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Function Express

Function Express. November 30, 2007. Compute Nodes. Function Express: Architecture. MGA. MAC. LocalDB (MySQL). Chip Data Virtual Experiment Data. Integrated DB (Oracle 9i). Individual. Chip Data Gene Annotations Analysis. LocalDB (MySQL). Bioinformatics Core. Laboratory.

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Function Express

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  1. Function Express November 30, 2007

  2. Compute Nodes Function Express: Architecture MGA MAC LocalDB (MySQL) Chip Data Virtual Experiment Data Integrated DB (Oracle 9i) Individual Chip Data Gene Annotations Analysis LocalDB (MySQL) Bioinformatics Core Laboratory

  3. Function Express: Log in & Auto Update

  4. Function Express: Experiment Menu

  5. Creating and Opening Virtual Experiments

  6. Function Express: Overview

  7. Importing Data and Security Features

  8. Security Movie

  9. Manipulating Categories

  10. Function Express: Viewers

  11. Plotting Microarray Data

  12. Function Express: Viewers Clinical Data Category History Probeset Data Probeset Comments Category Comments

  13. BioCarta Pathway browser

  14. Gene Inspector

  15. Browsing Gene Annotations

  16. Manipulating and Importing Analysis Results Movies

  17. Function Express: Analyzing Data

  18. SAM PCA Weighted Voting

  19. Function Express: Analyzing Data • SVM • Consensus Clustering • Comparative Marker Selection

  20. Function Express: What to do after analysis? • Are co-expressed genes co-regulated? • What regulatory networks are operating/perturbed in your experimental paradigm? • What pathways/processes emerge from a set of ‘interesting’ genes? • Promoter Analysis Pipeline • Gene Network Viewer • IPA

  21. Promoter Analysis Pipeline

  22. Gene Network Viewer

  23. Promoter Pipeline Gary Stormo On-site Personnel Li-Wei Chang Hrishikesh Deshmukh Burr Fontaine Caerie Houchins George Joseph Sunita Koul Rekha Meyer Mukesh Sharma Joanne Zhao Software Project Manager Srikanth Adiga Off-shore Personnel Anuj Tiwari Jaydeep Chovatia Rahul Jain Madhumita Shrikande Madhurima Bhattacharjee Ashwini Patil Acknowledgments

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