Difference between revisions of "User:Clements"

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m (Presentations, Tutorials, Workshops, Demos and Posters)
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* [http://dx.doi.org/10.1093/nar/29.1.87 The Zebrafish Information Network (ZFIN): a resource for genetic, genomic and developmental research]; in ''[http://nar.oxfordjournals.org/ Nucleic Acids Research]'' 29(1):87-90 (2001); Sprague, J., Doerry, E., Douglas, S., Westerfield, M., and ZFIN Group, (Conlin, T., Clements, D., Edwards, P., Frazer, K., Schaper, K., Segerdell, E.)
 
* [http://dx.doi.org/10.1093/nar/29.1.87 The Zebrafish Information Network (ZFIN): a resource for genetic, genomic and developmental research]; in ''[http://nar.oxfordjournals.org/ Nucleic Acids Research]'' 29(1):87-90 (2001); Sprague, J., Doerry, E., Douglas, S., Westerfield, M., and ZFIN Group, (Conlin, T., Clements, D., Edwards, P., Frazer, K., Schaper, K., Segerdell, E.)
  
* [http://www.jair.org/papers/paper561.html Squeaky Wheel Optimization]; in ''[http://www.jair.org/ Journal of Artificial Intelligence Research]'', 10, 353-373 (May 1999);  [http://www.seattleu.edu/scieng/comsci/Fac_Staff/Joslin/joslin_pg.asp D. Joslin] and D. Clements.  This material was covered in less detail in [http://www.cs.uoregon.edu/~clements/squeakyAaai.ps Squeaky Wheel Optimization]; in ''Proceedings of the [http://www.aaai.org/Conferences/AAAI/aaai98.php 15th National Conference on Artificial Intelligence (AAAI-98)]''.
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* [http://www.jair.org/papers/paper561.html Squeaky Wheel Optimization]; in ''[http://www.jair.org/ Journal of Artificial Intelligence Research]'', 10, 353-373 (May 1999);  D. Joslin and D. Clements.  This material was covered in less detail in [http://www.cs.uoregon.edu/~clements/squeakyAaai.ps Squeaky Wheel Optimization]; in ''Proceedings of the [http://www.aaai.org/Conferences/AAAI/aaai98.php 15th National Conference on Artificial Intelligence (AAAI-98)]''.
  
* [http://www.cs.uoregon.edu/~clements/cyclic.ps Cyclic Scheduling]; in ''Proceedings of the [http://www.ijcai.org/past/ijcai-99/ 16th International Joint Conference on Artificial Intelligence (IJCAI-99)]'', D. Draper, A. Jonsson, D. Clements, and [http://www.seattleu.edu/scieng/comsci/Fac_Staff/Joslin/joslin_pg.asp D. Joslin].
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* [http://www.cs.uoregon.edu/~clements/cyclic.ps Cyclic Scheduling]; in ''Proceedings of the [http://www.ijcai.org/past/ijcai-99/ 16th International Joint Conference on Artificial Intelligence (IJCAI-99)]'', D. Draper, A. Jonsson, D. Clements, and D. Joslin.
  
* [http://www.cs.uoregon.edu/~clements/hopt.ps Heuristic Optimization: A hybrid AI/OR approach.'] at ''Workshop on Industrial Constraint-Directed Scheduling'', held in conjunction with [http://www.mpi-inf.mpg.de/conferences/CP97/ CP'97], Schloss Hagenberg, Austria (1997); D. Clements, J. Crawford, [http://www.seattleu.edu/scieng/comsci/Fac_Staff/Joslin/joslin_pg.asp D. Joslin], G. Nemhauser, M. Puttlitz and M. Savelsbergh.
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* [http://www.cs.uoregon.edu/~clements/hopt.ps Heuristic Optimization: A hybrid AI/OR approach.'] at ''Workshop on Industrial Constraint-Directed Scheduling'', held in conjunction with [http://www.mpi-inf.mpg.de/conferences/CP97/ CP'97], Schloss Hagenberg, Austria (1997); D. Clements, J. Crawford, D. Joslin, G. Nemhauser, M. Puttlitz and M. Savelsbergh.
  
 
* [http://www.cs.uoregon.edu/~clements/myriad.ps Myriad: Design and Implementation of a Federated Database Prototype]; in ''[http://www3.interscience.wiley.com/journal/112769988/home Software - Practice and Experience],'' 25(5), 533-562 (May 1995); E.P. Lim, S.Y. Hwang, J. Srivastava, D. Clements and M. Ganesh.
 
* [http://www.cs.uoregon.edu/~clements/myriad.ps Myriad: Design and Implementation of a Federated Database Prototype]; in ''[http://www3.interscience.wiley.com/journal/112769988/home Software - Practice and Experience],'' 25(5), 533-562 (May 1995); E.P. Lim, S.Y. Hwang, J. Srivastava, D. Clements and M. Ganesh.
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* ''[http://www.cirl.uoregon.edu/research/warp.html Worldwide Aeronautical Route Planner]'', demonstration with Charles B. McVey, and [http://www.cs.nott.ac.uk/~ajp/ Andrew J. Parkes] at the [http://www.aaai.org/Conferences/AAAI/aaai99.php 16th National Conference on Artificial Intelligence (AAAI-99)].
 
* ''[http://www.cirl.uoregon.edu/research/warp.html Worldwide Aeronautical Route Planner]'', demonstration with Charles B. McVey, and [http://www.cs.nott.ac.uk/~ajp/ Andrew J. Parkes] at the [http://www.aaai.org/Conferences/AAAI/aaai99.php 16th National Conference on Artificial Intelligence (AAAI-99)].
  
* ''[http://www.cirl.uoregon.edu/research/cable.html Squeaky Wheel Optimization]'', demonstration with [http://www.seattleu.edu/scieng/comsci/Fac_Staff/Joslin/joslin_pg.asp David Joslin] at the [http://www.aaai.org/Conferences/AAAI/aaai98.php 15th National Conference on Artificial Intelligence (AAAI-98)].
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* ''[http://www.cirl.uoregon.edu/research/cable.html Squeaky Wheel Optimization]'', demonstration with David Joslin at the [http://www.aaai.org/Conferences/AAAI/aaai98.php 15th National Conference on Artificial Intelligence (AAAI-98)].

Revision as of 15:59, 9 April 2009


Dave Clements

__NOTITLE__

Dave Clements

I work for the National Evolutionary Synthesis Center (NESCent) and since September 2007 I run the GMOD Help Desk. I telecommute from the Phillips Lab in the Center for Ecology and Evolutionary Biology (CEEB) at the University of Oregon. See the GMOD Help Desk page for an explanation of what I do for the GMOD project.

Contact Details

E-mail help@gmod.org (Help Desk)
clements@nescent.org (Other)
Phone 1 541 914 6324 (9-5 Pacific time)

Background

My background is in computer science. I have been working in biological databases since 2000.

Prior to working for NESCent on GMOD I worked as the database manager at the European Renal Genome project (EuReGene), as a member of the Edinburgh Mouse Atlas Project (EMAP). This project studied kidney development and disease. My work focused on gene expression patterns, and anatomy ontologies.

Prior to EuReGene I worked for ZFIN, the zebrafish model organism database at the University of Oregon for 5 years as a database administrator and software engineer.

My pre-bioinformatics career included

Publications

  • A high-resolution anatomical ontology of the developing murine genitourinary tract; in Gene Expression Patterns, 7(6), pp. 680-699 (June 2007). Melissa H. Little, Jane Brennan, Kylie Georgas, Jamie A. Davies, Duncan R. Davidson, Richard A. Baldock, Annemiek Beverdam, John F. Bertram, Blanche Capel, Han Sheng Chiu, Dave Clements, Luise Cullen-McEwen, Jean Fleming, Thierry Gilbert, Doris Herzlinger, Derek Houghton, Matt H. Kaufman, Elena Kleymenova, Peter A. Koopman, Alfor G. Lewis, Andrew P. McMahon, Cathy L. Mendelsohn, Eleanor K. Mitchell, Bree A. Rumballe, Derina E. Sweeney, M. Todd Valerius, Gen Yamada, Yiya Yang and Jing Yu

Presentations, Tutorials, Workshops, Demos and Posters

  • Gene Expression Databases: Where and When, presentation given at NESCent in April 2007. Describes common issues with gene expression databases focusing on anatomy ontology issues. Uses 4 websites to demonstrate different ways to deal with these issues.