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Published on: June 21, 2012
The FunGenES database: a genomics resource for mouse embryonic stem cell differentiation
Herbert Schulz1, Raivo Kolde, Priit Adler
1Max-Delbrück-Center for Molecular Medicine Berlin-Buch, Berlin, Germany.
Plos One
|September 4, 2009
Summary
The FunGenES database offers a comprehensive resource for studying gene networks in mouse embryonic stem cells (ES cells). It provides interactive tools to explore gene expression profiles during differentiation, aiding stem cell research.
Area of Science:
- Stem cell biology
- Genomics
- Bioinformatics
Background:
- Embryonic stem (ES) cells possess high self-renewal and differentiation potential.
- Understanding gene networks in ES cells and their derivatives is crucial for developmental biology and regenerative medicine.
Purpose of the Study:
- To create an interactive database, FunGenES, for analyzing the transcriptome of mouse ES cells.
- To investigate gene expression profiles across diverse experimental conditions and during differentiation.
Main Methods:
- Analysis of mouse ES cell transcriptomes under sixty-seven experimental conditions.
- Clustering transcripts with similar expression patterns and grouping genes by differentiation time.
- Incorporation of expression profiles for specific gene classes, KEGG pathways, and functional annotations.
Main Results:
- Development of the FunGenES database with tools for visualizing gene expression dynamics.
- Identification of transcript clusters, expression waves, and temporal gene expression patterns during differentiation.
- Integration of animated pathway graphs and links to genomic resources.
Conclusions:
- The FunGenES database serves as a valuable, comprehensive resource for stem cell research.
- It facilitates in-depth studies of gene regulatory networks and expression dynamics in ES cells and their derivatives.
