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Achim Tresch Computational Biology

‘Omics’ - Analysis of high dimensional Data. Achim Tresch Computational Biology. Topics. Hypergeometric test [Khatri and Draghici 2005] Kolmogorov-Smirnov test [Subramanian et al. 2005]. Gene Set Enrichment. Fisher‘s exact test, once more. Fisher‘s exact test, once more.

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Achim Tresch Computational Biology

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  1. ‘Omics’ - Analysis of high dimensional Data Achim TreschComputational Biology

  2. Topics • Hypergeometric test [Khatri and Draghici 2005] • Kolmogorov-Smirnov test [Subramanian et al. 2005]

  3. Gene Set Enrichment

  4. Fisher‘s exact test, once more

  5. Fisher‘s exact test, once more

  6. Gene Ontology Example 559

  7. Gene Ontology Example (immune response) (macromolecule biosynthesis)

  8. Kolmogorov-Smirnov Test < 10-10 • Move 1/K up when you see a gene from group a • Move 1/(N-K) down when you see a gene not in group a

  9. Topics

  10. GO scoring: general problem

  11. GO Independence Assumption GO sets light yellow

  12. GO Independence Assumption light yellow

  13. The elim method

  14. The elim method Top 10 significant nodes (boxes) obtained with the elim method

  15. The weight method

  16. The weight method

  17. The weight method (x) (x)}

  18. The weight method Top 10 significant nodes (boxes) obtained with the elim method

  19. Algorithms Summary

  20. Topics

  21. Top scoring GO term Significant GO terms in the ALL dataset

  22. Advantages & Disadvantages for ALL

  23. Prostate cancer progression

  24. Prostate cancer progression

  25. Prostate cancer progression

  26. Influence of the p-values adjustment

  27. Simulation Study Introduce noise

  28. Simulation Study

  29. Simulation Study

  30. Quality of GO scoring methods 10% noise level 40% noise level

  31. Summary

  32. Acknowledgements Adrian AlexaMPI Saarbrücken

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