2016 Publications

Afgan, E., Baker, D., van den Beek, M., Blankenberg, D., Bouvier, D., Čech, M., Chilton, J., Clements, D., Coraor, N., Eberhard, C., Grüning, B., Guerler, A., Hillman-Jackson, J., Von Kuster, G., Rasche, E., Soranzo, N., Turaga, N., Taylor, J., Nekrutenko, A., & Goecks, J. (2016). The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update. Nucleic Acids Research, 44(W1), W3–W10. https://doi.org/10.1093/nar/gkw343
Ahlgren, N. A., Ren, J., Lu, Y. Y., Fuhrman, J. A., & Sun, F. (2017). Alignment-free $d_2^*$ oligonucleotide frequency dissimilarity measure improves prediction of hosts from metagenomically-derived viral sequences. Nucleic Acids Research, 45(1), 39–53. https://doi.org/10.1093/nar/gkw1002
Alvi, Z. A., Chu, T.-C., Schawaroch, V., & Klaus, A. V. (2015). Genomic and expression analysis of transition proteins in Drosophila. Spermatogenesis, 5(3), e1178518. https://doi.org/10.1080/21565562.2016.1178518
An, N., Palmer, C. M., Baker, R. L., Markelz, R. J. C., Ta, J., Covington, M. F., Maloof, J. N., Welch, S. M., & Weinig, C. (2016). Plant high-throughput phenotyping using photogrammetry and imaging techniques to measure leaf length and rosette area. Computers and Electronics in Agriculture, 127, 376–394. https://doi.org/10.1016/j.compag.2016.04.002
Antequera, R. B., Calyam, P., Debroy, S., Cui, L., Seetharam, S., Dickinson, M., Joshi, T., Xu, D., & Beyene, T. (2018). ADON: Application-Driven Overlay Network-as-a-Service for Data-Intensive Science. IEEE Transactions on Cloud Computing, 6(3), 640–655. https://doi.org/10.1109/TCC.2015.2511753
Antin, P. (2016). Introducing CyVerse. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W242. https://pag.confex.com/pag/xxiv/webprogram/Paper21734.html
Ariani, A., Romeo, S., Groover, A. T., & Sebastiani, L. (2016). Comparative epigenomic and transcriptomic analysis of Populus roots under excess Zn. Environmental and Experimental Botany, 132, 16–27. https://doi.org/10.1016/j.envexpbot.2016.08.005
Augustine, R. C., York, S. L., Rytz, T. C., & Vierstra, R. D. (2016). Defining the SUMO System in Maize: SUMOylation Is Up-Regulated during Endosperm Development and Rapidly Induced by Stress. Plant Physiology, 171(3), 2191–2210. https://doi.org/10.1104/pp.16.00353
Bassi, F. M., Ghavami, F., Hayden, M. J., Wang, Y., Forrest, K. L., Kong, S., Dizon, R., Michalak de Jimenez, M. K., Meinhardt, S. W., Mergoum, M., Gu, Y. Q., & Kianian, S. F. (2016). Fast-forward genetics by radiation hybrids to saturate the locus regulating nuclear-cytoplasmic compatibility in Triticum. Plant Biotechnology Journal, 14(8), 1716–1726. https://doi.org/10.1111/pbi.12532
Belete, G. F., Voinov, A., & Laniak, G. F. (2017). An overview of the model integration process: From pre-integration assessment to testing. Environmental Modelling & Software, 87, 49–63. https://doi.org/10.1016/j.envsoft.2016.10.013
Billah, M. M., Goodall, J. L., Narayan, U., Essawy, B. T., Lakshmi, V., Rajasekar, A., & Moore, R. W. (2016). Using a data grid to automate data preparation pipelines required for regional-scale hydrologic modeling. Environmental Modelling & Software, 78, 31–39. https://doi.org/10.1016/j.envsoft.2015.12.010
Blank, C. E., Cui, H., Moore, L. R., & Walls, R. L. (2016). MicrO: An ontology of phenotypic and metabolic characters, assays, and culture media found in prokaryotic taxonomic descriptions. Journal of Biomedical Semantics, 7(1), 18. https://doi.org/10.1186/s13326-016-0060-6
Boerma, R., Wilson, R., & Ready, E. (2011). Soybean genomics research program strategic plan. The Plant Genome, 4(1), 1–11.
Bolduc, B., Youens-Clark, K., Roux, S., Hurwitz, B. L., & Sullivan, M. B. (2017). iVirus: Facilitating new insights in viral ecology with software and community data sets imbedded in a cyberinfrastructure. The ISME Journal, 11(1), 7–14. https://doi.org/10.1038/ismej.2016.89
Bombarely, A., Moser, M., Amrad, A., Bao, M., Bapaume, L., Barry, C. S., Bliek, M., Boersma, M. R., Borghi, L., Bruggmann, R., Bucher, M., D’Agostino, N., Davies, K., Druege, U., Dudareva, N., Egea-Cortines, M., Delledonne, M., Fernandez-Pozo, N., Franken, P., … Kuhlemeier, C. (2016). Insight into the evolution of the Solanaceae from the parental genomes of Petunia hybrida. Nature Plants, 2(6), 16074. https://doi.org/10.1038/nplants.2016.74
Bomhoff, M. (2016). Next-Gen Sequence Analysis in CoGe: Read Alignment, Expression Analysis, SNP Identification, and What’s to Come. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W411. https://pag.confex.com/pag/xxiv/webprogram/Paper18549.html
Brooks, C. F., Heidorn, P. B., Stahlman, G. R., & Chong, S. S. (2016). Working beyond the confines of academic discipline to resolve a real-world problem: A community of scientists discussing long-tail data in the cloud. First Monday, 21(2). https://doi.org/10.5210/fm.v21i2.6103
Brozynska, M. (2016). Genomic characterisation of Australian wild rice species.
Brozynska, M., Copetti, D., Furtado, A., Wing, R. A., Crayn, D., Fox, G., Ishikawa, R., & Henry, R. J. (2017). Sequencing of Australian wild rice genomes reveals ancestral relationships with domesticated rice. Plant Biotechnology Journal, 15(6), 765–774. https://doi.org/10.1111/pbi.12674
Brum, J. R., Ignacio-Espinoza, J. C., Kim, E.-H., Trubl, G., Jones, R. M., Roux, S., VerBerkmoes, N. C., Rich, V. I., & Sullivan, M. B. (2016). Illuminating structural proteins in viral “dark matter” with metaproteomics. Proceedings of the National Academy of Sciences, 113(9), 2436–2441. https://doi.org/10.1073/pnas.1525139113
Burris, J. N. (2016). Nanocomposite Adhesive of English ivy (Hedera helix): Bioproduction, Nanoparticle Isolation, and Molecular Analysis. University of Tennessee, Knoxville.
Buttigieg, P. L., Jensen, M., Walls, R. L., & Mungall, C. J. (2016). Environmental Semantics for Sustainable Development in an Interconnected Biosphere. ICBO/BioCreative.
Buttigieg, P. L., Pafilis, E., Lewis, S. E., Schildhauer, M. P., Walls, R. L., & Mungall, C. J. (2016). The environment ontology in 2016: Bridging domains with increased scope, semantic density, and interoperation. Journal of Biomedical Semantics, 7(1), 57. https://doi.org/10.1186/s13326-016-0097-6
Castelaanos, J. D. (2016). Integrated, Accurate and Multi-Environment Structural Variation Discovery from Whole Genome Sequencing Data with NGSEP. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, P19823. https://pag.confex.com/pag/xxiv/webprogram/Paper19823.html&hl=en&sa=X&scisig=AAGBfm3i-WWs8RbEKsfE3wC_E7X1PBXqGA&nossl=1&oi=scholaralrt
Center for Molecular Biology, Alabama A&M University, Normal AL, 35762, USA, & Tilahun, Y. (2016). Genome-wide transcriptome profiling of Gossypium spp. Roots during early growth after infection with Rotylenchulus reniformis. Plant Omics, 9(3), 198–204. https://doi.org/10.21475/poj.16.09.03.p7816
Chakrabarti, M., Dinkins, R. D., & Hunt, A. G. (2016). De novo Transcriptome Assembly and Dynamic Spatial Gene Expression Analysis in Red Clover. The Plant Genome, 9(2), 0. https://doi.org/10.3835/plantgenome2015.06.0048
Chard, K., Tuecke, S., & Foster, I. (2016). Globus: Recent Enhancements and Future Plans. Proceedings of the XSEDE16 on Diversity, Big Data, and Science at Scale - XSEDE16, 1–8. https://doi.org/10.1145/2949550.2949554
Church, P. C., & Goscinski, A. M. (2016). Data and data servers exposed as services integrated in a cloud. International Journal of Cloud Computing, 5(4), 264. https://doi.org/10.1504/IJCC.2016.080901
Cooper, L., Meier, A., Elser, J., Preece, J., Xu, X., Kitchen, R., Qu, B., Zhang, E., Todorovic, S., Jaiswal, P., & others. (2016). The Planteome Project. ICBO/BioCreative.
Cottingham, R. W. et al. (2016). The DOE Systems Biology Knowledgebase (KBase): Introduction to a System for Collaborative and Reproducible Inference and Modeling of Biological Function. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, P1278. https://pag.confex.com/pag/xxiv/webprogram/Paper19547.html
Coulter, E., Fischer, J., Hallock, B., Knepper, R., Lifka, D., Navarro, J., Pierce, M., & Stewart, C. (2016). Cyberinfrastructure as a Platform to Facilitate Effective Collaboration between Institutions and Support Collaboratories. Proceedings of the 2016 ACM on SIGUCCS Annual Conference - SIGUCCS ’16, 37–42. https://doi.org/10.1145/2974927.2974962
Cruz-Garcia, G. S., Struik, P. C., & Johnson, D. E. (2016). Wild harvest: Distribution and diversity of wild food plants in rice ecosystems of Northeast Thailand. NJAS - Wageningen Journal of Life Sciences, 78, 1–11. https://doi.org/10.1016/j.njas.2015.12.003
Cuevas, H. E., Zhou, C., Tang, H., Khadke, P. P., Das, S., Lin, Y.-R., Ge, Z., Clemente, T., Upadhyaya, H. D., Hash, C. T., & Paterson, A. H. (2016). The Evolution of Photoperiod-Insensitive Flowering in Sorghum, A Genomic Model for Panicoid Grasses. Molecular Biology and Evolution, 33(9), 2417–2428. https://doi.org/10.1093/molbev/msw120
Cutcher-Gershenfeld, J., Baker, K. S., Berente, N., Carter, D. R., DeChurch, L. A., Flint, C. C., Gershenfeld, G., Haberman, M., King, J. L., Kirkpatrick, C., Knight, E., Lawrence, B., Lewis, S., Lenhardt, W. C., Lopez, P., Mayernik, M. S., McElroy, C., Mittleman, B., Nichol, V., … Zaslavsky, I. (2016). Build It, But Will They Come? A Geoscience Cyberinfrastructure Baseline Analysis. Data Science Journal, 15(0), 8. https://doi.org/10.5334/dsj-2016-008
D’Agostino, D., Roverelli, L., Zereik, G., De Luca, A., Salvaterra, R., Belfiore, A., Lisini, G., Novara, G., & Tiengo, A. (2017). A microservice-based portal for X-ray transient and variable sources [Preprint]. PeerJ Preprints. https://doi.org/10.7287/peerj.preprints.2519v1
Davey, P. A., Pernice, M., Sablok, G., Larkum, A., Lee, H. T., Golicz, A., Edwards, D., Dolferus, R., & Ralph, P. (2016). The emergence of molecular profiling and omics techniques in seagrass biology; furthering our understanding of seagrasses. Functional & Integrative Genomics, 16(5), 465–480. https://doi.org/10.1007/s10142-016-0501-4
DeBarry, J. (2016a). How to do Big-Data Science—Data Management for Genomics. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W246. https://pag.confex.com/pag/xxiv/webprogram/Paper21738.html
DeBarry, J. (2016b). Integration of CoGe’s Data Services in iPlant. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W415. https://pag.confex.com/pag/xxiv/webprogram/Paper18554.html
Devisetty, U. K., Kennedy, K., Sarando, P., Merchant, N., & Lyons, E. (2016). Bringing your tools to CyVerse Discovery Environment using Docker. F1000Research, 5, 1442. https://doi.org/10.12688/f1000research.8935.1
Dill, C. (2016). Genomes to Fields (G2F). Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W585. https://pag.confex.com/pag/xxiv/webprogram/Paper21710.html
Dinkins, R. D., Nagabhyru, P., Graham, M. A., Boykin, D., & Schardl, C. L. (2017). Transcriptome response of Lolium arundinaceum to its fungal endophyte Epichloë coenophiala. New Phytologist, 213(1), 324–337. https://doi.org/10.1111/nph.14103
Dvorak, et al., Jan. (2016). Reference Sequence of the Genome of Aegilops tauschii, the Progenitor of the Wheat D Genome. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W972. https://pag.confex.com/pag/xxiv/webprogram/Paper20195.html
Engel, P., Kwong, W. K., McFrederick, Q., Anderson, K. E., Barribeau, S. M., Chandler, J. A., Cornman, R. S., Dainat, J., de Miranda, J. R., Doublet, V., Emery, O., Evans, J. D., Farinelli, L., Flenniken, M. L., Granberg, F., Grasis, J. A., Gauthier, L., Hayer, J., Koch, H., … Dainat, B. (2016). The Bee Microbiome: Impact on Bee Health and Model for Evolution and Ecology of Host-Microbe Interactions. MBio, 7(2), e02164-15, /mbio/7/2/e02164-15.atom. https://doi.org/10.1128/mBio.02164-15
Esteva, M., & Walls, R. (2017). Identifier services: Tracking objects and metadata across time and distributed storage systems. International Conference on Dublin Core and Metadata Applications, 85–86.
Farmer, A. D. (2016). The Legume Information System and The Legume Federation: Working Together for the Legume-Fed. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, C18. https://pag.confex.com/pag/xxiv/webprogram/Paper21325.html
Foster, I. (2016). Reasoning About Discovery Clouds. In F. Kordon & D. Moldt (Eds.), Application and Theory of Petri Nets and Concurrency (Vol. 9698, pp. 3–10). Springer International Publishing. https://doi.org/10.1007/978-3-319-39086-4_1
Foster, I., Chard, K., & Tuecke, S. (2016). The Discovery Cloud: Accelerating and Democratizing Research on a Global Scale. 2016 IEEE International Conference on Cloud Engineering (IC2E), 68–77. https://doi.org/10.1109/IC2E.2016.46
Freese, N. H., Norris, D. C., & Loraine, A. E. (2016). Integrated genome browser: Visual analytics platform for genomics. Bioinformatics, 32(14), 2089–2095. https://doi.org/10.1093/bioinformatics/btw069
Fritz-Waters, E. (2016). The iPlant Agave Application Program Interface, High Performance Computing, and You (the COmputationally Competent). Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W245. https://pag.confex.com/pag/xxiv/webprogram/Paper21735.html
Furfaro, R., Linares, R., Gaylor, D., Jah, M., & Walls, R. (2016). Resident Space Object Characterization and Behavior Understanding via Machine Learning and Ontology-based Bayesian Networks. Advanced Maui Optical and Space Surveillance Tech. Conf.(AMOS).
Gardiner, et al, Jack. (2016). Data Management and Analysis Solutions for Maize Predictive Phenomics: A Partnership with the GxE Subgroup of the Genomes to Fields (G2F) Initiative. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, P0319. https://pag.confex.com/pag/xxiv/webprogram/Paper21167.html
Gardiner, L.-J., Bansept-Basler, P., Olohan, L., Joynson, R., Brenchley, R., Hall, N., O’Sullivan, D. M., & Hall, A. (2016). Mapping-by-sequencing in complex polyploid genomes using genic sequence capture: A case study to map yellow rust resistance in hexaploid wheat. The Plant Journal, 87(4), 403–419. https://doi.org/10.1111/tpj.13204
Gill, G., Haugen, R., Matzner, S., Barakat, A., & Siemens, D. (2016). Effect of Drought on Herbivore-Induced Plant Gene Expression: Population Comparison for Range Limit Inferences. Plants, 5(1), 13. https://doi.org/10.3390/plants5010013
Gnimpieba, E. Z., VanDiermen, M. S., Gustafson, S. M., Conn, B., & Lushbough, C. M. (2017). Bio-TDS: Bioscience query tool discovery system. Nucleic Acids Research, 45(D1), D1117–D1122. https://doi.org/10.1093/nar/gkw940
Goldsmith, G. R., Morueta-Holme, N., Sandel, B., Fitz, E. D., Fitz, S. D., Boyle, B., Casler, N., Engemann, K., Jørgensen, P. M., Kraft, N. J. B., McGill, B., Peet, R. K., Piel, W. H., Spencer, N., Svenning, J.-C., Thiers, B. M., Violle, C., Wiser, S. K., & Enquist, B. J. (2016). Plant-O-Matic: A dynamic and mobile guide to all plants of the Americas. Methods in Ecology and Evolution, 7(8), 960–965. https://doi.org/10.1111/2041-210X.12548
Goller, C. C. (2016). Sifting Through Metagenomes using the iPlant Discovery Environment. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W558. https://pag.confex.com/pag/xxiv/webprogram/Paper21872.html
Grossman, R. L., Heath, A., Murphy, M., Patterson, M., & Wells, W. (2016a). A Case for Data Commons: Towards Data Science as a Service. ArXiv:1604.02608 [Cs]. http://arxiv.org/abs/1604.02608
Grossman, R. L., Heath, A., Murphy, M., Patterson, M., & Wells, W. (2016b). A Case for Data Commons: Toward Data Science as a Service. Computing in Science & Engineering, 18(5), 10–20. https://doi.org/10.1109/MCSE.2016.92
Gunadi, A., Rushton, P. J., McHale, L. K., Gutek, A. H., & Finer, J. J. (2016). Characterization of 40 soybean (Glycine max) promoters, isolated from across 5 thematic gene groups. Plant Cell, Tissue and Organ Culture (PCTOC), 127(1), 145–160. https://doi.org/10.1007/s11240-016-1038-x
Gupta, S. K., Bencurova, E., Srivastava, M., Pahlavan, P., Balkenhol, J., & Dandekar, T. (2016). Improving Re-annotation of Annotated Eukaryotic Genomes. In K.-C. Wong (Ed.), Big Data Analytics in Genomics (pp. 171–195). Springer International Publishing. https://doi.org/10.1007/978-3-319-41279-5_5
Guralnick, R. P., Zermoglio, P. F., Wieczorek, J., LaFrance, R., Bloom, D., & Russell, L. (2016). The importance of digitized biocollections as a source of trait data and a new VertNet resource. Database, 2016, baw158. https://doi.org/10.1093/database/baw158
Hacker, T., & Dyke, S. (2017). Cyberinfrastructure to Empower Scientific Research. In A. Pollard, L. Castillo, L. Danaila, & M. Glauser (Eds.), Whither Turbulence and Big Data in the 21st Century? (pp. 483–495). Springer International Publishing. https://doi.org/10.1007/978-3-319-41217-7_26
Halse-Gramkow, M., Ernst, M., Rønsted, N., Dunn, R. R., & Saslis-Lagoudakis, C. H. (2016). Using evolutionary tools to search for novel psychoactive plants. Plant Genetic Resources, 14(4), 246–255. https://doi.org/10.1017/S1479262116000344
Hamilton, E. P., Kapusta, A., Huvos, P. E., Bidwell, S. L., Zafar, N., Tang, H., Hadjithomas, M., Krishnakumar, V., Badger, J. H., Caler, E. V., Russ, C., Zeng, Q., Fan, L., Levin, J. Z., Shea, T., Young, S. K., Hegarty, R., Daza, R., Gujja, S., … Coyne, R. S. (2016). Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome. ELife, 5, e19090. https://doi.org/10.7554/eLife.19090
Harris, S. (2016). Using DNA Barcoding and Educational Bioinformatics to Create Authentic Research Experiences for Science Students. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W556. https://pag.confex.com/pag/xxiv/webprogram/Paper21871.html
Haug-Baltzell, A., Males, J. R., Morzinski, K. M., Wu, Y.-L., Merchant, N., Lyons, E., & Close, L. M. (2016). High-contrast imaging in the cloud with klipReduce and Findr (G. Chiozzi & J. C. Guzman, Eds.; p. 99130F). https://doi.org/10.1117/12.2234095
Hendre, et al, Prasad. (2016). African Orphan Crops Consortium: A Global Partnership to Address Food and Nutritional Requirements in Africa through Genomics Applications. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, P1309. https://pag.confex.com/pag/xxiv/webprogram/Paper22498.html
Henzen, C., Mäs, S., Zander, F., Schroeder, M., & Bernard, L. (2016). Representing research collaborations and linking scientific project results in spatial data infrastructures by provenance information. Helsinki, Finland.
Herndon, N., Grau, E. S., Batra, I., Demurjian Jr., S. A., Vasquez-Gross, H. A., Staton, M. E., & Wegrzyn, J. L. (2016). CartograTree: Enabling landscape genomics for forest trees [Preprint]. PeerJ Preprints. https://doi.org/10.7287/peerj.preprints.2345v3
Heyduk, K., Stephens, J. D., Faircloth, B. C., & Glenn, T. C. (2016). Targeted DNA Region Re-sequencing. In A. M. Aransay & J. L. Lavín Trueba (Eds.), Field Guidelines for Genetic Experimental Designs in High-Throughput Sequencing (pp. 43–68). Springer International Publishing. https://doi.org/10.1007/978-3-319-31350-4_3
Hintsch, J., Görling, C., & Turowski, K. (2016). A Review of the Literature on Configuration Management Tools. CONF-IRM, 71.
Hoopen, P. ten, Walls, R. L., Cannon, E. K. S., Cochrane, G., Cole, J., Johnston, A., Karsch-Mizrachi, I., & Yilmaz, P. (2016). Plant specimen contextual data consensus. GigaScience, 5(1). https://doi.org/10.1093/gigascience/giw002
Howard-Varona, C., Roux, S., Dore, H., Solonenko, N. E., Holmfeldt, K., Markillie, L. M., Orr, G., & Sullivan, M. B. (2017). Regulation of infection efficiency in a globally abundant marine Bacteriodetes virus. The ISME Journal, 11(1), 284–295. https://doi.org/10.1038/ismej.2016.81
Hubbard, et al, Allen. (2016). fRNAkenseq: A Powered-by-iPlant RNA Sequencing Analysis Platform. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, P0358. https://pag.confex.com/pag/xxiv/webprogram/Paper19675.html
Hurwitz, B. L., Westveld, A. H., Brum, J. R., & Sullivan, M. B. (2014). Modeling ecological drivers in marine viral communities using comparative metagenomics and network analyses. Proceedings of the National Academy of Sciences, 111(29), 10714–10719. https://doi.org/10.1073/pnas.1319778111
Jamil, H. M. (2017). A Visual Interface for Querying Heterogeneous Phylogenetic Databases. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 14(1), 131–144. https://doi.org/10.1109/TCBB.2016.2520943
Janssen, S. J. C., Porter, C. H., Moore, A. D., Athanasiadis, I. N., Foster, I., Jones, J. W., & Antle, J. M. (2017). Towards a new generation of agricultural system data, models and knowledge products: Information and communication technology. Agricultural Systems, 155, 200–212. https://doi.org/10.1016/j.agsy.2016.09.017
Johnson, R. (2016). IPlantUK: Creating User Friendly RNA-Seq and Mapping by Sequencing Workflows. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, P1292. https://pag.confex.com/pag/xxiv/webprogram/Paper22479.html
Joshi, T., Wang, J., Zhang, H., Chen, S., Zeng, S., Xu, B., & Xu, D. (2017). The Evolution of Soybean Knowledge Base (SoyKB). In A. D. J. van Dijk (Ed.), Plant Genomics Databases (Vol. 1533, pp. 149–159). Springer New York. https://doi.org/10.1007/978-1-4939-6658-5_7
Joyce, B. L., Haug-Baltzell, A., Davey, S., Bomhoff, M., Schnable, J. C., & Lyons, E. (2016). FractBias: A graphical tool for assessing fractionation bias following polyploidy. Bioinformatics, btw666. https://doi.org/10.1093/bioinformatics/btw666
Kang, Y. (2016). An investigation of pelagophyte ecology [PhD Thesis]. The Graduate School, Stony Brook University: Stony Brook, NY.
Kim, B., Ali, T., Hosmer, S., & Krampis, K. (2016). Visual Omics Explorer (VOE): A cross-platform portal for interactive data visualization. Bioinformatics, 32(13), 2050–2052. https://doi.org/10.1093/bioinformatics/btw119
King abdulaziz University Jeddah SaudiArabia, D. of C. S., Ashraf, M. U., Fouz, F., & Alboraei Eassa, F. (2016). Empirical Analysis of HPC Using Different Programming Models. International Journal of Modern Education and Computer Science, 8(6), 27–34. https://doi.org/10.5815/ijmecs.2016.06.04
Kittelmann, M., Hawes, C., & Hughes, L. (2016). Serial block face scanning electron microscopy and the reconstruction of plant cell membrane systems: SBFSEM METHODS FOR PLANT CELLS. Journal of Microscopy, 263(2), 200–211. https://doi.org/10.1111/jmi.12424
Knecht, A. C., Campbell, M. T., Caprez, A., Swanson, D. R., & Walia, H. (2016). Image Harvest: An open-source platform for high-throughput plant image processing and analysis. Journal of Experimental Botany, 67(11), 3587–3599. https://doi.org/10.1093/jxb/erw176
König, C., Weigelt, P., & Kreft, H. (2017). Dissecting global turnover in vascular plants: Global turnover in vascular plants. Global Ecology and Biogeography, 26(2), 228–242. https://doi.org/10.1111/geb.12536
Koureas, D., Hardisty, A., Vos, R., Agosti, D., Arvanitidis, C., Bogatencov, P., Buttigieg, P. L., de Jong, Y., Horvath, F., Gkoutos, G., Groom, Q., Kliment, T., Kõljalg, U., Manakos, I., Marcer, A., Marhold, K., Morse, D., Mergen, P., Penev, L., … Smith, V. (2016). Unifying European Biodiversity Informatics (BioUnify). Research Ideas and Outcomes, 2, e7787. https://doi.org/10.3897/rio.2.e7787
Krishnakumar, et al, Vivek. (2016). Teaching Bioinformatics Data Analysis Using Cloud Computing Technology. Proceedings of Plant and Animal Genome Conference XXIV, January 9-13, 2016, San Diego, CA, W940. https://pag.confex.com/pag/xxiv/webprogram/Paper22324.html
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