metaSHARK: a WWW platform for interactive exploration of metabolic networks
Open Access
- 1 July 2006
- journal article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 34 (Web erver), W725-W728
- https://doi.org/10.1093/nar/gkl196
Abstract
The metaSHARK (metabolic search and reconstruction kit) web server offers users an intuitive, fully interactive way to explore the KEGG metabolic network via a WWW browser. Metabolic reconstruction information for specific organisms, produced by our automated SHARKhunt tool or from other programs or genome annotations, may be uploaded to the website and overlaid on the generic network. Additional data from gene expression experiments can also be incorporated, allowing the visualization of differential gene expression in the context of the predicted metabolic network. metaSHARK is available at http://bioinformatics.leeds.ac.uk/shark/.Keywords
This publication has 12 references indexed in Scilit:
- From genomics to chemical genomics: new developments in KEGGNucleic Acids Research, 2006
- PUMA2--grid-based high-throughput analysis of genomes and metabolic pathwaysNucleic Acids Research, 2006
- metaSHARK: software for automated metabolic network prediction from DNA sequence and its application to the genomes of Plasmodium falciparum and Eimeria tenellaNucleic Acids Research, 2005
- Expansion of the BioCyc collection of pathway/genome databases to 160 genomesNucleic Acids Research, 2005
- Reactome: a knowledgebase of biological pathwaysNucleic Acids Research, 2004
- The aMAZE LightBench: a web interface to a relational database of cellular processesNucleic Acids Research, 2004
- Enzyme-specific profiles for genome annotation: PRIAMNucleic Acids Research, 2003
- The systems biology markup language (SBML): a medium for representation and exchange of biochemical network modelsBioinformatics, 2003
- PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational dataNucleic Acids Research, 2003
- Genome sequence of the human malaria parasite Plasmodium falciparumNature, 2002