ZFIN Person: Clements, David

ZFIN ID: ZDB-PERS-000417-1

ZFIN ID: ZDB-PERS-000417-1

Clements, David

Email:	clements@galaxyproject.org
URL:	http://wiki.galaxyproject.org/DaveClements
Affiliation:
Address:	Galaxy Project Taylor Lab Johns Hopkins University
Country:
Phone:
Fax:
ORCID ID:

BIOGRAPHY AND RESEARCH INTERESTS

I work on the Galaxy Project, where I teach workshops, write documentation, and do community outreach. I telecommute from Eugene, OR where I have a guest appointment at the Univeristy of Oregon.

Previously I worked on the GMOD project for NESCent, the National Evolutionary Synthesis Center, EuReGene, the European Renal Genome project as part of EMAP, the Edinburgh Mouse Atlas Project.

I was at ZFIN from 2000 to 2005. At both ZFIN and EMAP I worked on database, server and software infrastructure issues.

PUBLICATIONS

Sprague, J., Bayraktaroglu, L., Clements, D., Conlin, T., Fashena, D., Frazer, K., Haendel, M., Howe, D.G., Mani, P., Ramachandran, S., Schaper, K., Segerdell, E., Song, P., Sprunger, B., Taylor, S., Van Slyke, C.E., and Westerfield, M. (2006) The Zebrafish Information Network: the zebrafish model organism database. Nucleic acids research. 34:D581-585

Sprague, J., Clements, D., Conlin, T., Edwards, P., Frazer, K., Schaper, K., Segerdell, E., Song, P., Sprunger, B., and Westerfield, M. (2003) The Zebrafish Information Network (ZFIN): the zebrafish model organism database. Nucleic acids research. 31(1):241-243

Sprague, J., Doerry, E., Douglas, S., Westerfield, M., and ZFIN GRP, (Conlin, T., Clements, D., Edwards, P., Frazer, K., Schaper, K., Segerdell, E.) (2001) The Zebrafish Information Network (ZFIN): a resource for genetic, genomic and developmental research. Nucleic acids research. 29(1):87-90

NON-ZEBRAFISH PUBLICATIONS

Sook Jung; Naama Menda; Seth Redmond; Robert M. Buels; Maren Friesen; Yuri Bendana; Lacey-Anne Sanderson; Hilmar Lapp; Taein Lee; Bob !MacCallum; Kirstin E. Bett; Scott Cain; Dave Clements; Lukas A. Mueller; Dorrie Main; 'The Chado Natural Diversity module: a new generic database schema for large-scale phenotyping and genotyping data,' Database, 2011; doi: 10.1093/database/bar051

Daniela Raciti, Luca Reggiani, Lars Geffers, Qiuhong Jiang, Francesca Bacchion, Astrid E Subrizi, Dave Clements, Christopher Tindal, Duncan R Davidson, Brigitte Kaissling, and Andr� W Br�ndli; 'Organization of the pronephric kidney revealed by large-scale gene expression mapping, Genome Biology, 2008, 9:R84.

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, 'A high-resolution anatomical ontology of the developing murine genitourinary tract', Gene Expression Patterns, 7(6), pp. 680-699 (June 2007).

D. Joslin and D. Clements, 'Squeaky Wheel Optimization', Journal of Artificial Intelligence Research, 10, 353-373 (May 1999). This material was covered in less detail in 'Squeaky Wheel Optimization.'' Proceedings of the 15th National Conference on Artificial Intelligence (AAAI-98).

D. Draper, A. Jonsson, D. Clements, and D. Joslin, 'Cyclic Scheduling.'' Proceedings of the 16th International Joint Conference on Artificial Intelligence (IJCAI-99).

D. Clements, J. Crawford, D. Joslin, G. Nemhauser, M. Puttlitz and M. Savelsbergh, 'Heuristic Optimization: A hybrid AI/OR approach.'' Workshop on Industrial Constraint-Directed Scheduling, 1997. (Held in conjunction with CP'97, Schloss Hagenberg, Austria.)

E.P. Lim, S.Y. Hwang, J. Srivastava, D. Clements and M. Ganesh, 'Myriad: Design and Implementation of a Federated Database Prototype,'' Software - Practice and Experience, 25(5), 533-562 (May 1995)