To provide an updated and enhanced resource for researchers studying the cell cycle.

Main Methods:

• Development of an online database (Cyclebase) at http://www.cyclebase.org.
• Integration of data from microarray-based mRNA expression profiling, quantitative proteomics, and microscopy-based knockdown screens.
• Updating genome annotation and incorporating new mRNA and protein expression data.
• Adding cell cycle phenotype information from high-content screens and model-organism databases.
• Implementing a new web interface with gene-centric data visualization.

Main Results:

• Cyclebase version 3.0 provides a centralized resource for cell cycle data.
• The database integrates heterogeneous data from multiple high-throughput experiments.
• Users can easily visualize and download genome-wide cell cycle-related experimental results.
• The updated version includes new expression data and phenotype information.
• A new interface facilitates comprehensive data exploration for individual genes.

Conclusions:

• Cyclebase 3.0 addresses the challenge of accessing and analyzing diverse cell cycle data.
• The database serves as a valuable tool for researchers investigating cell cycle regulation and dysfunction.
• Enhanced data integration and visualization improve the utility of cell cycle research resources.