9. Gq Cardiomyopathy

10. Recovery from Cardiomyopathy

19. Conclusions 1 Looking at functional groups of genes is often MUCH more informative than single genes Free, software tools help make sense of DNA-microarray data and share information

20. GenMAPP for displaying any type of genomic data RNAi, plasmids, antibodies… Example: Gene trapping at BayGenomics

21. >7100 Cell Lines Frozen Down >2200 Different Genes Inactivated BayGenomics http://baygenomics.ucsf.edu

22. Distribution of BayGenomics ES Cells >550 ES cell lines to investigators throughout the world.

25. Is gene trapping a random event? No sign of saturation, but initial analysis suggests patterns

26. Is gene trapping a random event? No sign of saturation, but initial analysis suggests patterns No clear relationship with expression levels

27. Is gene trapping a random event? No Sign of saturation, but initial analysis suggests patterns No clear relationship with expression levels Potential relationship with specific functional groups of genes

28. Is there a functional relationship between the genes that are being trapped? Merge gene trap data with functional biological groups of genes from www.GeneOntology.org

33. Advantages of GenMAPP 1. Allows users to construct custom pathways 2. Allows users to analyze private data

34. Advantages of GenMAPP 1. Allows users to construct custom pathways 2. Allows users to analyze private data 3. GenMAPP is robust and easy to install

35. Advantages of GenMAPP 1. Allows users to construct custom pathways 2. Allows users to analyze private data 3. GenMAPP is robust and easy to install 4. Free to all users 5. Open source code

36. Advantages of GenMAPP 1. Allows users to construct custom pathways 2. Allows users to analyze private data 3. GenMAPP is robust and easy to install 4. Free to all users 5. Open source code Caveats, 1.GenMAPP is limited to data display (no modeling, not a pathway database, we need data exchange) 2. Windows-specific for now 2. Client-server version several months away

39. Nathan Salomonis Kam Dahlquist Karen Vranizan Scott Doniger Pathway-oriented analysis of DNA microarray data with GenMAPP Steve Lawlor