STRING - Predicting novel metabolic pathways through the integration of diverse genome-scale data
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12th International Conference on Intelligent Systems for Molecular Biology, BioPathways SIG, Scottish Exhibition & Conference Center, Glasgow, Scotland, July 29-August 4, 2004
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STRING - Predicting novel metabolic pathways through the integration of diverse genome-scale data
- 1. STRING Predicting novel metabolic pathways through the integration of diverse genome-scale data Lars Juhl Jensen EMBL Heidelberg
- 3. STRING provides a network of functional interactions between proteins Genomic neighborhood Species co-occurrence Gene fusions Database imports Exp. interaction data Microarray expression data Literature co-mentioning
- 4. Inferring functional modules from gene presence/absence patterns T rends in Microbiology Resting protuberances Protracted protuberance Cellulose © Trends Microbiol, 1999 Cell Cell wall Anchoring proteins Cellulosomes Cellulose The “Cellulosome”
- 6. Multiple evidence types from several species
- 7. Objective definition of metabolic pathways Image: Molecular Biology of the Cell, 3 . rd edition Metabolism overview Defined manually: cutting metabolic maps into pathways Purine biosynthesis Histidine biosynthesis Defined objectively: standard clustering of genome-scale data
- 8. Getting more specific – generally speaking
- 10. Thank you!