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STRING Modeling of biological systems through cross-species data integration

STRING Modeling of biological systems through cross-species data integration. Lars Juhl Jensen. promoter analysis. Jensen et al., Bioinformatics, 2000. genome visualization. Pedersen et al., Journal of Molecular Biology, 2000. protein function prediction. STRING. integrate diverse evidence.

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STRING Modeling of biological systems through cross-species data integration

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  1. STRINGModeling of biological systems throughcross-species data integration

  2. Lars Juhl Jensen

  3. promoter analysis

  4. Jensen et al., Bioinformatics, 2000

  5. genome visualization

  6. Pedersen et al., Journal of Molecular Biology, 2000

  7. protein function prediction

  8. STRING

  9. integrate diverse evidence

  10. functional interactions

  11. Bork et al., Current Opinion in Structural Biology, 2005

  12. 179 proteomes

  13. genomic context methods

  14. phylogenetic profiles

  15. Cell Cellulosomes Cellulose

  16. anti-correlated profiles

  17. analogous enzymes

  18. Morett et al., Nature Biotechnology, 2003

  19. gene neighborhood

  20. bidirectional promoters

  21. Korbel et al., Nature Biotechnology, 2004

  22. gene fusion

  23. evolution

  24. statistics

  25. (the original sin)

  26. scoring and benchmarking

  27. raw quality scores

  28. gene neighborhood

  29. sum of intergenic distances

  30. many types of evidence

  31. not directly comparable

  32. calibrate vs. gold standard

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