iPlant Publications

Micklos, David, Lauter, Susan, and Nisselle, Amy, "Lessons from a Science Education Portal," Science 334 (2011): 1657-1658, doi: http://www.sciencemag.org/content/334/6063/1657.full

Del Vescovo, C., Gessler, D.D.G., Klinov, P., Parsia, B., Sattler, U., Schneider, T., and Winget, A., "Decomposition and Molecular Structure of BioPortal Ontologies," in: International Semantic Web Conference, Lecture Notes in Computer Science, 7031: 130-145, doi:  10.1007/978_3_642_25073-6_9. 

Stanzione, Dan, "The iPlant Collaborative: Cyberinfrastructure to Feed the World," IEEE Computer, November 2011, doi:  10.1109/MC.2011.297

Goff , Stephen A. et al., "The iPlant Collaborative: Cyberinfrastructure for Plant Biology," Frontiers in Plant Science 2 (2011), doi: 10.3389/fpls.2011.00034.

Makumburage, G. Buddhika and Stapleton, Ann E., "Phenotype uniformity in combined-stress environments has a different genetic architecture than in single-stress treatments," Frontiers in Plant Science 2 (2011), doi: 10.3389/fpls.2011.00012.

Rogowitz, Bernice E. and Matasci, Naim, "Metadata mapper: A user interface web service for mapping data between independent visual analysis components, guided by perceptual rules," Proceedings of the SPIE Conference on Human Vision and Electronic Imaging (2011), doi: 10.1117/12.881734.

Smith, Stephen A. et al., "Understanding angiosperm diversification using small and large phylogenetic trees," American Journal of Botany 98:404-414 (2011), doi: 10.3732/ajb.1000481.

Goff , Stephen A., "A unifying theory for general multigenic heterosis: energy efficiency, protein metabolism, and implications for molecular breeding," New Phytologist 189 (2010): 923-937, doi: 10.1111/j.1469-8137.2010.03574.x.

Hanlon, Matthew et al., "My-Plant.org: A phylogenetically structured social network", Paper presented at Gateway Computing Environments Workshop (GCE), New Orleans, LA, November 14, 2010, doi: 10.1109/GCE.2010.5676118.

Jordan, Chris et al., "Comprehensive data infrastructure for plant bioinformatics," Paper presented at IEEE International Conference on Cluster Computing, 20-24 Sept. 2010, doi: 10.1109/CLUSTERWKSP.2010.5613093.

Nelson, Rex T. et al., “Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery ad disparate data and service integration”. BioData Mining 3 (2010), doi: 10.1186/1756-0381-3-3.

Ram, Sudha and Liu, Jun, “Provenance Management in BioSciences” in Advances in Conceptual Modeling – Applications and Challenges ER 2010 Workshops ACM-L, CMLSA, CMS, DE@ER, FP-UML, SeCoGIS, WISM. Proceedings, Vancouver, British Columbia, Canada, November 1-4, 2010. 54-64 doi: 10.1007/978-3-642-16385-2

Wang, Liya and Stein, Lincoln, “Localizing triplet periodicity in DNA and cDNA sequences,” BMC Bioinformatics 11:550 (2010), doi: 10.1186/1471-2105-11-550

Brown, Susan A., Sherry Thatcher, and Yan Dang, "Managing Knowledge in a Changing Scientific Landscape: The Impact of Cyberinfrastructure," System Sciences (HICSS), 2010 43rd Hawaii International Conference on, 1-10, 5-8 Jan. 2010, doi: 10.1109/HICSS.2010.263.

Gessler, Damian D.G. et al., "SSWAP: A Simple Semantic Web Architecture and Protocol for semantic web services," BMC Bioinformatics (2009), doi: 10.1186/1471-2105-10-309.

Han, Yujun, James M. Burnette III, and Susan R. Wessler, "TARGeT: a web-based pipeline for retrieving and characterizing gene and transposable element families from genomic sequences," Nucleic Acids Research, (2009) doi: 10.1093/nar/gkp295.

Liu, Jun and Sudha Ram, "Who Does What: Collaboration Patterns in the Wikipedia and Their Impact on Data Quality," 19th Workshop on Information Technologies and Systems, 175-180, December 8, 2009, http://ssrn.com/abstract=1565682.

Macías-Duarte, Alberto et al., "Novel microsatellite loci for the burrowing owl Athene cunicularia," Conservation Genetics Resources 2 (2009): 67-69, doi: 10.1007/s12686-009-9150-4

Ram, Sudha, Kunpeng Zhang and Wei Wei, "Linking Biological Databases for Knowledge Discovery" in Advances in Conceptual Modeling - Challenges and Opportunities Lecture Notes in Computer Science 5232 (2008): 22-32, doi: 10.1007/978-3-540-87991-6_4.

Stein, Lincoln, "Towards a cyberinfrastructure for the biological sciences: progress, visions and challenges," Nature Reviews Genetics 9 (2008): 678-688 doi: 10.1038/nrg2414.