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NanoToxicology and Bioinformatics

NanoToxicology and Bioinformatics. 2006 Arkansas NSF EPSCoR Thematic Proposal. Bioinformatics at UALR. Steve Jennings Professor Applied Science/EIT SFJennings@UALR.Edu (501) 569-8216/ETAS 505 http://Bioinformatics.UALR.Edu. Intersection of Interests. Nanotechnology Biosciences

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NanoToxicology and Bioinformatics

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  1. NanoToxicology and Bioinformatics 2006 Arkansas NSF EPSCoR Thematic Proposal NSF EPSCoR Thematic Proposals

  2. Bioinformatics at UALR Steve Jennings Professor Applied Science/EIT SFJennings@UALR.Edu (501) 569-8216/ETAS 505 http://Bioinformatics.UALR.Edu NSF EPSCoR Thematic Proposals

  3. Intersection of Interests • Nanotechnology • Biosciences • Computational Sciences NSF EPSCoR Thematic Proposals

  4. Thematic Structure • Regional interests and strengths • National/ international impacts • Local economic impact NSF EPSCoR Thematic Proposals

  5. Theme Suggestion: NanoBioInfo • Toxicology of Nanoparticles • Understanding mechanisms • Abatement strategies • Strengths • Clear opportunity for combining three cores • In addition to involving UAF, ASU and UALR, it’s possible to draw upon the research capabilities of NCTR, UAMS and a number of UGIs • Major funding opportunities over the long term – not just EPSCoR NSF EPSCoR Thematic Proposals

  6. Thematic Guidelines • Problem solution in overlapping cores • Build upon the strengths of each core • All efforts should be in support of the overall theme • Important to focus upon the common objectives NSF EPSCoR Thematic Proposals

  7. Participation Potential NSF EPSCoR Thematic Proposals

  8. Nanotechnology Grows UpScience 6/18/04 “Carbon nanotubes, quantum dots …, and nanoparticles have enticing electrical and optical properties, but toxicologists worry that they might harm organisms.” NSF EPSCoR Thematic Proposals

  9. Nano Hazards: Exposure to minute particles harms lungs, circulatory systemScience News 3/19/05 “… new animal studies indicate that inhaling these microscopic spheres and tubes could cause big trouble, especially for workers who manufacture and handle them.” NSF EPSCoR Thematic Proposals

  10. Special Treatment: Tiny Technology Tackles Mega MessesScience News 4/23/05 “Unfortunately, risk assessments lag far behind the pace of new developments in nanotechnology.” NSF EPSCoR Thematic Proposals

  11. Nanotechnology Grows UpScience 6/18/04 “As funding for nanotech skyrockets, the U.S. National Nanotechnology Initiative devotes 11% of its budget to health and environmental issues.” NSF EPSCoR Thematic Proposals

  12. Toxicology • Collaboration with NCTR instantly gives us the scientific credibility to compete internationally • This is a new area of great interest to NCTR • NCTR has major animal study capabilities • ASU and UAPB have established capabilities in undertaking toxicology studies • Other UGIs and UAMS may also be contributors as well NSF EPSCoR Thematic Proposals

  13. Toxicology Research Areas • Assessing potential toxic effects of nanoparticles • Abatement strategies for reducing harmful effects • Manufacturing and disposal strategies • Understanding basic mechanisms • Appropriate use NSF EPSCoR Thematic Proposals

  14. Nanosciences • UAF and UALR have major investments in the nanosciences including the unique capability of producing high-quality nanoparticles (i.e., of uniform characteristics) • This is critical for undertaking toxicology studies • ASU has interest in collaborating in this area NSF EPSCoR Thematic Proposals

  15. Nanotechnology Research Areas • Production of high-quality nanoparticles for toxicology testing • Experimental strategies for producing particles with less toxic effects • Structural changes • Size changes • Encapsulation strategies • Delivery strategies NSF EPSCoR Thematic Proposals

  16. Nanotechnology Collaborators • UAF • Greg Salamo and colleagues • UALR • Abhijit Bhattacharyya • Alex Biris • Malay Mazumder • Karin Pruessner • ASU • Robert Engelken NSF EPSCoR Thematic Proposals

  17. Biosciences • All three universities have major bioscience capabilities • Biology • Chemistry • Biochemistry NSF EPSCoR Thematic Proposals

  18. Biosciences Research Areas • Understanding basic mechanisms • Developing appropriate biological models NSF EPSCoR Thematic Proposals

  19. UALR John Bush Jerry Darsey QingFang He Maurice Kleve David Lindquist XiaoDong Ma Gary Thompson HongLi Wang UAPB Andy Goodwin Steve Lochmann NCTR Dan Buzatu Yvonne Dragan Paul Howard Dwight Miller ASU Roger Buchanan Carole Cramer Maureen Dolan Jerry Farris Robyn Hannigan Beth Hood Malathi Srivatsan Toxicology and Bioscience Collaborators NSF EPSCoR Thematic Proposals

  20. Bioinformatics • UALR/UAMS Joint Graduate Program in Bioinformatics • 40+ participating faculty • Including many NCTR adjunct faculty • 10 current graduate students • Could double in next six months • Does not count UALR Applied Science graduate students doing bioinformatics-related projects • NCTR Center for Toxicoinformatics NSF EPSCoR Thematic Proposals

  21. Bioinformatics Research Areas • Data management and data mining • Strong and active research programs at UALR • Leverage ties with Acxiom • Modeling and simulation of biosystems and nanoparticles • Strong collaborations between UALR and NCTR (and UAMS) in model development • Visualization of models and mechanisms • Major capabilities and investments in these areas at UALR NSF EPSCoR Thematic Proposals

  22. Weida Tong and colleagues (NCTR) UALR Bioinformatics Collaborators Al Adams – Swaminadham Midturi Coskun Bayrak – Fani Milanova Yupo Chan – Jennifer Perkins Chia-Chu Chiang – Peiyi Tang Sean Geoghegan – Edi Tudoreanu Kamran Iqbal – Xiaowei Xu Steve Jennings – Kenji Yoshigoe Bioinformatics Collaborators NSF EPSCoR Thematic Proposals

  23. Bioinformatics Resources • UALR MidSouth Bioinformatics Center • Bioinformatics Computing Facility • NCTR Center for Toxicoinformatics • UAMS Bioinformatics Centre • UALR Virtual Reality Center • Access Grids NSF EPSCoR Thematic Proposals

  24. Bioinformatics Computing Facility • SunFire Servers • V880 • Eight 900MHz UltraSPARC-III processors • 32G memory with 438G disk space • Two 280Rs • Dual 1.2GHz UltraSPARC-III processors • 8G memory, Fiber Channel Disk Array, SCSI tape drive • Free, open source software • bioPerl, EMBOSS, NCTR’s ArrayTrack • Commercial software packages as required • Oracle and S+/ArrayAnalyzer NSF EPSCoR Thematic Proposals

  25. UALR’s Virtual Reality Center NSF EPSCoR Thematic Proposals

  26. Visualizing Aphid Attacks on Plant Cells 3D Fungus Attack Cell wall Traditional View: microscopy Interactive selection and navigation Immersed:seeing 3D frominside the cell NSF EPSCoR Thematic Proposals

  27. Access Grid Conferencing University of Arkansas at Little Rock Funded through CyberCollege start-up University of Arkansas at Little Rock Funded by AR BRIN University of Arkansas for Medical Sciences Housed in the UAMS Library, 3rd floor University of Arkansas at Fayetteville Housed at Mullins Library Arkansas State University Housed at Dean B. Ellis Library University of Arkansas for Medical Sciences University of Arkansas at Little Rock NSF EPSCoR Thematic Proposals

  28. INBRE Funding Access Grid Executive Stations for Seven AR UGIs NSF EPSCoR Thematic Proposals

  29. Arkansas BRIN/INBRE Programs • In the midst of nine years of major funding for UAMS, UAF, UALR and seven UGIs to participate in biomedical research infrastructure development • Funded initial bioinformatics efforts • Enabled strong working relationships between these ten institutions • Intend to leverage these relationships in this expanded program area of nanotoxicology NSF EPSCoR Thematic Proposals

  30. MidSouth Nanotoxicology and Bioinformatics Summit • Statewide meeting to be held on Monday/Tuesday, September 19/20 • Monday afternoon (NCTR): Welcome and tours of NCTR facilities • Tuesday 8-5 (UALR): Keynote speaker, Disciplinary working sessions, Action plan for NSF EPSCoR white paper • Sponsored by NCTR, UALR Graduate School and UALR CyberCollege • REGISTER AT http://bioinformatics.ualr.edu/nanotox NSF EPSCoR Thematic Proposals

  31. Dr. Anna ShvedovaNational Institute forOccupational Safety and Health NSF EPSCoR Thematic Proposals

  32. NanoTox 2006 NSF EPSCoR Thematic Proposals

  33. Advisory Board • Board made up of senior scientific/ administrative representatives from: • ASU – UALR • NCTR – UAMS • UAF – UGIs • Responsible for overall project oversight, inter-institutional coordination, and assuring cohesiveness of sub-projects • Assist with long-term funding (post-EPSCoR submission) NSF EPSCoR Thematic Proposals

  34. About EPSCoR “EPSCoR’s goal is to maximize the potential inherent in a state’s S&T resources and use those resources as a foundation for economic growth.” NSF EPSCoR Thematic Proposals

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