Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Soltis, D. E., Burleigh, G., Barbazuk, W. B., Moore, M. J., & Soltis, P. S. (2009). Advances in the use of next-generation sequence data in plant systematics and evolution. International Symposium on Molecular Markers in Horticulture. Retrieved from http://www.actahort.org/books/859/859_23.htm
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Soltis, D. E., Burleigh, G., Barbazuk, W. B., Moore, M. J., & Soltis, P. S. (2009). Advances in the use of next-generation sequence data in plant systematics and evolution. International Symposium on Molecular Markers in Horticulture. Retrieved from http://www.actahort.org/books/859/859_23.htm
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Soltis, D. E., Burleigh, G., Barbazuk, W. B., Moore, M. J., & Soltis, P. S. (2009). Advances in the use of next-generation sequence data in plant systematics and evolution. International Symposium on Molecular Markers in Horticulture. Retrieved from http://www.actahort.org/books/859/859_23.htm
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Soltis, D. E., Burleigh, G., Barbazuk, W. B., Moore, M. J., & Soltis, P. S. (2009). Advances in the use of next-generation sequence data in plant systematics and evolution. International Symposium on Molecular Markers in Horticulture. Retrieved from http://www.actahort.org/books/859/859_23.htm
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Project, A. G., Albert, V. A., Barbazuk, W. B., dePamphilis, C. W., Der, J. P., Leebens-Mack, J., et al. (2013). The Amborella Genome and the Evolution of Flowering Plants. Science, 342, 1241089-1241089. http://doi.org/10.1126/science.1241089
Nelson, R. T., Avraham, S., Shoemaker, R. C., May, G. D., Ware, D., & Gessler, D. D. G. (2010). Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery and disparate data and service integration. Biodata Mining, 3, 3. http://doi.org/10.1186/1756-0381-3-3
Nelson, R. T., Avraham, S., Shoemaker, R. C., May, G. D., Ware, D., & Gessler, D. D. G. (2010). Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery and disparate data and service integration. Biodata Mining, 3, 3. http://doi.org/10.1186/1756-0381-3-3
Wang, L., Ware, D., Lushbough, C., Merchant, N., & Stein, L. (2014). A GWAS platform built on iPlant cyber-infrastructure. Bioinformatics. http://doi.org/10.1101/002881
Stein, J. C., Yu, Y., Copetti, D., Zwickl, D. J., Zhang, L., Zhang, C., et al. (2018). Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza. Nature Genetics, 50, 285-296. http://doi.org/10.1038/s41588-018-0040-0
Schatz, M. C., Maron, L. G., Stein, J. C., Wences, A. H., Gurtowski, J., Biggers, E., et al. (2014). New whole genome de novo assemblies of three divergent strains of rice (O. sativa) documents novel gene space of aus and indica. Genomics. http://doi.org/10.1101/003764
Chougule, K. M., Wang, L., Stein, J. C., Wang, X., Devisetty, U. K., Klein, R. R., & Ware, D. (2018). Improved RNA-seq Workflows Using CyVerse Cyberinfrastructure. Current Protocols In Bioinformatics, 63, e53. http://doi.org/10.1002/cpbi.53
Stein, J., Lu, J., Noutsos, C., Wang, L., Barthelson, R., Wei, F., et al. (2013). Biological Computing Using the iPlant Discovery Environment. Biological Computing Using the iPlant Discovery Environment. San Diego, CA.
Chougule, K. M., Wang, L., Stein, J. C., Wang, X., Devisetty, U. K., Klein, R. R., & Ware, D. (2018). Improved RNA-seq Workflows Using CyVerse Cyberinfrastructure. Current Protocols In Bioinformatics, 63, e53. http://doi.org/10.1002/cpbi.53
Nelson, R. T., Avraham, S., Shoemaker, R. C., May, G. D., Ware, D., & Gessler, D. D. G. (2010). Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery and disparate data and service integration. Biodata Mining, 3, 3. http://doi.org/10.1186/1756-0381-3-3
Goff, S. A., Vaughn, M., McKay, S., Lyons, E., Stapleton, A. E., Gessler, D., et al. (2011). The iPlant Collaborative: Cyberinfrastructure for Plant Biology. Frontiers In Plant Science, 2. http://doi.org/10.3389/fpls.2011.00034
Merchant, N., Lyons, E., Goff, S., Vaughn, M., Ware, D., Micklos, D., & Antin, P. (2016). The iPlant Collaborative: Cyberinfrastructure for Enabling Data to Discovery for the Life Sciences. Plos Biology, 14, e1002342. http://doi.org/10.1371/journal.pbio.1002342
Wang, L., Ware, D., Lushbough, C., Merchant, N., & Stein, L. (2015). A genome-wide association study platform built on iPlant cyber-infrastructure: A GWAS PLATFORM BUILT ON iPLANT CYBER-INFRASTRUCTURE. Concurrency And Computation: Practice And Experience, 27, 420-432. http://doi.org/10.1002/cpe.3236
Wang, L., Lu, Z., Van Buren, P., & Ware, D. (2018). SciApps: a Bioinformatics Workflow Platform Powered by XSEDE and CyVerse. Proceedings of the Practice and Experience on Advanced Research Computing - PEARC 18. Pittsburgh, PA, USA: ACM Press. http://doi.org/10.1145/3219104.3219109
Campbell, M. S., Law, M. Y., Holt, C., Stein, J. C., Moghe, G. D., Hufnagel, D. E., et al. (2014). MAKER-P: A Tool Kit for the Rapid Creation, Management, and Quality Control of Plant Genome Annotations. Plant Physiology, 164, 513-524. http://doi.org/10.1104/pp.113.230144
Tello-Ruiz, M. K., Naithani, S., Stein, J. C., Gupta, P., Campbell, M., Olson, A., et al. (2018). Gramene 2018: unifying comparative genomics and pathway resources for plant research. Nucleic Acids Research, 46, D1181—D1189. http://doi.org/10.1093/nar/gkx1111
Wang, L., Stein, L., & Ware, D. (2014). The relationships among GC content, nucleosome occupancy, and exon size. Arxiv:1404.2487 [Q-Bio]. Retrieved from http://arxiv.org/abs/1404.2487
Law, M. Y., Childs, K. L., Campbell, M. S., Stein, J. C., Olson, A. J., Holt, C., et al. (2015). Automated Update, Revision, and Quality Control of the Maize Genome Annotations Using MAKER-P Improves the B73 RefGen\_v3 Gene Models and Identifies New Genes. Plant Physiology, 167, 25-39. http://doi.org/10.1104/pp.114.245027
Wang, L., Lu, Z., Van Buren, P., & Ware, D. (2018). SciApps: a cloud-based platform for reproducible bioinformatics workflows. Bioinformatics. http://doi.org/10.1093/bioinformatics/bty439
Friesner, J., Assmann, S. M., Bastow, R., Bailey-Serres, J., Beynon, J., Brendel, V., et al. (2017). The Next Generation of Training for Arabidopsis Researchers: Bioinformatics and Quantitative Biology. Plant Physiology, 175, 1499-1509. http://doi.org/10.1104/pp.17.01490
McKay, S. J., Vergara, I. A., & Stajich, J. E. (2010). Using the Generic Synteny Browser (GBrowse\_syn). Current Protocols in Bioinformatics (p. bi0912s31). Hoboken, NJ, USA: John Wiley \& Sons, Inc. http://doi.org/10.1002/0471250953.bi0912s31
Oliver, S. L., Lenards, A. J., Barthelson, R. A., Merchant, N., & McKay, S. J. (2013). Using the iPlant Collaborative Discovery Environment. Current Protocols In Bioinformatics, 42, 1-1. http://doi.org/10.1002/0471250953.bi0122s42
McKay, S. J., Skidmore, E. J., LaRose, C. J., Mercer, A. W., & Noutsos, C. (2013). Cloud Computing with iPlant Atmosphere: Cloud Computing with iPlant Atmosphere. Current Protocols in Bioinformatics (pp. 1-9). Hoboken, NJ, USA: John Wiley \& Sons, Inc. http://doi.org/10.1002/0471250953.bi0915s43
McKay, S. J., Vergara, I. A., & Stajich, J. E. (2010). Using the Generic Synteny Browser (GBrowse\_syn). Current Protocols in Bioinformatics (p. bi0912s31). Hoboken, NJ, USA: John Wiley \& Sons, Inc. http://doi.org/10.1002/0471250953.bi0912s31
McKay, S. J., Vergara, I. A., & Stajich, J. E. (2010). Using the Generic Synteny Browser (GBrowse\_syn). Current Protocols in Bioinformatics (p. bi0912s31). Hoboken, NJ, USA: John Wiley \& Sons, Inc. http://doi.org/10.1002/0471250953.bi0912s31
Rajasekar, A., Xu, H., & Moore, R. (2014). Note on Three Classes of Data Grid Operations. Journal Of Computer And Communications, 02, 1-6. http://doi.org/10.4236/jcc.2014.26001
Moore, R., & Anderson, W. L. (2010). ASIS\&T research data access and preservation summit: Conference summary. Bulletin Of The American Society For Information Science And Technology, 36, 42-45. http://doi.org/10.1002/bult.2010.1720360611
Xu, H., Ward, J. H., Conway, M., Rajasekar, A., & Moore, R. (2014). Building an extensible file system via policy-based data management. Proceedings of the 1st ACM International Workshop on Programmable file systems - PFSW 14. Vancouver, BC, Canada: ACM Press. http://doi.org/10.1145/2603941.2603943
Moore, R., & Anderson, W. L. (2010). ASIS\&T research data access and preservation summit: Conference summary. Bulletin Of The American Society For Information Science And Technology, 36, 42-45. http://doi.org/10.1002/bult.2010.1720360611
Chougule, K. M., Wang, L., Stein, J. C., Wang, X., Devisetty, U. K., Klein, R. R., & Ware, D. (2018). Improved RNA-seq Workflows Using CyVerse Cyberinfrastructure. Current Protocols In Bioinformatics, 63, e53. http://doi.org/10.1002/cpbi.53
Wang, L., Ware, D., Lushbough, C., Merchant, N., & Stein, L. (2014). A GWAS platform built on iPlant cyber-infrastructure. Bioinformatics. http://doi.org/10.1101/002881
Goff, S. A., Vaughn, M., McKay, S., Lyons, E., Stapleton, A. E., Gessler, D., et al. (2011). The iPlant Collaborative: Cyberinfrastructure for Plant Biology. Frontiers In Plant Science, 2. http://doi.org/10.3389/fpls.2011.00034
Chougule, K. M., Wang, L., Stein, J. C., Wang, X., Devisetty, U. K., Klein, R. R., & Ware, D. (2018). Improved RNA-seq Workflows Using CyVerse Cyberinfrastructure. Current Protocols In Bioinformatics, 63, e53. http://doi.org/10.1002/cpbi.53
Stein, J., Lu, J., Noutsos, C., Wang, L., Barthelson, R., Wei, F., et al. (2013). Biological Computing Using the iPlant Discovery Environment. Biological Computing Using the iPlant Discovery Environment. San Diego, CA.