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PlantTFDB: a comprehensive plant transcription factor database.
An-Yuan Guo1, Xin Chen, Ge Gao
1College of Life Sciences, National Laboratory of Protein Engineering and Plant Genetic Engineering, Center for Bioinformatics, Peking University, Beijing 100871, China.
Nucleic Acids Research
|October 16, 2007
Summary
PlantTFDB is a new database identifying 26,402 transcription factors (TFs) across 22 plant species. This resource aids research into TF function and evolution.
Area of Science:
- Plant biology
- Genomics
- Bioinformatics
Background:
- Transcription factors (TFs) are crucial regulators of gene expression.
- Systematic identification and annotation of TFs are essential for understanding their roles.
- Databases of TFs can serve as valuable resources for evolutionary and functional studies.
Purpose of the Study:
- To develop a comprehensive plant transcription factor database, PlantTFDB.
- To provide extensive annotations for identified TFs at both family and gene levels.
- To facilitate research on the function and evolution of plant transcription factors.
Main Methods:
- Predicted 26,402 TFs from 22 plant species (5 whole genomes, 17 ESTs).
- Performed comprehensive annotation including family introductions, references, functional domains, and cross-references.
- Predicted orthologs for TFs across the 22 species.
- Developed a user-friendly interface for searching, similarity searching, and data download.
Main Results:
- PlantTFDB v1.0 contains 26,402 transcription factors from 22 plant species.
- Detailed annotations are provided for TF families and individual genes.
- Orthologous TFs were identified across the studied species.
- The database offers versatile search and data retrieval functionalities.
Conclusions:
- PlantTFDB provides a valuable and comprehensive resource for plant TF research.
- The database supports studies on TF function, evolution, and comparative genomics.
- PlantTFDB enhances accessibility to plant TF information for the scientific community.
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