2015 Publications

Albert, A., Auffret, A. G., Cosyns, E., Cousins, S. A. O., D’hondt, B., Eichberg, C., Eycott, A. E., Heinken, T., Hoffmann, M., Jaroszewicz, B., Malo, J. E., Mårell, A., Mouissie, M., Pakeman, R. J., Picard, M., Plue, J., Poschlod, P., Provoost, S., Schulze, K. A., & Baltzinger, C. (2015). Seed dispersal by ungulates as an ecological filter: A trait-based meta-analysis. Oikos, 124(9), 1109–1120. https://doi.org/10.1111/oik.02512
Albert, A., Mårell, A., Picard, M., & Baltzinger, C. (2015). Using basic plant traits to predict ungulate seed dispersal potential. Ecography, 38(5), 440–449. https://doi.org/10.1111/ecog.00709
Allahverdiyeva, Y., Battchikova, N., Brosché, M., Fujii, H., Kangasjärvi, S., Mulo, P., Mähönen, A. P., Nieminen, K., Overmyer, K., Salojärvi, J., & Wrzaczek, M. (2015). Integration of photosynthesis, development and stress as an opportunity for plant biology. New Phytologist, 208(3), 647–655. https://doi.org/10.1111/nph.13549
Antoni, A., & Kutztown, P. (n.d.). A Bioinformatics Approach to Systemic Lupus Erythematosus and Autoimmunity. Immunology 2011.
Bailey, D. (2015). Using iPlant Tools and Plastome Sequencing As a Springboard into Comparative Genomics: Plastome Organization and Sequence for the Mimosoid Legume Leucaena trichandra. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17194.html
Baldeck, C. A., Tupayachi, R., Sinca, F., Jaramillo, N., & Asner, G. P. (2016). Environmental drivers of tree community turnover in western Amazonian forests. Ecography, 39(11), 1089–1099. https://doi.org/10.1111/ecog.01575
Barker, M. S., Arrigo, N., Baniaga, A. E., Li, Z., & Levin, D. A. (2016). On the relative abundance of autopolyploids and allopolyploids. New Phytologist, 210(2), 391–398. https://doi.org/10.1111/nph.13698
Batllori, E., Ackerly, D. D., & Moritz, M. A. (2015). A minimal model of fire-vegetation feedbacks and disturbance stochasticity generates alternative stable states in grassland–shrubland–woodland systems. Environmental Research Letters, 10(3), 034018. https://doi.org/10.1088/1748-9326/10/3/034018
Berton, M. P., Fonseca, L. F. S., Gimenez, D. F. J., Utembergue, B. L., Cesar, A. S. M., Coutinho, L. L., de Lemos, M. V. A., Aboujaoude, C., Pereira, A. S. C., Silva, R. M. de O., Stafuzza, N. B., Feitosa, F. L. B., Chiaia, H. L. J., Olivieri, B. F., Peripolli, E., Tonussi, R. L., Gordo, D. M., Espigolan, R., Ferrinho, A. M., … Baldi, F. (2016). Gene expression profile of intramuscular muscle in Nellore cattle with extreme values of fatty acid. BMC Genomics, 17(1), 972. https://doi.org/10.1186/s12864-016-3232-y
Blonder, B., Nogués-Bravo, D., Borregaard, M. K., Donoghue, J. C., Jørgensen, P. M., Kraft, N. J. B., Lessard, J.-P., Morueta-Holme, N., Sandel, B., Svenning, J.-C., Violle, C., Rahbek, C., & Enquist, B. J. (2015). Linking environmental filtering and disequilibrium to biogeography with a community climate framework. Ecology, 96(4), 972–985. https://doi.org/10.1890/14-0589.1
Boyd, K., Highland, E., Misch, A., Hu, A., Reddy, S., & Putonti, C. (2015). Finding function in the unknown. 2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 1098–1099. https://doi.org/10.1109/BIBM.2015.7359834
Boyle, S. A., Thompson, C. L., Deluycker, A., Alvarez, S. J., Alvim, T. H. G., Aquino, R., Bezerra, B. M., Boubli, J. P., Bowler, M., Caselli, C. B., Chagas, R. R. D., Ferrari, S. F., Fontes, I. P., Gregory, T., Haugaasen, T., Heiduck, S., Hores, R., Lehman, S., de Melo, F. R., … Barnett, A. A. (2016). Geographic comparison of plant genera used in frugivory among the pitheciids Cacajao , Callicebus , Chiropotes , and Pithecia: Geographic Patterns in Pitheciid Frugivory. American Journal of Primatology, 78(5), 493–506. https://doi.org/10.1002/ajp.22422
Brum, J. R., Hurwitz, B. L., Schofield, O., Ducklow, H. W., & Sullivan, M. B. (2016). Seasonal time bombs: Dominant temperate viruses affect Southern Ocean microbial dynamics. The ISME Journal, 10(2), 437–449. https://doi.org/10.1038/ismej.2015.125
Brusslan, J. A. (2015). Large Dataset Analysis for Undergraduates: Discovery Environment, RNA-Seq and Leaf Senescence in< em> Arabidopsis thaliana</em>(Green Line). Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17290.html
Buckner, B. (2015). Introducing Undergraduate Students to Gene and Genome Structure through Gene Annotation. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17143.html
Buonaccorsi, V. (2015). Undergraduate Genomics Research through GCAT-SEEK: The Genome Consortium for Active Teaching Using Next-Generation Sequencing. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17140.html
Burnette, J. (2015a). DNA Subway Yellow and Blue Lines: TEs, Gene Discovery and DNA Barcoding. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17293.html
Burnette, J. (2015b). Transposable Elements, Gene Discovery, and DNA Barcoding (Yellow and Blue Lines). Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17292.html
Cahill, A. E., & Levinton, J. S. (2016). Genetic differentiation and reduced genetic diversity at the northern range edge of two species with different dispersal modes. Molecular Ecology, 25(2), 515–526. https://doi.org/10.1111/mec.13497
Campbell, M. T., Knecht, A. C., Berger, B., Brien, C. J., Wang, D., & Walia, H. (2015). Integrating Image-Based Phenomics and Association Analysis to Dissect the Genetic Architecture of Temporal Salinity Responses in Rice. Plant Physiology, 168(4), 1476–1489. https://doi.org/10.1104/pp.15.00450
Carson, J. et al. (2015). Leveraging iPlant Cyberinfrastructure for a New Data-Driven Research Community. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper15848.html
Chamala, S., García, N., Godden, G. T., Krishnakumar, V., Jordon-Thaden, I. E., Smet, R. D., Barbazuk, W. B., Soltis, D. E., & Soltis, P. S. (2015a). MarkerMiner 1.0: A New Application for Phylogenetic Marker Development Using Angiosperm Transcriptomes. Applications in Plant Sciences, 3(4), 1400115. https://doi.org/10.3732/apps.1400115
Chamala, S., García, N., Godden, G. T., Krishnakumar, V., Jordon-Thaden, I. E., Smet, R. D., Barbazuk, W. B., Soltis, D. E., & Soltis, P. S. (2015b). MarkerMiner 1.0: A New Application for Phylogenetic Marker Development Using Angiosperm Transcriptomes. Applications in Plant Sciences, 3(4), 1400115. https://doi.org/10.3732/apps.1400115
Chard, K., Lidman, M., McCollam, B., Bryan, J., Ananthakrishnan, R., Tuecke, S., & Foster, I. (2016). Globus Nexus: A Platform-as-a-Service provider of research identity, profile, and group management. Future Generation Computer Systems, 56, 571–583. https://doi.org/10.1016/j.future.2015.09.006
Chard, R., Chard, K., Bubendorfer, K., Lacinski, L., Madduri, R., & Foster, I. (2015). Cost-Aware Cloud Provisioning. 2015 IEEE 11th International Conference on E-Science, 136–144. https://doi.org/10.1109/eScience.2015.67
Charnigo R, T. K. (2015). Parallel Computing in Genome-Wide Association Studies. Journal of Biometrics & Biostatistics, 06(01). https://doi.org/10.4172/2155-6180.1000e131
Cheng, C.-Y., Erik Ferlanti, VIvek Krishnakumar, Maria Kim, Svetlana Karamycheva, Benjamin D. Rosen, Matt Hanlon, Steve Mock, Joe Stubbs, Walter Moreira, Rion Dooley, Sergio Contrino, Julie Sullivan, Alex Kalderimis, Gos Micklem, Jason R. Miller, Matt Vaughn, & Christopher D. Town. (2015). Data Integration for the Plant Research Community: The Arabidopsis Information Portal. Proceedings of Plant and Animal Genome XXIII. Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper16112.html
Chougule, K. (2015). Flash Demo: Atmosphere Cloud Computing—Applied to Visualizing RNA-Seq Data. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17300.html
Cooper, L., & Jaiswal, P. (2016). The Plant Ontology: A Tool for Plant Genomics. In D. Edwards (Ed.), Plant Bioinformatics (Vol. 1374, pp. 89–114). Springer New York. https://doi.org/10.1007/978-1-4939-3167-5_5
Cottingham, R. W. et al. (2015). The DOE Systems Biology Knowledgebase: Progress Toward a System for Collaborative and Reproducible Inference and Modeling of Biological Function in Plant Research. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper16317.html
Council, N. R., & others. (2015). Enhancing the effectiveness of team science. National Academies Press.
da Silva, R. F., Juve, G., Rynge, M., Deelman, E., & Livny, M. (2015). Online Task Resource Consumption Prediction for Scientific Workflows. Parallel Processing Letters, 25(03), 1541003. https://doi.org/10.1142/S0129626415410030
Darwish, O., Shahan, R., Liu, Z., Slovin, J. P., & Alkharouf, N. W. (2015). Re-annotation of the woodland strawberry (Fragaria vesca) genome. BMC Genomics, 16(1), 29. https://doi.org/10.1186/s12864-015-1221-1
Das, A., Schneider, H., Burridge, J., Ascanio, A. K. M., Wojciechowski, T., Topp, C. N., Lynch, J. P., Weitz, J. S., & Bucksch, A. (2015). Digital imaging of root traits (DIRT): A high-throughput computing and collaboration platform for field-based root phenomics. Plant Methods, 11(1), 51. https://doi.org/10.1186/s13007-015-0093-3
Das, S., Pitts, N. L., Mudron, M. R., Durica, D. S., & Mykles, D. L. (2016). Transcriptome analysis of the molting gland (Y-organ) from the blackback land crab, Gecarcinus lateralis. Comparative Biochemistry and Physiology Part D: Genomics and Proteomics, 17, 26–40. https://doi.org/10.1016/j.cbd.2015.11.003
Dash, S., Campbell, J. D., Cannon, E. K. S., Cleary, A. M., Huang, W., Kalberer, S. R., Karingula, V., Rice, A. G., Singh, J., Umale, P. E., Weeks, N. T., Wilkey, A. P., Farmer, A. D., & Cannon, S. B. (2016). Legume information system (LegumeInfo.org): A key component of a set of federated data resources for the legume family. Nucleic Acids Research, 44(D1), D1181–D1188. https://doi.org/10.1093/nar/gkv1159
Deans, A. R., Lewis, S. E., Huala, E., Anzaldo, S. S., Ashburner, M., Balhoff, J. P., Blackburn, D. C., Blake, J. A., Burleigh, J. G., Chanet, B., Cooper, L. D., Courtot, M., Csösz, S., Cui, H., Dahdul, W., Das, S., Dececchi, T. A., Dettai, A., Diogo, R., … Mabee, P. (2015). Finding Our Way through Phenotypes. PLoS Biology, 13(1), e1002033. https://doi.org/10.1371/journal.pbio.1002033
DeBarry, J. (2015). Flash Demo: Secure, Collaborative, Management of Your Life Sciences Data with the Data Store. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17299.html
Deck, J., Guralnick, R., Walls, R., Blum, S., Haendel, M., Matsunaga, A., & Wieczorek, J. (2015). Meeting report: Identifying practical applications of ontologies for biodiversity informatics. Standards in Genomic Sciences, 10(1), 25. https://doi.org/10.1186/s40793-015-0014-0
Deng, J., Drew, B. T., Mavrodiev, E. V., Gitzendanner, M. A., Soltis, P. S., & Soltis, D. E. (2015). Phylogeny, divergence times, and historical biogeography of the angiosperm family Saxifragaceae. Molecular Phylogenetics and Evolution, 83, 86–98. https://doi.org/10.1016/j.ympev.2014.11.011
Devisetty, U. K. (2015). A Hybrid Approach to Assemble and Annotate the Brassica rapa Transcriptome in the Cloud through the iPlant Collaborative and XSEDE. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17195.html
Dhanapal, A. P., & Govindaraj, M. (2015). Unlimited thirst for genome sequencing, data interpretation, and database usage in genomic era: The road towards fast-track crop plant improvement. Genetics Research International, 2015.
Docherty, K. M., Borton, H. M., Espinosa, N., Gebhardt, M., Gil-Loaiza, J., Gutknecht, J. L. M., Maes, P. W., Mott, B. M., Parnell, J. J., Purdy, G., Rodrigues, P. A. P., Stanish, L. F., Walser, O. N., & Gallery, R. E. (2015). Key Edaphic Properties Largely Explain Temporal and Geographic Variation in Soil Microbial Communities across Four Biomes. PLOS ONE, 10(11), e0135352. https://doi.org/10.1371/journal.pone.0135352
Doughty, C. E., Wolf, A., Morueta-Holme, N., Jørgensen, P. M., Sandel, B., Violle, C., Boyle, B., Kraft, N. J. B., Peet, R. K., Enquist, B. J., Svenning, J.-C., Blake, S., & Galetti, M. (2016). Megafauna extinction, tree species range reduction, and carbon storage in Amazonian forests. Ecography, 39(2), 194–203. https://doi.org/10.1111/ecog.01587
Dudhagara, P., Bhavsar, S., Bhagat, C., Ghelani, A., Bhatt, S., & Patel, R. (2015). Web Resources for Metagenomics Studies. Genomics, Proteomics & Bioinformatics, 13(5), 296–303. https://doi.org/10.1016/j.gpb.2015.10.003
Dvorak, J. et al. (2015). BAC-Based Sequencing of the Aegilops tauschii Genome. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper13960.html
Eastmond, P. J., Astley, H. M., Parsley, K., Aubry, S., Williams, B. P., Menard, G. N., Craddock, C. P., Nunes-Nesi, A., Fernie, A. R., & Hibberd, J. M. (2015). Arabidopsis uses two gluconeogenic gateways for organic acids to fuel seedling establishment. Nature Communications, 6(1), 6659. https://doi.org/10.1038/ncomms7659
Engemann, K., Enquist, B. J., Sandel, B., Boyle, B., Jørgensen, P. M., Morueta-Holme, N., Peet, R. K., Violle, C., & Svenning, J.-C. (2015). Limited sampling hampers “big data” estimation of species richness in a tropical biodiversity hotspot. Ecology and Evolution, 5(3), 807–820. https://doi.org/10.1002/ece3.1405
Engemann, K., Sandel, B., Enquist, B. J., Jørgensen, P. M., Kraft, N., Marcuse-Kubitza, A., McGill, B., Morueta-Holme, N., Peet, R. K., Violle, C., Wiser, S., & Svenning, J.-C. (2016). Patterns and drivers of plant functional group dominance across the Western Hemisphere: A macroecological re-assessment based on a massive botanical dataset. Botanical Journal of the Linnean Society, 180(2), 141–160. https://doi.org/10.1111/boj.12362
Etemadpour, R., Bomhoff, M., Lyons, E., Murray, P., & Forbes, A. (2015). Designing and evaluating scientific workflows for big data interactions. 2015 Big Data Visual Analytics (BDVA), 1–8.
Fahlgren, N., Gehan, M. A., & Baxter, I. (2015). Lights, camera, action: High-throughput plant phenotyping is ready for a close-up. Current Opinion in Plant Biology, 24, 93–99. https://doi.org/10.1016/j.pbi.2015.02.006
Fischer, J., Tuecke, S., Foster, I., & Stewart, C. A. (2015). Jetstream: A distributed cloud infrastructure for underresourced higher education communities. Proceedings of the 1st Workshop on The Science of Cyberinfrastructure: Research, Experience, Applications and Models, 53–61.
Flis, A., Fernández, A. P., Zielinski, T., Mengin, V., Sulpice, R., Stratford, K., Hume, A., Pokhilko, A., Southern, M. M., Seaton, D. D., McWatters, H. G., Stitt, M., Halliday, K. J., & Millar, A. J. (2015). Defining the robust behaviour of the plant clock gene circuit with absolute RNA timeseries and open infrastructure. Open Biology, 5(10), 150042. https://doi.org/10.1098/rsob.150042
Fox, G. C., Qiu, J., Kamburugamuve, S., Jha, S., & Luckow, A. (2015). HPC-ABDS High Performance Computing Enhanced Apache Big Data Stack. 2015 15th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing, 1057–1066. https://doi.org/10.1109/CCGrid.2015.122
Gardiner, J., Darwin Campbell, & Carolyn J. Lawrence-Dill. (2015). Identification and Development of Data Standards for Maize Field Phenotypic Measurements: Working with the GxE Subgroup of ht eGenomes2Fields Initiative. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper15771.html
Gardiner, L.-J., Quinton-Tulloch, M., Olohan, L., Price, J., Hall, N., & Hall, A. (2015). A genome-wide survey of DNA methylation in hexaploid wheat. Genome Biology, 16(1), 273. https://doi.org/10.1186/s13059-015-0838-3
Gesing, S., Connor, T. R., & Taylor, I. (2015). Genomics and Biological Big Data: Facing Current and Future Challenges around Data and Software Sharing and Reproducibility. ArXiv:1511.02689 [Cs]. http://arxiv.org/abs/1511.02689
Gesing, S., Dooley, R., Pierce, M., Kruger, J., Grunzke, R., Herres-Pawlis, S., & Hoffmann, A. (2015). Science gateways—Leveraging modeling and simulations in HPC infrastructures via increased usability. 2015 International Conference on High Performance Computing & Simulation (HPCS), 19–26. https://doi.org/10.1109/HPCSim.2015.7237017
Goggin, F. L., Lorence, A., & Topp, C. N. (2015). Applying high-throughput phenotyping to plant–insect interactions: Picturing more resistant crops. Current Opinion in Insect Science, 9, 69–76. https://doi.org/10.1016/j.cois.2015.03.002
González, E. M., Larrainzar, E., Marino, D., Wienkoop, S., Gil-Quintana, E., & Arrese-Igor, C. (2015). Physiological Responses of N2-Fixing Legumes to Water Limitation. In S. Sulieman & L.-S. P. Tran (Eds.), Legume Nitrogen Fixation in a Changing Environment (pp. 5–33). Springer International Publishing. https://doi.org/10.1007/978-3-319-06212-9_2
Goring, S., Dawson, A., Simpson, G. L., Ram, K., Graham, R. W., Grimm, E. C., & Williams, J. W. (2015). neotoma: A Programmatic Interface to the Neotoma Paleoecological Database. Open Quaternary, 1. https://doi.org/10.5334/oq.ab
Goscinski, A., & Church, P. (2015). Clouds for Masses—Toward Ubiquitous and Transparent Clouds. 2015 IEEE 8th International Conference on Cloud Computing, 1141–1148. https://doi.org/10.1109/CLOUD.2015.168
Gray, J., Burdo, B., Goetting-Minesky, M., Wittler, B., Hunt, M., Li, T., Velliquette, D., Thomas, J., Agarwal, T., Key, K., & others. (2015). Protocol for the generation of a transcription factor open reading frame collection (TFome). Bio-Protocol, 5(15), e15.
Guralnick, R. P., Cellinese, N., Deck, J., Pyle, R. L., Kunze, J., Penev, L., Walls, R., Hagedorn, G., Agosti, D., Wieczorek, J., Catapano, T., & Page, R. (2015). Community Next Steps for Making Globally Unique Identifiers Work for Biocollections Data. ZooKeys, 494, 133–154. https://doi.org/10.3897/zookeys.494.9352
Hanlon, M. R., Vaughn, M., Mock, S., Dooley, R., Moreira, W., Stubbs, J., Town, C., Miller, J., Krishnakumar, V., Ferlanti, E., & Pence, E. (2015). Araport: An application platform for data discovery: Araport: an application platform for data discovery. Concurrency and Computation: Practice and Experience, 27(16), 4412–4422. https://doi.org/10.1002/cpe.3542
Hanssen, F., Heggberget, T., Bladt, J., Endresen, D., Forsius, M., Gudmundsson, G., Gärdenfors, U., Heiðmarsson, S., Kindvall, O., Koch, W., Koviula, K., Laiho, E. L., Laine, K., Obst, M., Skov, F., Telenius, A., Vallan, N., Wasowicz, P., & Wremp, A. M. (2014). Nordic LifeWatch Cooperation. Final report.
Harper, L. et al. (2015). An Ontology Approach to Comparative Phenomics in the Plants: Arabidopsis, Tomato, Maize, Rice, Soybean and Medicago. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper15793.html
Hart, M., Rast, R., Jefferies, S., & Hope, D. (2015). Resolved observations of geostationary satellites from the 6.5 m MMT. Proc. AMOS Technical Conference, Ed. S. Ryan.
Haug-Baltzell, A., Jarvis, E. D., McCarthy, F. M., & Lyons, E. (2015). Identification of dopamine receptors across the extant avian family tree and analysis with other clades uncovers a polyploid expansion among vertebrates. Frontiers in Neuroscience, 9. https://doi.org/10.3389/fnins.2015.00361
Haug-Baltzell, Asher K. ,. Eric Lyons, Fiona McCarthy, & Dopamine, E. J. A. (2015). Receptors DRD1a and DRD1b Arise from an Ancient Vertebrate Whole Genome Duplication. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper16214.html
Heiland, R., Koranda, S., Marru, S., Pierce, M., & Welch, V. (2015). Authentication and Authorization Considerations for a Multi-tenant Service. Proceedings of the 1st Workshop on The Science of Cyberinfrastructure Research, Experience, Applications and Models - SCREAM ’15, 29–35. https://doi.org/10.1145/2753524.2753534
Horvath, D., Anderson, J. V., Chao, W. S., Foley, M. E., & Doğramaci, M. (2015). Leafy Spurge Genomics: A Model Perennial Weed to Investigate Development, Stress Responses, and Invasiveness. In Advances in the Understanding of Biological Sciences Using Next Generation Sequencing (NGS) Approaches (pp. 63–78). Springer.
Horvath, D. P., Hansen, S. A., Moriles-Miller, J. P., Pierik, R., Yan, C., Clay, D. E., Scheffler, B., & Clay, S. A. (2015). RNAseq reveals weed-induced PIF3-like as a candidate target to manipulate weed stress response in soybean. New Phytologist, 207(1), 196–210. https://doi.org/10.1111/nph.13351
Huala, E. et al. (2015). Flash Talk: An Ontology Approach to Comparative Phenomics in Plants. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17309.html
Huang, X., Jennings, S. F., Bruce, B., Buchan, A., Cai, L., Chen, P., Cramer, C. L., Guan, W., Hilgert, U. K., Jiang, H., Li, Z., McClure, G., McMullen, D. F., Nanduri, B., Perkins, A., Rekepalli, B., Salem, S., Specker, J., Walker, K., … Moore, J. H. (2015). Big data - a 21st century science Maginot Line? No-boundary thinking: shifting from the big data paradigm. BioData Mining, 8(1), 7. https://doi.org/10.1186/s13040-015-0037-5
Huck, P., Jain, A., Gunter, D., Winston, D., & Persson, K. (2015). A Community Contribution Framework for Sharing Materials Data with Materials Project. 2015 IEEE 11th International Conference on E-Science, 535–541. https://doi.org/10.1109/eScience.2015.75
Jaiswal, P., & Usadel, B. (2016). Plant Pathway Databases. In D. Edwards (Ed.), Plant Bioinformatics (Vol. 1374, pp. 71–87). Springer New York. https://doi.org/10.1007/978-1-4939-3167-5_4
James, D., McLay, R., Liu, S., Evans, R. T., Barth, W. L., Lamas-Linares, A., Budiardja, R., & Fahey, M. (2015). Tales from the trenches: Can user support tools make a difference? Proceedings of the Second International Workshop on HPC User Support Tools - HUST ’15, 1–11. https://doi.org/10.1145/2834996.2834998
Jazayeri, S. M., Melgarejo-Muñoz, L. M., & Romero, H. M. (2014). RNA-SEQ: A GLANCE AT TECHNOLOGIES AND METHODOLOGIES. Acta Biológica Colombiana, 20(2). https://doi.org/10.15446/abc.v20n2.43639
Jonquet, C., Dzalé-Yeumo, E., Arnaud, E., & Larmande, P. (2015). AgroPortal: A proposition for ontology-based services in the agronomic domain. IN-OVIVE’15: 3ème Atelier INtégration de Sources/Masses de Données Hétérogènes et Ontologies, Dans Le Domaine Des Sciences Du VIVant et de l’Environnement.
Jordan, C., Walling, D., Xu, W., Mock, S. A., Gaffney, N., & Stanzione, D. (2015). Wrangler’s user environment: A software framework for management of data-intensive computing system. 2015 IEEE International Conference on Big Data (Big Data), 2479–2486. https://doi.org/10.1109/BigData.2015.7364043
Kelly, D., Vatsa, A., Mayham, W., & Kazic, T. (2016). Extracting complex lesion phenotypes in Zea mays. Machine Vision and Applications, 27(1), 145–156. https://doi.org/10.1007/s00138-015-0718-6
Kelly, D., Vatsa, A., Mayham, W., Ngô, L., Thompson, A., & Kazic, T. (2016). An opinion on imaging challenges in phenotyping field crops. Machine Vision and Applications, 27(5), 681–694. https://doi.org/10.1007/s00138-015-0728-4
Köhl, K., & Gremmels, J. (2015). A software tool for the input and management of phenotypic data using personal digital assistants and other mobile devices. Plant Methods, 11(1), 25. https://doi.org/10.1186/s13007-015-0069-3
Krampis, K., & Wultsch, C. (2015). A Review of Cloud Computing Bioinformatics Solutions for Next-Gen Sequencing Data Analysis and Research. Methods in Next Generation Sequencing, 2(1). https://doi.org/10.1515/mngs-2015-0003
Lapatas, V., Stefanidakis, M., Jimenez, R. C., Via, A., & Schneider, M. V. (2015). Data integration in biological research: An overview. Journal of Biological Research-Thessaloniki, 22(1), 9. https://doi.org/10.1186/s40709-015-0032-5
Lewis, R., & Hartman, J. H. (2015). Accordion: Multi-scale recipes for adaptive detection of duplication. 7th ${$USENIX$}$ Workshop on Hot Topics in Storage and File Systems (HotStorage 15).
Li, J., Hou, J., Sun, L., Wilkins, J. M., Lu, Y., Niederhuth, C. E., Merideth, B. R., Mawhinney, T. P., Mossine, V. V., Greenlief, C. M., Walker, J. C., Folk, W. R., Hannink, M., Lubahn, D. B., Birchler, J. A., & Cheng, J. (2015). From Gigabyte to Kilobyte: A Bioinformatics Protocol for Mining Large RNA-Seq Transcriptomics Data. PLOS ONE, 10(4), e0125000. https://doi.org/10.1371/journal.pone.0125000
Li, Q., Song, J., West, P. T., Zynda, G., Eichten, S. R., Vaughn, M. W., & Springer, N. M. (2015). Examining the Causes and Consequences of Context-Specific Differential DNA Methylation in Maize. Plant Physiology, 168(4), 1262–1274. https://doi.org/10.1104/pp.15.00052
Lin, T., Lashbrook, C. C., Cho, S. K., Butler, N. M., Sharma, P., Muppirala, U., Severin, A. J., & Hannapel, D. J. (2015). Transcriptional analysis of phloem-associated cells of potato. BMC Genomics, 16(1), 665. https://doi.org/10.1186/s12864-015-1844-2
Liu, H., Niu, Y., Gonzalez-Portilla, P. J., Zhou, H., Wang, L., Zuo, T., Qin, C., Tai, S., Jansen, C., Shen, Y., Lin, H., Lee, M., Ware, D., Zhang, Z., Lübberstedt, T., & Pan, G. (2015). An ultra-high-density map as a community resource for discerning the genetic basis of quantitative traits in maize. BMC Genomics, 16(1), 1078. https://doi.org/10.1186/s12864-015-2242-5
Liu, L., Ramsay, T., Zinkgraf, M., Sundell, D., Street, N. R., Filkov, V., & Groover, A. (2015). A resource for characterizing genome-wide binding and putative target genes of transcription factors expressed during secondary growth and wood formation in Populus. The Plant Journal, 82(5), 887–898. https://doi.org/10.1111/tpj.12850
Lyu, M.-J. A., Gowik, U., Kelly, S., Covshoff, S., Mallmann, J., Westhoff, P., Hibberd, J. M., Stata, M., Sage, R. F., Lu, H., Wei, X., Wong, G. K.-S., & Zhu, X.-G. (2015). RNA-Seq based phylogeny recapitulates previous phylogeny of the genus Flaveria (Asteraceae) with some modifications. BMC Evolutionary Biology, 15(1), 116. https://doi.org/10.1186/s12862-015-0399-9
Macías-Duarte, A., & Conway, C. J. (2015a). Spatial patterns in hydrogen isotope ratios in feathers of Burrowing Owls from western North America. The Auk, 132(1), 25–36. https://doi.org/10.1642/AUK-13-061.1
Macías-Duarte, A., & Conway, C. J. (2015b). Distributional Changes in the Western Burrowing Owl ( Athene cunicularia hypugaea ) in North America from 1967 to 2008. Journal of Raptor Research, 49(1), 75–83. https://doi.org/10.3356/JRR-14-00004.1
Madduri, R., Chard, K., Chard, R., Lacinski, L., Rodriguez, A., Sulakhe, D., Kelly, D., Dave, U., & Foster, I. (2015). The Globus Galaxies platform: Delivering science gateways as a service. Concurrency and Computation: Practice and Experience, 27(16), 4344–4360.
Makarevitch, I. (2015). Bringing Authentic Genomics Research into the Classroom: Analysis of Maize Stress Response (Green Line). Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17287.html
Marques, A., Ribeiro, T., Neumann, P., Macas, J., Novák, P., Schubert, V., Pellino, M., Fuchs, J., Ma, W., Kuhlmann, M., Brandt, R., Vanzela, A. L. L., Beseda, T., Šimková, H., Pedrosa-Harand, A., & Houben, A. (2015). Holocentromeres in Rhynchospora are associated with genome-wide centromere-specific repeat arrays interspersed among euchromatin. Proceedings of the National Academy of Sciences, 112(44), 13633–13638. https://doi.org/10.1073/pnas.1512255112
Marru, S., Pierce, M., Pamidighantam, S., & Wimalasena, C. (2015). Apache Airavata as a Laboratory: Architecture and Case Study for Component-Based Gateway Middleware. Proceedings of the 1st Workshop on The Science of Cyberinfrastructure Research, Experience, Applications and Models - SCREAM ’15, 19–26. https://doi.org/10.1145/2753524.2753529
McCarthy, F. (2015). Functional Analysis of Your RNAseq Data. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper16866.html
McGregor, A., Bennett, D., Majumdar, S., Nandy, B., Melendez, J. O., St-Hilaire, M., Lau, D., & Liu, J. (2015). A Cloud-Based Platform for Supporting Research Collaboration. 2015 IEEE 8th International Conference on Cloud Computing, 1107–1110. https://doi.org/10.1109/CLOUD.2015.162
Michaletz, S. T., Weiser, M. D., Zhou, J., Kaspari, M., Helliker, B. R., & Enquist, B. J. (2015). Plant Thermoregulation: Energetics, Trait–Environment Interactions, and Carbon Economics. Trends in Ecology & Evolution, 30(12), 714–724. https://doi.org/10.1016/j.tree.2015.09.006
Micklos, D. (2015a). Simplifying Genome Annotation and Examples of Large-Scale Projects in DNA Barcoding (Red and Blue Lines). Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17295.html
Micklos, D. (2015b). Using Students’ Own DNA Sequences to Explore Human Evolution. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17141.html
Mikheyev, A. S., & Arora, J. (2015). Using experimental evolution and next-generation sequencing to teach bench and bioinformatic skills [Preprint]. PeerJ PrePrints. https://doi.org/10.7287/peerj.preprints.1356v1
Minervini, M., Fischbach, A., Scharr, H., & Tsaftaris, S. A. (2016). Finely-grained annotated datasets for image-based plant phenotyping. Pattern Recognition Letters, 81, 80–89. https://doi.org/10.1016/j.patrec.2015.10.013
Minervini, M., Giuffrida, M. V., & Tsaftaris, S. A. (2016). An interactive tool for semi-automated leaf annotation. Proceedings of BMVC 2015.
Minervini, M., Scharr, H., & Tsaftaris, S. A. (2015). Image Analysis: The New Bottleneck in Plant Phenotyping [Applications Corner]. IEEE Signal Processing Magazine, 32(4), 126–131. https://doi.org/10.1109/MSP.2015.2405111
Ming, R., VanBuren, R., Wai, C. M., Tang, H., Schatz, M. C., Bowers, J. E., Lyons, E., Wang, M.-L., Chen, J., Biggers, E., Zhang, J., Huang, L., Zhang, L., Miao, W., Zhang, J., Ye, Z., Miao, C., Lin, Z., Wang, H., … Yu, Q. (2015). The pineapple genome and the evolution of CAM photosynthesis. Nature Genetics, 47(12), 1435–1442. https://doi.org/10.1038/ng.3435
Morajkar, S., Sajeev, S., & Hegde, S. (2015). A DNA Barcode for stenochlaena palustris: An edible medicinal fern. Indian Fern J, 32, 124–131.
Morueta-Holme, N., Blonder, B., Sandel, B., McGill, B. J., Peet, R. K., Ott, J. E., Violle, C., Enquist, B. J., Jørgensen, P. M., & Svenning, J.-C. (2016). A network approach for inferring species associations from co-occurrence data. Ecography, 39(12), 1139–1150. https://doi.org/10.1111/ecog.01892
Nelson, A. D. et al. (2015). Utilizing iPlant to Unearth Long Non-Coding RNAs and Characterize Their Evolution in the Plant Family Brassicaceae. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper16865.html
Noutsos, C., Perera, A. M., Nikolau, B. J., Seaver, S. M. D., & Ware, D. H. (2015). Metabolomic Profiling of the Nectars of Aquilegia pubescens and A. Canadensis. PLOS ONE, 10(5), e0124501. https://doi.org/10.1371/journal.pone.0124501
Nwakanma, C., Ude, G., & Unachukwu, M. (2015). and www.biotechsocietynigeria.org DOI: Http://dx.doi.org/10.4314/njb.v29i1.4 The Use of DNA Barcoding in Identification of Genetic Diversity of Fish in Ugwu-Omu Nike River in Enugu. Nigerian Journal of Biotechnology, 29(1), 27. https://doi.org/10.4314/njb.v29i1.4
Oellrich, A., Walls, R. L., Cannon, E., Cannon, S. B., Cooper, L., Gardiner, J., Gkoutos, G. V., Harper, L., He, M., Hoehndorf, R., Jaiswal, P., Kalberer, S. R., Lloyd, J. P., Meinke, D., Menda, N., Moore, L., Nelson, R. T., Pujar, A., Lawrence, C. J., & Huala, E. (2015). An ontology approach to comparative phenomics in plants. Plant Methods, 11(1), 10. https://doi.org/10.1186/s13007-015-0053-y
Ohyanagi, H., Obayashi, T., & Yano, K. (2015). Editorial: Plant and Cell Physiology’s 2015 Database Issue. Plant and Cell Physiology, 56(1), 4–6. https://doi.org/10.1093/pcp/pcu206
Ostria-Gallardo, E., Ranjan, A., Chitwood, D. H., Kumar, R., Townsley, B. T., Ichihashi, Y., Corcuera, L. J., & Sinha, N. R. (2016). Transcriptomic analysis suggests a key role for SQUAMOSA PROMOTER BINDING PROTEIN LIKE , NAC and YUCCA genes in the heteroblastic development of the temperate rainforest tree Gevuina avellana (Proteaceae). New Phytologist, 210(2), 694–708. https://doi.org/10.1111/nph.13776
Parmentier, B., McGill, B. J., Wilson, A. M., Regetz, J., Jetz, W., Guralnick, R., Tuanmu, M.-N., & Schildhauer, M. (2015). Using multi-timescale methods and satellite-derived land surface temperature for the interpolation of daily maximum air temperature in Oregon: INTERPOLATING DAILY TEMPERATURE WITH LAND SURFACE TEMPERATURE. International Journal of Climatology, 35(13), 3862–3878. https://doi.org/10.1002/joc.4251
Peterson, M., Malloy, J., Buonaccorsi, V., & Marden, J. (2015). Teaching RNAseq at undergraduate institutions: A tutorial and R package from the Genome Consortium for Active Teaching. CourseSource. Doi: Https://Doi. Org/10.24918/Cs.
Reed, D., Barr, W. A., Mcpherron, S. P., Bobe, R., Geraads, D., Wynn, J. G., & Alemseged, Z. (2015). Digital data collection in paleoanthropology: Digital Data Collection in Paleoanthropology. Evolutionary Anthropology: Issues, News, and Reviews, 24(6), 238–249. https://doi.org/10.1002/evan.21466
Richards, S. (2015). It’s more than stamp collecting: How genome sequencing can unify biological research. Trends in Genetics, 31(7), 411–421. https://doi.org/10.1016/j.tig.2015.04.007
Rocca-Serra, P., Walls, R., Parnell, J., Gallery, R., Zheng, J., Sansone, S.-A., & Gonzalez-Beltran, A. (2015). Modeling a microbial community and biodiversity assay with OBO Foundry ontologies: The interoperability gains of a modular approach. Database, 2015(0), bau132–bau132. https://doi.org/10.1093/database/bau132
Roux, S., Enault, F., Hurwitz, B. L., & Sullivan, M. B. (2015). VirSorter: Mining viral signal from microbial genomic data. PeerJ, 3, e985. https://doi.org/10.7717/peerj.985
Roux, S., Hallam, S. J., Woyke, T., & Sullivan, M. B. (2015). Viral dark matter and virus–host interactions resolved from publicly available microbial genomes. ELife, 4, e08490. https://doi.org/10.7554/eLife.08490
Sadler, J. M. (2015). Hydrologic Data Sharing Using Open Source Software and Low-Cost Electronics.
Scharr, H., Minervini, M., French, A. P., Klukas, C., Kramer, D. M., Liu, X., Luengo, I., Pape, J.-M., Polder, G., Vukadinovic, D., Yin, X., & Tsaftaris, S. A. (2016). Leaf segmentation in plant phenotyping: A collation study. Machine Vision and Applications, 27(4), 585–606. https://doi.org/10.1007/s00138-015-0737-3
Shanahan, H., Harrison, A., & Tobias May, S. (2015). Teaching Data Science and Cloud Computing in Low and Middle Income Countries. Advanced Techniques in Biology & Medicine, 03(03). https://doi.org/10.4172/2379-1764.1000150
Shipunov, A., Abramova, L., Beaudoin, J., Choi, J., Fry, D., Perry, R., Shipunova, V., Schumaier, J., & Theodore, J. (2015). Flora of North Dakota project. Phytoneuron, 16, 1–10.
Sivasubramanian, R., Mukhi, N., & Kaur, J. (2015). Arabidopsis thaliana: A Model for Plant Research. In B. Bahadur, M. Venkat Rajam, L. Sahijram, & K. V. Krishnamurthy (Eds.), Plant Biology and Biotechnology (pp. 1–26). Springer India. https://doi.org/10.1007/978-81-322-2283-5_1
Spannagl, M. (2015). The genomic repertoire of complex and polyploid cereal genomes [PhD Thesis]. Technische Universität München.
Stewart, C. A., Turner, G., Vaughn, M., Gaffney, N. I., Cockerill, T. M., Foster, I., Hancock, D., Merchant, N., Skidmore, E., Stanzione, D., Taylor, J., & Tuecke, S. (2015). Jetstream: A self-provisioned, scalable science and engineering cloud environment. Proceedings of the 2015 XSEDE Conference on Scientific Advancements Enabled by Enhanced Cyberinfrastructure - XSEDE ’15, 1–8. https://doi.org/10.1145/2792745.2792774
Subramaniam, S. (2015a). Flash Demo: Annotating genomes with MAKER-P and the iPlant Discovery Environment. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17298.html
Subramaniam, S. (2015b). Management and Visualization of Ianimal Quantitative Data Using iPlant and EPIC-CoGe. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper14925.html
Tang, H., Bomhoff, M. D., Briones, E., Zhang, L., Schnable, J. C., & Lyons, E. (2015). SynFind: Compiling syntenic regions across any set of genomes on demand. Genome Biology and Evolution, 7(12), 3286–3298.
Tang, H., Lyons, E., & Town, C. D. (2015). Optical mapping in plant comparative genomics. GigaScience, 4(1), 3. https://doi.org/10.1186/s13742-015-0044-y
Taylor, D. B. (2015). Life Sciences Cyberinfrastructure at Your Fingertips: Using Internet2 to Power Scientific Collaboration. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper17271.html
Taylor, M. R., Reinders, A., & Ward, J. M. (2015). Transport Function of Rice Amino Acid Permeases (AAPs). Plant and Cell Physiology, 56(7), 1355–1363. https://doi.org/10.1093/pcp/pcv053
Tello-Ruiz, M. K., Stein, J., Wei, S., Preece, J., Olson, A., Naithani, S., Amarasinghe, V., Dharmawardhana, P., Jiao, Y., Mulvaney, J., Kumari, S., Chougule, K., Elser, J., Wang, B., Thomason, J., Bolser, D. M., Kerhornou, A., Walts, B., Fonseca, N. A., … Ware, D. (2016). Gramene 2016: Comparative plant genomics and pathway resources. Nucleic Acids Research, 44(D1), D1133–D1140. https://doi.org/10.1093/nar/gkv1179
Thessen, A. E., Bunker, D. E., Buttigieg, P. L., Cooper, L. D., Dahdul, W. M., Domisch, S., Franz, N. M., Jaiswal, P., Lawrence-Dill, C. J., Midford, P. E., Mungall, C. J., Ramírez, M. J., Specht, C. D., Vogt, L., Vos, R. A., Walls, R. L., White, J. W., Zhang, G., Deans, A. R., … Mabee, P. M. (2015). Emerging semantics to link phenotype and environment. PeerJ, 3, e1470. https://doi.org/10.7717/peerj.1470
Thompson, S. M., Johnson, C. P., Lu, A. Y., Frampton, R. A., Sullivan, K. L., Fiers, M. W. E. J., Crowhurst, R. N., Pitman, A. R., Scott, I. A. W., Wen, A., Gudmestad, N. C., & Smith, G. R. (2015). Genomes of ‘ Candidatus Liberibacter solanacearum’ Haplotype A from New Zealand and the United States Suggest Significant Genome Plasticity in the Species. Phytopathology, 105(7), 863–871. https://doi.org/10.1094/PHYTO-12-14-0363-FI
Thorp, K. R., Gore, M. A., Andrade-Sanchez, P., Carmo-Silva, A. E., Welch, S. M., White, J. W., & French, A. N. (2015). Proximal hyperspectral sensing and data analysis approaches for field-based plant phenomics. Computers and Electronics in Agriculture, 118, 225–236. https://doi.org/10.1016/j.compag.2015.09.005
Towns, J., Cockerill, T., Dahan, M., Foster, I., Gaither, K., Grimshaw, A., Hazlewood, V., Lathrop, S., Lifka, D., Peterson, G. D., Roskies, R., Scott, J. R., & Wilkins-Diehr, N. (2014). XSEDE: Accelerating Scientific Discovery. Computing in Science & Engineering, 16(5), 62–74. https://doi.org/10.1109/MCSE.2014.80
Townsley, B. T., Covington, M. F., Ichihashi, Y., Zumstein, K., & Sinha, N. R. (2015). BrAD-seq: Breath Adapter Directional sequencing: a streamlined, ultra-simple and fast library preparation protocol for strand specific mRNA library construction. Frontiers in Plant Science, 6. https://doi.org/10.3389/fpls.2015.00366
Twyford, A. D., & Friedman, J. (2015). Adaptive divergence in the monkey flower Mimulus guttatus is maintained by a chromosomal inversion: GENETICS OF ADAPTIVE DIVERGENCE IN MONKEY FLOWERS. Evolution, 69(6), 1476–1486. https://doi.org/10.1111/evo.12663
VanBuren, R., Bryant, D., Edger, P. P., Tang, H., Burgess, D., Challabathula, D., Spittle, K., Hall, R., Gu, J., Lyons, E., Freeling, M., Bartels, D., Ten Hallers, B., Hastie, A., Michael, T. P., & Mockler, T. C. (2015). Single-molecule sequencing of the desiccation-tolerant grass Oropetium thomaeum. Nature, 527(7579), 508–511. https://doi.org/10.1038/nature15714
Vaughn, M. et al. (2015). Developing Content for the Arabidopsis Information Portal. Proceedings of Plant and Animal Genome XXIII. https://pag.confex.com/pag/xxiii/webprogram/Paper16142.html
Vaughn, Matthew title=Overivew of the iPlant Collaborative, journal=Proceedings of Plant and Animal Genome XXIII, year=2015, url=https://pag. confex. com/pag/xxiii/webprogram/Paper17211. html, & Rieger, S. (2015). What’s Talking? The Green Thread: Dialogues with the Vegetal World, 59.
Villanueva-Rosales, N., del Rio, N., Pennington, D., & Chavira, L. G. (2015). Semantic Bridges for Biodiversity Sciences. In M. Arenas, O. Corcho, E. Simperl, M. Strohmaier, M. d’Aquin, K. Srinivas, P. Groth, M. Dumontier, J. Heflin, K. Thirunarayan, & S. Staab (Eds.), The Semantic Web—ISWC 2015 (Vol. 9367, pp. 310–317). Springer International Publishing. https://doi.org/10.1007/978-3-319-25010-6_20
Walley, P. G., & Moore, J. D. (2015). Biotechnology and genomics: Exploiting the potential of CWR. Wiley Online Library.
Wang, L., Van Buren, P., & Ware, D. (2015). Architecting a distributed bioinformatics platform with iRODS and iPlant Agave API [Preprint]. Bioinformatics. https://doi.org/10.1101/034488
Wang, X., Guo, H., Wang, J., Lei, T., Liu, T., Wang, Z., Li, Y., Lee, T., Li, J., Tang, H., Jin, D., & Paterson, A. H. (2016). Comparative genomic de‐convolution of the cotton genome revealed a decaploid ancestor and widespread chromosomal fractionation. New Phytologist, 209(3), 1252–1263. https://doi.org/10.1111/nph.13689
Wang, Y., Lu, W., & Deng, D. (2016). Bioinformatic landscapes for plant transcription factor system research. Planta, 243(2), 297–304. https://doi.org/10.1007/s00425-015-2453-7
Wells, C. E., Vendramin, E., Jimenez Tarodo, S., Verde, I., & Bielenberg, D. G. (2015). A genome-wide analysis of MADS-box genes in peach [Prunus persica (L.) Batsch]. BMC Plant Biology, 15(1), 41. https://doi.org/10.1186/s12870-015-0436-2
Wiens, J. J. (2015). Faster diversification on land than sea helps explain global biodiversity patterns among habitats and animal phyla. Ecology Letters, 18(11), 1234–1241. https://doi.org/10.1111/ele.12503
Yang, X., Koltes, J. E., Park, C. A., Chen, D., & Reecy, J. M. (2015). Gene Co-Expression Network Analysis Provides Novel Insights into Myostatin Regulation at Three Different Mouse Developmental Timepoints. PLOS ONE, 10(2), e0117607. https://doi.org/10.1371/journal.pone.0117607
Yin, X., & Struik, P. C. (2016). Crop Systems Biology: Where Are We and Where to Go? In X. Yin & P. C. Struik (Eds.), Crop Systems Biology (pp. 219–227). Springer International Publishing. https://doi.org/10.1007/978-3-319-20562-5_10
Yu, J., & Main, D. (2015). Role of Bioinformatic Tools and Databases in Cotton Research. In Agronomy Monograph. American Society of Agronomy, Inc., Crop Science Society of America, Inc., and Soil Science Society of America, Inc. https://doi.org/10.2134/agronmonogr57.2013.0043
Zheng, Z.-Y., Tian, L., Bu, W., Fan, C., Gao, X., Wang, H., Liao, Y.-H., Li, Y., Lewis, M. T., Edwards, D., Zwaka, T. P., Hilsenbeck, S. G., Medina, D., Perou, C. M., Creighton, C. J., Zhang, X. H.-F., & Chang, E. C. (2015). Wild-Type N-Ras, Overexpressed in Basal-like Breast Cancer, Promotes Tumor Formation by Inducing IL-8 Secretion via JAK2 Activation. Cell Reports, 12(3), 511–524. https://doi.org/10.1016/j.celrep.2015.06.044
Zhu, Y., Sun, L., Garbarino, A., Schmidt, C., Fang, J., & Chen, J. (2015). PathRings: A web-based tool for exploration of ortholog and expression data in biological pathways. BMC Bioinformatics, 16(1), 165. https://doi.org/10.1186/s12859-015-0585-1
Zulfiqar, S., Hafeez, M. N., Iqbal, M. S., & Ali, Q. (n.d.). Role of genetic studies towards solving problems of human society. Science and Nature, 13(14). http://www.sciencepub.net/nature/ns130415/003_28241ns130415_15_19.pdf