‘Omics’ - Analysis of high dimensional Data

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Presentation transcript:

‘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

Gene Ontology Example 559

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

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

Topics

GO scoring: general problem

GO Independence Assumption GO sets light yellow

GO Independence Assumption light yellow

The elim method

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

The weight method

The weight method

The weight method (x) (x)}

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

Algorithms Summary

Topics

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

Advantages & Disadvantages for ALL

Prostate cancer progression

Prostate cancer progression

Prostate cancer progression

Influence of the p-values adjustment

Simulation Study Introduce noise

Simulation Study

Simulation Study

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

Summary

Adrian Alexa MPI Saarbrücken Acknowledgements Adrian Alexa MPI Saarbrücken