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Limsoon Wong Kent Ridge Digital Labs

Bioinformatics @ KRDL. Limsoon Wong Kent Ridge Digital Labs. What are the Themes of Bioinformatics?. Bioinformatics = Data Mgmt + Knowledge Discovery Data Mgmt = Integration + Transformation + Cleansing Knowledge Discovery = Statistics + Algorithms + Databases. WEB.

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Limsoon Wong Kent Ridge Digital Labs

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  1. Bioinformatics @ KRDL Limsoon Wong Kent Ridge Digital Labs

  2. What are the Themes of Bioinformatics? Bioinformatics = Data Mgmt + Knowledge Discovery Data Mgmt = Integration + Transformation + Cleansing Knowledge Discovery = Statistics + Algorithms + Databases

  3. WEB Protein Interaction Extraction “What are the protein-protein interaction pathways from the latest reported discoveries?”

  4. Protein Interaction Extraction Results • Rule-based system for processing free texts in scientific abstracts • Specialized in • extracting protein names • extracting protein-protein interactions Jak1

  5. Transcription Start Prediction

  6. Transcription Start Prediction Results

  7. Medical Record Analysis • Looking for patterns that are • valid • novel • useful • understandable

  8. Medical Record Analysis Results • DeEPs, the “emerging pattern’’ method • Beats C4.5, CBA, LB, NB, TAN in 21 out of 32 UCI benchmarks • Works for gene expressions • ALL vs AML: • DeEPS (1 gene) - 0/38 & 3/34 • Slonim (50 genes) - 2/38 & 5/34 • Colon: • DeEPS (35 genes) - 4/62 • Alon (1000 genes) - 6/62

  9. Thank You & Have a Nice Day For more info: http://sdmc.krdl.org.sg/bic http://sdmc.krdl.org.sg/limsoon/talks/wls-genemaster.ppt

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