Welcome to the Highly Expressed Genes Database (HEG-DB). The HEG-DB is a genomic database that includes the prediction of which genes are highly expressed in prokaryotic complete genomes under strong translational selection. The current version of the database contains general features for almost 200 genomes under translational selection, including the correspondence analysis of the relative synonymous codon usage for all genes, and the analysis of their highly expressed genes. For each genome, the database contains functional and positional information about the predicted group of highly expressed genes. This information can also be accessed using a search engine. Among other statistical parameters, the database also provides the Codon Adaptation Index for all of the genes using the codon usage of the highly expressed genes as a reference set. The "Pathway Tools Omics Viewer" from the BioCyc database enables the metabolic capabilities of each genome to be explored, particularly those related to the group of highly expressed genes.
How to cite:
- Puigb˛ P., Romeu A. and Garcia-VallvÚ S. 2008. HEG-DB: a datase of predict highly expressed genes in prokaryotic complete genomes under translational selection. Nucleic Acids Research, 36:D524-7.
- Puigb˛ P., Guzmßn E.Romeu A. and Garcia-VallvÚ S. 2007 OPTIMIZER: A web server for optimizing the codon usage of DNA sequences. Nucleic Acids Research., 35:W126-W131.
(See more information and list of abbreviations)
Select one or more of these genomes and click the "Genomes Consult" button to see the statistical parameters (including CA plot and translational selection prediction) of the selected genomes.
Select one of these genomes and click the "Gene Consult" button to see some parameters of all genes from the selected genome.
Select one of these genomes and click the "HEG Consult" button to see the list of predicted Highly Expressed Genes from genomes under a strong translational selection.
Select one of these genomes and click the button to view its genes according to their Standardized CAI value (max:2 to min:-2) on a metabolic map. Genomes not available in BioCyc server are not included. Click here to see an example.
Select one of these genomes and click the button to locate the predicted HEG on a metabolic map. Genomes not available in BioCyc server are not included. Click here to see an example.
This application has been financied by the following project:
"Plan Nacional de I+D+I (2003), Ministerio de Ciencia y TecnologÝ (Ref. BIO2003-07672).