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Educational & Community Extending Activities

Educational & Community Extending Activities. Education Outline. Graduate training/mentoring Undergraduate training/mentoring Courses with Biogeometry Community education Participation in new initiatives. Education of new scientists. Senior Research Associates Robert Gdanitz NCAT Physics

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Educational & Community Extending Activities

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  1. Educational &Community ExtendingActivities

  2. Education Outline • Graduate training/mentoring • Undergraduate training/mentoring • Courses with Biogeometry • Community education • Participation in new initiatives

  3. Education of new scientists • Senior Research Associates • Robert Gdanitz NCAT Physics • Patrice Koehl Stanford Biology • Postdoctoral Fellows • David Hsu UNC CS • Michael Prisant Duke Biochemistry • Jeffrey Roach UNC Biochemistry • Farbian Schwarzer Stanford CS • Alper Üngör Duke CS • Afra Zomorodian Stanford CS • *Lutz Kettner MPI Saarbrucken • *Robert-Paul Berretty Philips Research • *Nayana Vaval NCAT Physics • *Sergei Bespamyatnikh U Texas Dallas CS

  4. Graduate Students Serkan Apaydin Stanford EE Andrew Ban Duke Biochem Deepak Bandopadhyay UNC CS Hamish Carr UBC CS Abhijit Guria Duke CS Martin Isenburg UNC CS Rachel Kolodny Stanford CS Andrew Leaver-Fay UNC CS Loren Looger Duke Biochem Itay Lotan Stanford CS Andrea Mantler UNC CS Ajith Mascarenhas UNC CS Nabil Mustafa Duke CS Vijay Natarajan Duke CS An Nguyen Stanford Sci Comp David O'Brien UNC CS Sean Palmer UNC Biochem Daniel Russell Stanford CS Jaewon Shin Stanford EE *Rohit Singh Stanford CS Chris Varma Stanford CS Yusu Wang Duke CS Kevin Wedderburn NCAT Physics *Afra Zomorodian Stanford CS *Anne Collins Duke Math *Zaki Abdulrahman NCAT Physics *Cecelia Procopiuc Duke CS *Amit Singh Stanford Biochem Rohit Singh, finding motifs in proteins, best Stanford CS MSc thesis, June ’02 Education of new scientists

  5. Education of new scientists • Undergraduate Students • *Eric Berger Stanford CS • Patrick Chan Duke CS • Julie Greenberg Harvard   • *Emily Humphrey UNC CS • *Shilpa Khatri UNC Mathematics • Lekisha Perry NCAT Physics • *McKenzie-Marie Slaughter Hampton CS • Sewyalew Taddele NCAT Physics • *Smriti Bhotika UNC CS

  6. Courses – at all university levels • New courses • CPS 296.1 - Bio-Geometric Modeling: course notes online to become monograph (Edelsbrunner)   • Algorithmic Biology (Batzoglu, Guibas, Latombe) • Comp006d – Folding: from paper to proteins: Freshman seminar (Snoeyink)

  7. Courses – at all university levels • Biocomputation lectures in existing classes: • CS326 – motion planning: molecular motion, probabilistic roadmaps, self-collision detection (Latombe) • CS468 – intro to computational topology: finding pockets and tunnels in molecules, compute surface areas and volumes and their derivative (Guibas; Zomorodian) • SB228 Protein Simulation and Structure Prediction (Levitt) • Comp205 – scientific & geometric computation: protein representation, molecular dynamics (Snoeyink) • Comp016 – Intro to scientific programming: reading and processing PDB format files (Snoeyink) • Bioc134 – Molecules (Carter)

  8. Workshops • Thus far, annual meetings have been for project team and invited guests • To broaden this meeting, we've organized the 2002 Triangle Biophysics Symposium, Friday & Saturday • Hoped for 80, but have nearly 100 attending • DIMACS & NSF Motion Workshops (Agarwal & Guibas)

  9. New initiatives • NC A&T GAANN grant for Interdisciplinary Training in Biotechnology, Genomics and Bioinformatics. • NC A&T Sloan foundation feasibility study for MSc in Computational Sciences • UNC Bio-informatics training program • Research rotations, e.g. • Crystal Wright, UNC BMME (Snoeyink; CS) • Andrew Leaver-Fay UNC CS (Tropsha; Med. Chem.) • Stanford BioX program • Levitt & Latombe server on the leadership council • Duke PhD program in Bioinformatics and Genome Technology. • 2 core CS courses: Algorithms in Comp. Bio. & Bio-Geometry

  10. Other community involvement • UNC Program in Cellular and Molecular Biophysics (Carter, Snoeyink) • Stanford Graduate Curriculum Committee, Bio-Engineering Dept., (Latombe) • Hiring of new faculty (e.g., at UNC, Dokholyan, Kulmann, & Wang) • Visitors (e.g. at Stanford: Prof. Ileana Streinu, Smith College, 6 months, from Sept.’02) • Conference participation, organization, program committees, …

  11. Other • On-line • Biogeometry web pages • Biocomputing Notebook, Tutorials, etc • Monograph on Bio-Geometric Modelling (Edelsbrunner) • Software

  12. Under-represented groups • Represented in all of the above • Initiatives at NC A&T • Selection of undergrad researchers, rotation students, visitors

  13. First year seminar Origami Robot manipulator motion Protein Folding COMP 6: Folding from paper to proteins

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