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Collaboration Updates

PROGRESS REVIEW Mike Langston’s Research Team Department of Computer Science University of Tennessee 16 July 2003.

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Collaboration Updates

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  1. PROGRESS REVIEWMike Langston’s Research TeamDepartment of Computer ScienceUniversity of Tennessee16 July 2003

  2. Team Members in AttendanceNicole Baldwin, Rebecca Collins, John Eblen, Mike Langston, Lan Lin, Jon Scharff, Xinxia Peng, Chris Symons Team Members AbsentFaisal Abu-Khzam, Mahesh Dorai, Pushkar Shanbhag, Henry Suters

  3. Collaboration Updates • UTHSC: Microarray Data Analysis • ORNL: Motif and Module Finding • ECE: High-Performance Reconfigurable Computing • ICL: Homeland Security • GST: GeneKeyDB, CS594 this Fall

  4. Update for Faisal Abu-Khzam • Successfully defended PhD thesis ---- Congratulations Faisal! • Taking a well-deserved break in Lebanon • Representing team at FPT workshop in Germany in August • Starting to work with Jay Snoddy • Co-chairing HICSS session on “Grid Computing” with Mike Langston

  5. Update for Nicole Baldwin • Working on new clique implementations - small cliques via direct algorithms - maximal and maximum cliques • Investigating load-balancing issues for parallel algorithms • Standardizing I/O formats

  6. Update for Rebecca Collins • Inplementing Dinic’s algorithm for simple network flow ala Hochbaum • Studying how it stacks up against Bill Cook’s Linear Programming codes • Incorporating it into our vertex cover kernelization suite • Transitioning to Pushkar’s job • For an update, see: Rebecca's notes

  7. Update for Mahesh Dorai • Some more progress, still some stumbling blocks • For details, see: Mahesh's report

  8. Update for John Eblen • Maintaining liaison with industry (thanks go out to Drs Maalouf and Uberbacher for their help and encouragement!) • Accepted into the PhD program this fall • Beginning search for research problems of significance and impact • Learning the algorithmic ropes by starting with new methods for medium-sized cliques via the independent set problem

  9. Update for Lan Lin • In early stages of topic selection • Looking at interleaving • Learning enough biology to be dangerous (much like her advisor ) • For details, see: Lan's slides

  10. Update for Xinxia Peng • Looking into the next CAMDA meeting • Investigating graph algorithms in the context of bioinformatics • Especially interested in GRN homology • For a recent project see Xenia's slides

  11. Update for Jon Scharff • Working with Mike Langston and Mike Leuze on UT-ORNL summer internship • Looking at the problem of adding a GUI • Developing new motif finding algorithms and codes • Studying applicability of object-oriented paradigm • For details, see: Jon's notes

  12. Update for Pushkar Shanbhag • Successfully defended MS project --- Congratulations Pushkar! • On the market for an industrial position --- Potential employers take note!! • Helping Rebecca take the reins

  13. Update for Henry Suters • Big news: Henry has the crown decomposition up and running! • Initial results are very encouraging, and seem to best LP in terms of both speed and solution quality • Now testing against other kernelization alternatives, incorporating into our suite • Also exploring the rule’s general utility

  14. Update for Chris Symons • Working on hitting set - new kernelization and branching rules - sequential and parallel implementations • Serving as team expert for GRNs • Participating in clique implementations • Representing team at FPT workshop in Canada in August • For a recent project see Chris’ slides

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