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Oklahoma State University
High Performance Computing Center

A unit in the Division of the Vice President for Research

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2018

  • Ahmed, M., San, O. (2018). Stabilized principal interval decomposition method for model reduction of nonlinear convective systems with moving shocks. Computation and Applied Mathematics, , 1-33. DOI: 10.1007/s40314-018-0718-z.
  • Allison, S., Bai, H., Jayaraman, B. (2018). Modeling Trajectory Performance of Quadrotors Under Wind Disturbances. Presented at the 2018 AIAA SciTech Forum in Kissimmee, Florida. DOI: 10.2514/6.2018-1237.
  • Alotaibi, M. (2018). Molecular and physiological indicators of drought stress in soft white spring wheat at the vegetative stage. Dissertation.
  • Anderson, M. (2018). A lab-made method for extracting DNA from soils. Soil Research, 56(6), 560-567. DOI: 10.1071/SR17261.
  • Bertrand, D., McPherson, R. A. (2018). Future Hydrologic Extremes of the Red River Basin. Journal of Applied Meteorology and Climatology, 57(6), 1321-1336. DOI: 10.1175/JAMC-D-17-0346.1.
  • Calkins, S. S., Elledge, N. C., Mueller, K. E., Marek, S. M., Couger, M. B., Elshahed, M. S., Youssef, N. H. (2018). Development of an RNA interference (RNAi) gene knockdown protocol in the anaerobic gut fungus Pecoramyces ruminantium strain C1A. PeerJ, 6, e4276. DOI: 10.7717/peerj.4276.
  • Cao, X., Jiang, H. (2018). Building a platform for predicting functions of serine protease-related proteins in Drosophila melanogaster and other insects. Insect Biochemistry and Molecular Biology. DOI: 10.1016/j.ibmb.2018.10.006.
  • Chandran, P., Shah, J. K. (2018). A molecular simulation approach to the computation of mutual solubility of water and organic liquids: Application to fatty acids. Fluid Phase Equilibria, 472, 48-55. DOI: 10.1016/j.fluid.2018.05.002.
  • Chen, X., Feng, Y., Zhong W., Sun, B., Tao, F. (2018). Numerical investigation of particle deposition in a triple bifurcation airway due to gravitational sedimentation and inertial impaction. Powder Technology, 323, 284-293. DOI: 10.1016/j.powtec.2017.09.050.
  • Couger, M. B., Arevalo, L., Campbell, P. (2018). A High Quality Genome for Mus spicilegus, a Close Relative of House Mice with Unique Social and Ecological Adaptations. G3: Genes, Genomes, Genetics, 8(7), 2145-2152. DOI: 10.1534/g3.118.200318.
  • Curtis, J. T., Assefa, S., Francis, A., Kohler, G. A. (2018). Fecal microbiota in the female prairie vole (Microtus ochrogaster). PLoS ONE, 13(3), e0190648. DOI: 10.1371/journal.pone.0190648.
  • Das, S., Vraspir, L., Zhou, W., Durica, D. S., Mykles, D. L. (2018). Transcriptomic analysis of differentially expressed genes in the molting gland (Y-organ) of the blackback land crab, Gecarcinus lateralis, during molt-cycle stage transitions. Comparative Biochemistry and Physiology Part D: Genomics and Proteomics. DOI: 10.1016/j.cbd.2018.06.001.
  • Day, J. I., Singh, K., Trinh, W., Weaver, J. D. (2018). Visible Light Mediated Generation of trans-Arylcyclohexenes and Their Utilization in the Synthesis of Cyclic Bridged Ethers. Journal of the American Chemical Society, 140(31), 9934-9941. DOI: 10.1021/jacs.8b04642.
  • Dhakal, K., Kakani, V., Linde, E. (2018). Climate Change Impact on Wheat Production in the Southern Great Plains of the US Using Downscaled Climate Data. Atmospheric and Climate Sciences, 8, 143-162. DOI: 10.4236/acs.2018.82011.
  • DiPasquale, M., Francisco, C. A., Mermin, J., Schweig, J., Sosa, G. (2018). The Rees algebra of a two-Borel ideal is Koszul. Proceedings of the American Mathematical Society. DOI: 10.1090/proc/13966.
  • Dick, R. P., Dick, L. K., Deng, S., Li, X., Kandeler, E., Poll, C., Freeman, C., Jones, T. G., Weintraub, M. N., Esseili, K. A., Saxena, J. (2018). Cross-laboratory comparison of fluorimetric microplate and colorimetric bench-scale soil enzyme assays. Soil Biology and Biochemistry, 121, 240-248. DOI: 10.1016/j.soilbio.2017.12.020.
  • Espindola, A. S., Schneider, W., Cardwell, K. F., Carrillo, Y., Hoyt, P. R., Marek, S. M., Melouk, H. A., Garzon, C. D. (2018). Inferring the presence of aflatoxin-producing Aspergillus flavus strains using RNA sequencing and electronic probes as a transcriptomic screening tool. PLoS ONE, 13(10), e0198575. DOI: 10.1371/journal.pone.0198575.
  • Feng, Y., Chen, X., Zhao, J. (2018). Create the Individualized Digital Twin for Noninvasive Precise Pulmonary Healthcare. Significances of Bioengineering and Biosciences, 1(2).
  • Feng, Y., Zhao, J., Kleinstreuer, C., Wang, Q., Wang, J., Wu, D. H., Lin, J. (2018). An in silico inter-subject variability study of extra-thoracic morphology effects on inhaled particle transport and deposition. Journal of Aerosol Science. DOI: 10.1016/j.jaerosci.2018.05.010.
  • Fennell, C. J., Ghousifam, N., Haseleu, J. M., Gappa-Fahlenkamp, H. (2018). Computational Signaling Protein Dynamics and Geometric Mass Relations in Biomolecular Diffusion. Journal of Physical Chemistry B. DOI: 10.1021/acs.jpcb.7b11846.
  • Fishbein, M., Livshultz, T., Straub, S. C. K., Simoes, A. O., Boutte, J., McDonnell, A., Foote, A. (2018). Evolution on the backbone: Apocynaceae phylogenomics and new perspectives on growth forms, flowers, and fruits. American journal of Botany, 105(3), 495-513. DOI: 10.1002/ajb2.1067.
  • Fishbein, M., Straub, S. C. K., Boutte, J., Hansen, K., Cronn, R. C., Liston, A. (2018). Evolution at the tips: Asclepias phylogenomics and new perspectives on leaf surfaces. American journal of Botany, 105(3), 514-524. DOI: 10.1002/ajb2.1062.
  • Haghnegahdar, A., Feng, Y., Chen, X., Lin, J. (2018). Computational analysis of deposition and translocation of inhaled nicotine and acrolein in the human body with e-cigarette puffing topographies. Aerosol Science and Technology, 52(5), 483-493. DOI: 10.1080/02786826.2018.1447644.
  • Hayatifar, A., Shumaker, F. A., Komanduri, S. P., Hallenbeck, S. A., Rheingold, A. L., Weinert, C. S. (2018). Synthesis of the Elusive Branched Fluoro-oligogermane (Ph3Ge)3GeF: A Structural, Spectroscopic, Electrochemical, and Computational Study. Organometallics. DOI: 10.1021/acs.organomet.8b00095.
  • Hu, L., Ma, L. M., Zheng, S., He, X., Hammack, T. S., Brown, E. W., Zhang, G. (2018). Development of a novel loop-mediated isothermal amplification (LAMP) assay for the detection of Salmonella ser. Enteritidis from egg products. Food Control, 88, 190-197. DOI: 10.1016/j.foodcont.2018.01.006.
  • Ismail, A., Abdelnaby, A., Larson, T. (2018). High-resolution P- and S-wave Seismic Reflection Followed By Engineering Modeling For Geotechnical Site Characterization in Southern Illinois. Journal of Environmental and Engineering Geophysics, 22(4), 375-384. DOI: 10.2113/JEEG22.4.375.
  • Kaphle, A., Borunda, M. F., Hari, P. (2018). Influence of cobalt doping on residual stress in ZnO nanorods. Materials Science in Semiconductor Processing, 84, 131-137. DOI: 10.1016/j.mssp.2018.05.019.
  • Kapoor U., Shah, J. K. (2018). Globular, Sponge-like to Layer-like Morphological Transition in 1-n-Alkyl-3-methylimidazolium Octylsulfate Ionic Liquid Homologous Series. Journal of Physical Chemistry B, 122(1), 213-228. DOI: 10.1021/acs.jpcb.7b08397.
  • Kapoor, U., Shah, J. K. (2018). Effect of molecular solvents of varying polarity on the self-assembly of 1-n-dodecyl-3-methylimidazolium octylsulfate ionic liquid. Journal of Theoretical and Computational Chemistry. DOI: 10.1142/S0219633618400047.
  • Kapoor, U., Shah, J. K. (2018). Thermophysical Properties of Imidazolium-Based Binary Ionic Liquid Mixtures Using Molecular Dynamics Simulations. Journal of Chemical and Engineering Data. DOI: 10.1021/acs.jced.7b01028.
  • Kottke, T., Xie, A., Larsen, D. S., Hoff, W. D. (2018). Photoreceptors Take Charge: Emerging Principles for Light Sensing. Annual Review of Biophysics, 47(1). DOI: 10.1146/annurev-biophys-070317-033047.
  • Liang, Y., Li, Y., Zhang, B. (2018). Bayesian nonparametric inference for panel count data with an informative observation process. Biometrical Journal, 60(3), 583-596. DOI: 10.1002/bimj.201700176.
  • Materer, N. F., Apblett, A., Kadossov, E. B., Bussan, D., Bobo, M., Kupgan, G., Dyer, D. (2018). Experimental and Computation Studies of the Reaction of Hydrogen Peroxide and Methyl Hydroperoxide on Molybdenum Hydrogen Bronze Surfaces. Topics in Catalysis. DOI: 10.1007/s11244-018-0942-1.
  • Maulik, R., San, O. (2018). Explicit and Implicit LES Closures for Burgers Turbulence. Journal of Computational and Applied Mathematics, 327, 12-40. DOI: 10.1016/j.cam.2017.06.003.
  • McDonnell, A., Parks, M., Fishbein, M. (2018). Multilocus Phylogenetics of New World Milkweed Vines (Apocynaceae, Asclepiadoideae, Gonolobinae). Systematic Botany, 43(1), 77-96. DOI: 10.1600/036364418X697021.
  • Scholtz, R., Polo, J. A., Fuhlendorf, S. D., Engle, D. M., Weir, J. R. (2018). Woody Plant Encroachment Mitigated Differentially by Fire and Herbicide. Rangeland Ecology and Management, 71(2), 239-244. DOI: 10.1016/j.rama.2017.10.001.
  • Singh, K., Fennell, C. J., Coutsias, E., A., Latifi, R., Hartson, S., Weaver, J. D. (2018). Light Harvesting for Rapid and Selective Reactions: Click Chemistry with Strain-Loadable Alkenes. Chem, 4(1), 124-137. DOI: 10.1016/j.chempr.2017.11.007.
  • Stone, C. L., Frederick, R. D., Tooley, P. W., Luster, D. G., Campos, B., Winegar, R. A., Melcher, U., Fletcher, J., Blagden, T. (2018). Annotation and analysis of the mitochondrial genome of Coniothyrium glycines, causal agent of red leaf blotch of soybean, reveals an abundance of homing endonucleases. PLoS ONE, 13(11), e0207062. DOI: 10.1371/journal.pone.0207062.
  • Stone, C. L., Frederick, R. D., Tooley, P. W., Luster, D. G., Campos, B., Winegar, R. A., Melcher, U., Fletcher, J., Blagden, T. (2018). Annotation and analysis of the mitochondrial genome of Coniothyrium glycines, causal agent of red leaf blotch of soybean, reveals an abundance of homing endonucleases. PLoS ONE, 13(11), e020762. DOI: 10.1371/journal.pone.0207062.
  • Tang, Z., Fan, F., Wang, X., Shi, X., Deng, S., Wang, D. (2018). Mercury in rice (Oryza sativa L.) and rice-paddy soils under long-term fertilizer and organic amendment. Ecotoxicology and Environmental Safety, 150, 116-122. DOI: 10.1016/j.ecoenv.2017.12.021.
  • Timmons, C., Pai, K., Jacob, J., Zhang, G., Ma L. M. (2018). Inactivation of Salmonella enterica, Shiga toxin-producing Escherichia coli, and Listeria monocytogenes by a novel surface discharge cold plasma design. Food Control, 84, 455-462. DOI: 10.1016/j.foodcont.2017.09.007.
  • Wijayasekara, D., Hoyt, P., Gimondo, A., Dunn, B., Thapa, A., Jones, H., Verchot, J. (2018). Molecular characterization of two badnavirus genomes associated with Canna yellow mottle disease. Virus Research, 243, 19-24. DOI: 10.1016/j.virusres.2017.10.001.

2017

  • Akin, D., Belgin, M., Bouvet, T. A., Bright, N. C., Harrell, S., Haymore, B., Jennings, M., Knepper, R., LaPine, D., Liu, F. C., Maji, A., Neeman, H., Reynolds, R., Sherman, A. H., Showerman, M., Tillotson, J., Towns, J., Turner, G., Zimmerman, B. (2017). Linux Clusters Institute Workshops: Building the HPC and Research Computing Systems Professionals Workforce. Proceedings from the 2017 HPC Systems Professionals Workshop. DOI: 10.1145/3155105.3155108.
  • Alam, I., Jaiswal, P. (2017). Near Surface Characterization Using VP/VS and Poisson's Ratio from Seismic Refractions. Journal of Environmental and Engineering Geophysics, 22(2), 101. DOI: 10.2113/JEEG22.2.101.
  • Alderman, P. D., Stanfill, B. (2017). Quantifying model-structure-and parameter-driven uncertainties in spring wheat phenology prediction with Bayesian analysis. European Journal of Agronomy, 88, 1-9. DOI: 10.1016/j.eja.2016.09.016.
  • Alexander, A. S., Santhanakrishnan, A. (2017). Trapped Cylindrical Flow With Multiple Inlets for Savonius Vertical Axis Wind Turbines. Journal of Fluids Engineering, 140(4), 44501. DOI: 10.1115/1.4038166.
  • Almutairi, M. (2017). Genetic diversity among hard red winter wheat cultivars and experimental lines and their association with water limitation. Dissertation.
  • Alpas, H., Fletcher, J., Yeni, F., Soyer, Y. (2017). Recent Outbreaks of Human Pathogens on Plants (HPOPs) on Fresh Produce – Lessons Learned from the Practic. Practical Tools for Plant and Food Biosecurity: Results from a European Network of Excellence (Book), , 77.
  • Andreason, S. A., Arif, M., Brown, J. K., Ochoa-Corona, F., Fletcher, J., Wayadande, A. (2017). Single-Target and Multiplex Discrimination of Whiteflies (Hemiptera: Aleyrodidae) Bemisia tabaci and Trialeurodes vaporariorum With Modified Priming Oligonucleotide Thermodynamics. Journal of Economic Entomology, 110(4), 1821-1830. DOI: 10.1093/jee/tox125.
  • Ayalew, S., Confer, A. W., Hansen, R. D., Couger, M. B. (2017). Genome Sequence of a Spontaneous Nonhemolytic Mutant of Mannheimia haemolytica 16041065 GH. Genome Announcements, 5(14), e01720-16. DOI: 10.1128/genomeA.01720-16.
  • Ayalew, S., Confer, A. W., Hansen, R. D., Couger, M. B. (2017). Genome Sequence of Mannheimia haemolytica Serotype 1 Strain 16041065 BH. Genome Announcements, 5(14), e01721-16. DOI: 10.1128/genomeA.01721-16.
  • Ayalew, S., Confer, A. W., Hartson, S. D., Canaan, P. J., Payton, M., Couger, B. (2017). Proteomic and bioinformatic analyses of putative Mannheimia haemolytica secretome by liquid chromatography and tandem mass spectrometry. Veterinary Microbiology, 203, 73-80. DOI: 10.1016/j.vetmic.2017.02.011.
  • Babu, B., Washburn, B. K., Ertek, T. S., Miller, S. H., Riddle, C. B., Knox, G. W., Ochoa-Corona, F. M., Olson, J., Katircioglu, Y. Z., Paret, M L. (2017). A field based detection method for Rose rosette virus using isothermal probe-based Reverse transcription-recombinase polymerase amplification assay. Journal of Virological Methods, 247, 81-90. DOI: 10.1016/j.jviromet.2017.05.019.
  • Babu, K. S., Bajc, B., Saad, S. (2017). Yukawa sector of minimal SO (10) unification. Journal of High Energy Physics, 2017(2), 136. DOI: 10.1007/JHEP02(2017)136.
  • Babu, K. S., Khanov, A., Saad, S. (2017). Anarchy with hierarchy: A probabilistic appraisal. Physical Review D, 95(5), 55014. DOI: 10.1103/PhysRevD.95.055014.
  • Bertrand, D. (2017). Exploring Future Hydrologic Extremes of the Red River Basin. Dissertation.
  • Brini, E., Fennel, C. J., Fernandez-Serra, M., Hribar-Lee, B., Luksic, M., Dill, K. A. (2017). How Water’s Properties Are Encoded in Its Molecular Structure and Energies. Chemical Reviews, 117(19), 12385-12414. DOI: 10.1021/acs.chemrev.7b00259.
  • Bryant, D. M., Johnson, K. DiTommaso, T. Tickle, T. Couger, M B., Payzin-Dogru, D., Lee, T. J. Leigh, N. D. Kuo, T. H. Davis, F. G. (2017). A tissue-mapped axolotl de novo transcriptome enables identification of limb regeneration factors. Cell Reports, 18(3), 762-776. DOI: 10.1016/j.celrep.2016.12.063.
  • Cao X., Jiang, H. (2017). An analysis of 67 RNA-seq datasets from various tissues at different stages of a model insect, Manduca sexta. BMC Genomics, 18(1), 796. DOI: 10.1186/s12864-017-4147-y.
  • Cao, X., Gulati, M., Jiang, H. (2017). Serine protease-related proteins in the malaria mosquito, Anopheles gambiae. Insect Biochemistry and Molecular Biology, 88, 48-62. DOI: 10.1016/j.ibmb.2017.07.008.
  • Cao, X., Jiang, H. (2017). An analysis of 67 RNA-seq datasets from various tissues at different stages of a model insect, Manduca sexta. BMC Genomics, 18(1), 796. DOI: 10.1186/s12864-017-4147-y.
  • Cho, J., Grogg, K., Min, C. H., Zhu, X., Paganetti, H., Lee, H. C., El Fakhri, G. (2017). Feasibility study of using fall‐off gradients of early and late PET scans for proton range verification. Medical Physics, 44(5), 1734-1746. DOI: 10.1002/mp.12191.
  • Chuba, D., Goyder, D., Chase, M. W., Fishbein, M. (2017). Phylogenetics of the African Asclepias Complex (Apocynaceae) Based on Three Plastid DNA Regions. Systematic Botany, 42(1), 148-159. DOI: 10.1600/036364417X694539.
  • Dai, S. (2017). Density functional theory and time-dependent DFT modeling of organic photovoltaic materials. Dissertation.
  • Davis, T. (2017). Parallelization of the Clark, Colbourn, and Johnson Maximum Clique Algorithm for Unit Disk Graphs. Dissertation.
  • Day, J. I., Weaver, J. D. (2017). Selective and Scalable Perfluoroarylation of Nitroalkanes. Journal of Organic Chemistry, 82(13), 6801-6810. DOI: 10.1021/acs.joc.7b00962.
  • Deng, S., Dick, R., Kandeler, E., Weintraub, M. N. (2017). Comparison and standardization of soil enzyme assay for meaningful data interpretation. Journal of Microbiological Methods, 133, 32-34. DOI: 10.1016/j.mimet.2016.12.013.
  • Dhakal, K. (2017). Spatially Explicit Modeling of Switchgrass and Wheat in Oklahoma. Dissertation.
  • Dhakal, K., Linde, E., Kakani, V. G., Alderman, P. D., Brunson, D., Ochsner, T. E., Carver, B. (2017). Impact of Climate Change on Potential, Attainable, and Actual Wheat Yield in Oklahoma. Proceedings of the 2017 American Geophysical Union Fall Meeting.
  • Doust, A. N., Maruo-Herrera, M., Hodge, J. G., Stromski, J. (2017). The C4 Model Grass Setaria Is a Short Day Plant with Secondary Long Day Genetic Regulation. Frontiers in Plant Science, 8, 1062. DOI: 10.3389/fpls.2017.01062.
  • Ebrahimi, P., Jaiswal, P. (2017). Directional filter aided sub-basalt interpretation: A case study from the Faroe-Shetland basin. Journal of Applied Geophysics, 137, 82-91. DOI: 10.1016/j.jappgeo.2016.12.004.
  • Farag I. F., Youssef, N. H., Elshahed, M. S. (2017). Global distribution patterns and pangenomic diversity of the candidate phylum “Latescibacteria” (WS3). Applied Environmental Microbiology, 83, e00521-17. DOI: 10.1128/AEM.00521-17.
  • Farag, I. F. (2017). Exploring the ecological distribution patterns and metabolic diversities in Candidate Phyla “Aminicenantes”(OP8) and “Latescibacteria” (WS3). Dissertation.
  • Farag, I. F., Youssef, N. H., Elshahed, M. S. (2017). Global Distribution Patterns and Pangenomic Diversity of the Candidate Phylum “Latescibacteria” (WS3). Applied and Environmental Microbiology, 83(10), e00521-17. DOI: 10.1128/AEM.00521-17.
  • Feng, X., Castro, M. C., Linde, E., Papeş, M. (2017). Armadillo Mapper: A Case Study of an Online Application to Update Estimates of Species’ Potential Distributions. Tropical Conservation Science, 10, 1940082917724130. DOI: 10.1177/1940082917724133.
  • Feng, X., Papes, M. (2017). Can Incomplete Knowledge of Species' Physiology Facilitate Ecological Niche Modelling? A Case Study with Virtual Species. Diversity and Distributions, 23(10), 1157-1168. DOI: 10.1111/ddi.12606.
  • Feng, Y. (2017). A New Patient-Specific Pulmonary Drug Targeted Delivery Method to Treat Lung Cancer using E-Cigarette Technology. Proceedings of the Global Home of Chemical Engineers 2017 Annual Meeting.
  • Feng, Y., Chen, X., Xu, Z., Haghnegahdar, A. (2017). Intersubject Variability in Pulmonary Drug Delivery Efficiency to Target Lung Tumors at Different Lobes: An In-Silico Study. Proceedings of the Biomedical Engineering Society 2017 Annual Meeting.
  • Feng, Y., Haghnegahdar, A. (2017). A New Pulmonary Drug Targeted Delivery Method for Lung Diseases Treatment: An In-Silico Study. Proceedings of the Oklahoma Center for Respiratory and Infectious Diseases 4th Annual Retreat.
  • Feng, Y., Haghnegahdar, A., Chen, X. (2017). A Computational Multiphase Flow Model to Predict the Transport and Deposition of Inhaled Flu Virus-Laden Droplets in Human Respiratory Tracts for Early Infection Diagnosis. Proceedings of the Global Home of Chemical Engineers 2017 Annual Meeting.
  • Feng, Y., Wang, J., Chen, X. (2017). Noninvasive Diagnostics for the Early Detection of Lower Respiratory Diseases: an In-Silico Study. Proceedings of the Global Home of Chemical Engineers 2017 Annual Meeting.
  • Feng, Y., Wang, J., Haghnegahdar, A. (2017). Numerical Investigation of Occupational-related Metal Aerosol Transmission and Deposition Patterns in a Virtual Human Respiratory System. Proceedings of the American Association for Aerosol Research 2017 Annual Conference.
  • Feng, Y., Zhao, J., Chen, X., Lin, J. (2017). An In Silico Subject-Variability Study of Upper Airway Morphological Influence on the Airflow Regime in a Tracheobronchial Tree. Bioengineering, 4(4), 90. DOI: 10.3390/bioengineering4040090.
  • Fletcher, J., Gamliel, A., Stack, J. P., Dehne, H. W., Isack, Y., Moncrief, I. (2017). Applications and Assessment of Microbial Forensics in a Field Outbreak of Salmon Blotch of Onion in Israel. Practical Tools for Plant and Food Biosecurity: Results from a European Network of Excellence (Book), , 257.
  • Francisco, C. A., Mermin, J., Schweig, J. (2017). Boij-Söderberg and Veronese decompositions. Journal of Commutative Algebra, 9(3), 367-386. DOI: 10.1216/JCA-2017-9-3-367.
  • Frazier, A. E., Hemingway, B., Brasher, J. (2017). Land Surface Heterogeneity and Tornado Formation: A Comparison of Tornado Alley and Dixie Alley. Journal of Climatology and Weather Forecasting, 5(2), 203. DOI: 10.4172/2332-2594.1000203.
  • Ge, X., Deng, S., Zhu, L., Li, Y., Jia, Z., Tian, Y., Tang, L. (2017). Response of nitrogen mineralization dynamics and biochemical properties to litter amendments to soils of a poplar plantation. Journal of Forestry Research, , 1-10. DOI: 10.1007/s11676-017-0523-3.
  • Gehan, M. A., Fahlgren, N., Abbasi, A., Berry, J. C., Callen, S. T., Chavez, L., Doust, A. N., Feldman, M. J., Gilbert, K. B., Hodge, J. G., Hoyer, J. S., Lin, A., Liu, S., Lizarraga, C., Lorence, A., Miller, M., Platon, E., Tessman, M., Sax, T. (2017). PlantCV v2: Image analysis software for high-throughput plant phenotyping. PeerJ, 5, e4088. DOI: 10.7717/peerj.4088.
  • Haghnegahdar, A., Feng, Y. (2017). Development of a multiscale CFPD-PBTK model for lung deposition and whole-body translocation of inhaled nicotine and acrolein in e-cigarette aerosols. Proceedings of 2017 American Society for Engineering Education Midwest Section Conference.
  • Haghnegahdar, A., Feng, Y. (2017). The translocation of nicotine from human lung to systemic regions due to E0cigarette aerosol inhalation: a numerical study. Proceedings of the 5th International Conference on Computational and Mathematical Biomedical Engineering (CMBE).
  • Harris, A. J., Dee, J., Palmer, M. W. (2017). The effects of taxonomic rank on climatic calibrations: A test using extant floras of United States counties. Review of Palaeobotany and Palynology., 244, 316-324. DOI: 10.1016/j.revpalbo.2017.02.002.
  • Harris, A.J., Chen, P.T., Xu, X.W., Zhang, J.Q., Yang, X., Wen, J. (2017). A Molecular Phylogeny of Staphyleaceae: Implications for Generic Delimitation and Classical Biogeographic Disjunctions in the Family. Journal of Systematics and Evolution, 55(2), 124-141. DOI: 10.1111/jse.12236.
  • He, X., Cao, X., He, Y., Bhattarai, K., Rogers, J., Hartson, S., Jiang, H. (2017). Hemolymph proteins of Anopheles gambiae larvae infected by Escherichia coli. Developmental and Comparative Immunology, 74, 110-124. DOI: 10.1016/j.dci.2017.04.009.
  • Hendershot, M. E., Liang, Y. (2017). Estimating Judicial Accomplishment: Applying the Legislative Accomplishment Strategy to the Decisions of the Supreme Court. Justice System Journal, , 1-21. DOI: 10.1080/0098261X.2017.1296386.
  • Hu, L., Ma, L. M., Zheng, S., He, X., Wang, H., Brown, E. W., Hammack, T. S., Zhang, G. (2017). Evaluation of 3M Molecular Detection System and ANSR Pathogen Detection System for rapid detection of Salmonella from egg products. Poultry Science, 96(5), 1410-1418. DOI: 10.3382/ps/pew399.
  • Ismail, A., Thomsason, J., Atekwana, E. (2017). Shear-wave seismic reflection for improved detection of ground subsidence and scouring features . Proceedings of the International Conference on Engineering Geophysics, , 28-31. DOI: 10.1190/iceg2017-002.
  • Jackson, C. A., Couger, M. B., Prabhakaran, M., Ramachandriya, K. D., Canaan, P., Fathepure, B. Z. (2017). Isolation and characterization of Rhizobium sp. strain YS?1r that degrades lignin in plant biomass. Journal of Applied Microbiology, 122(4), 940-952. DOI: 10.1111/jam.13401.
  • Jaiswal, P., Gregg, J. M., Parks, S., Holman, R., Mohammadi, S., Grammer, G. M. (2017). Evidence of fault/fracture Hydrothermal reservoirs in the southern midcontinent Mississippian carbonates. **.
  • Jaiswal, P., Holman, R., Grammer, M. (2017). Pitfalls in three-dimensional seismic interpretation: Footprints of an irregular source–receiver layout. American Association of Petroleum Geologists Bulletin, 101(11), 1747-1758. DOI: 10.1306/02071716056.
  • Judkins, M. E. (2017). Conservation Genomics of North American Bald (Haliaeetus leucocephalus) and Golden (Aquila chrysaetos) Eagles. Dissertation.
  • Kibble, G. (2017). Experimental and computational investigation of the conformal vortex generator. Dissertation.
  • Kibble, G. A., Jacob, J. D., Elbing, B. R., Alexander, A. S. (2017). Aerodynamic Investigation of the Conformal Vortex Generator. 47th AIAA Fluid Dynamics Conference. DOI: 10.2514/6.2017-3117.
  • Kozak, M., Feng, Y. (2017). Non-Newtonian fluid flow patterns in a customized parallel plate flow chamber: an in-silico study using a Computational Fluid Dynamics model. Proceedings of 2017 American Society for Engineering Education Midwest Section Conference.
  • Liu, M., Lei, L., Miao, F., Powers, C., Zhang, X., Deng, J., Tadege, M., Carver, B. F., Yan, L. (2017). The STENOFOLIA gene from Medicago alters leaf width, flowering time and chlorophyll content in transgenic wheat. Plant Biotechnology Journal, 16(1), 186-196. DOI: 10.1111/pbi.12759.
  • Lu, C. (2017). Sparse Data-driven Modeling Framework for Nonlinear Fluid Flows. Dissertation.
  • Lu, C., Jayaraman, B. (2017). Data-Driven Modeling for Nonlinear Fluid Flows. Presented at the 23rd American Institute of Aeronautics and Astronautics Aviation Forum. DOI: 10.2514/6.2017-3628.
  • Ma, L. M., Fletcher, J., Mumford, J. D., Holt, J., Leach, A. W. (2017). Decision Tool for Assessing the Likelihood of an Intentional Foodborne Illness Outbreak. Practical Tools for Plant and Food Biosecurity: Results from a European Network of Excellence (Book), , 179.
  • Mandelli, F., Couger, M. B., Paixao, D. A. A., Machado, C. B., Carnielli, C. M., Aricetti, J. A., Polikarpov, I., Prade, R., Caldana, C., Leme, Paes, A. F. (2017). Thermal adaptation strategies of the extremophile bacterium Thermus filiformis based on multi-omics analysis. Extremophiles, 21(4), 775-788. DOI: 10.1007/s00792-017-0942-2.
  • Maulik, R., San, O. (2017). A dynamic framework for functional parameterisations of the eddy viscosity coefficient in two-dimensional turbulence. International Journal of Computational Fluid Dynamics, 31(2), 69-92. DOI: 10.1080/10618562.2017.1287902.
  • Maulik, R., San, O. (2017). A dynamic subgrid-scale modeling framework for Boussinesq turbulence. International Journal of Heat and Mass Transfer, 108, 1656-1675. DOI: 10.1016/j.ijheatmasstransfer.2017.01.028.
  • Maulik, R., San, O. (2017). A novel dynamic framework for subgrid scale parametrization of mesoscale eddies in quasigeostrophic turbulent flows. Computers and Mathematics with Applications, 74(3), 420-445. DOI: 10.1016/j.camwa.2017.04.016Get.
  • Maulik, R., San, O. (2017). A stable and scale-aware dynamic modeling framework for subgrid-scale parameterizations of two-dimensional turbulence. Computers and Fluids, 158, 11-38. DOI: 10.1016/j.compfluid.2016.11.015.
  • Maulik, R., San, O. (2017). Resolution and Energy Dissipation Charactersitics of Implicit LES and Explicit Filtering Models for Compressible Turbulence. Fluids 2017, 2(2), 14. DOI: 10.3390/fluids2020014.
  • McDonnell, A. (2017). Phylogeny and Evolution of New World Milkweed Vines (Apocynaceae,Gonolobianae) and the Resurrection of Chthamalia. Dissertation.
  • Melstrom, R.T. (2017). Where to Drill? The Petroleum Industry's Response to an Endangered Species Listing. Energy Economics, 66, 320-327. DOI: 10.1016/j.eneco.2017.06.028.
  • Miao, Z., Balasundaram, B. (2017). Approaches for finding cohesive subgroups in large-scale social networks via maximum k-plex detection. Networks, 69(4), 388-407. DOI: 10.1002/net.21745.
  • Moktan H. (2017). Structure and Dynamics Studies of Membrane and Non-membrane Proteins Using NMR and MD Simulations. Dissertation.
  • Moktan H., Zhou, D. H. (2017). Wing 1 of protein HOP2 is as important as helix 3 in DNA binding by MD simulation. Journal of Biomolecular Structure and Dynamics, , 1-14. DOI: 10.1080/07391102.2017.1333458.
  • Morrison, J.M., Baker, K.D., Zamor, R.M., Nikolai, S., Elshahed, M.S., Youssef, N.H. (2017). Spatiotemporal Analysis of Microbial Community Dynamics During Seasonal Stratification Events in a Freshwater Lake (Grand Lake, OK, USA). PLOS ONE, 12(5), e0177488. DOI: 10.1371/journal.pone.0177488.
  • Morrison, J.M., Murphy, C.L., Baker, K., Zamor, R.M., Nikolai, S.J., Wilder, S., Elshahed, M.S., Youssef, N.H. (2017). Microbial Communities Mediating Algal Deteritus Turnover Under Anaerobic Conditions. PeerJ, 5, e2803. DOI: 10.7717/peerj.2803.
  • Mumford, J. D., Gullino, M. L., Stack, J. P., Fletcher, J., Quinlan, M. M. (2017). The Need for International Perspectives to Solve Global Biosecurity Challenges. Practical Tools for Plant and Food Biosecurity: Results from a European Network of Excellence (Book), , 363.
  • Ni, J., Dadras, S., Lam, W. K., Shrestha, R. K., Sadgrove, M., Wimberger, S., Summy, G. S. (2017). Hamiltonian Ratchets with Ultra-Cold Atoms. Annalen der Physik, 529(8). DOI: 10.1002/andp.201600335.
  • Ochoa Corona, F., Carrillo Tarazona, Y. (2017). Validation of RT-PCR High Resolution Melting as a detection method of Tombusvirus. Presented at the 2017 American Phytopathological Society Annual Meeting. DOI: 10.1094/PHYTO-106-12-S4.1.
  • Pajouh, F. M., Moradi, E., Balasundaram, B. (2017). Detecting large risk-averse 2-clubs in graphs with random edge failures. Annals of Operations Research, 249(1), 55-73. DOI: 10.1007/s10479-016-2279-0.
  • Pan, X., Richardson, M. D., Deng, S., Kremer, R. J., English, J. T., Mihail, J. D., Sams, C., Scharf, P. C., Veum, K. S., Xiong, X. (2017). Effect of Organic Amendment and Cultural Practice on Large Patch Occurrence and Soil Microbial Community. Crop Sciences, 57(4), 2263-2272. DOI: 10.2135/cropsci2016.09.0809.
  • Passow, C. N., Brown, A. P., Arias‐Rodriquez, L., Yee, M. C., Sockell, A., Schartl, M., Warren, W. C., Bustamante, C., Kelley, J. L., Tobler, M. (2017). Complexities of gene expression patterns in natural populations of an extremophile fish (Poecilia mexicana, Poeciliidae). Molecular Ecology, 26(16), 4211-4225. DOI: 10.1111/mec.14198.
  • Passow, C. N., Henpita C., Shaw, J. H., Quackenbush, C. R., Warren, W. C., Schartl, M., Arias-Rodriguez, L., Kelley, J. L., Tobler, M. (2017). The roles of plasticity and evolutionary change in shaping gene expression variation in natural populations of extremophile fish. Molecular Ecology, 26(22), 6385-6399. DOI: 10.1111/mec.14360.
  • Pleinert, M. O., von Zanthier, J., Agarwal, G. S. (2017). Hyperradiance from collective behavior of coherently driven atoms. Optica, 4(7), 779-785. DOI: 10.1364/OPTICA.4.000779.
  • Qiao, L., Zou, C. B., Gaitán, C. F., Hong, Y., McPherson, R. A. (2017). Analysis of Precipitation Projections over the Climate Gradient of the Arkansas Red River Basin. Journal of Applied Meteorology and Climatology, 56(5), 1325-1336. DOI: 10.1175/JAMC-D-16-0201.1.
  • Qiao, L., Zou, C. B., Stebler, E., Will, R. E. (2017). Woody plant encroachment reduces annual runoff and shifts runoff mechanisms in the tallgrass prairie, USA. Water Resources Research, 53(6), 4838-4349. DOI: 10.1002/2016WR019951.
  • Ratcliffe, B., El-Dien, O. G., Cappa, E. P., Porth, I., Klapste, J., Chen, C., El-Kassaby, Y. A. (2017). Single-Step BLUP with Varying Genotyping Effort in Open-Pollinated Picea glauca. G3: Genes, Genomes, Genetics, 7(3), 935-942. DOI: 10.1534/g3.116.037895.
  • Rydzak, P., Ochoa Corona, F., Witefield, A. E., Wayadande, A. C. (2017). Detection and Differentiation of Arthropod-Transmitted Viruses of Cereal Crops Using Multiplex PCR and High Resolution Melting. Presented at the 2017 American Phytopathological Society Annual Meeting. DOI: 10.1094/PHYTO-107-12-S5.1.
  • Saha, S., Hosmani, P. S., Villalobos-Ayala, K., Miller, S., Shippy, T., Flores, M., Rosendale, A., Cordola, C., Bell, T., Mann, H., DeAvila, G., DeAvila, D., Moore, Z., Buller, K., Ciolkevich, K., Nandyal, S., Mahoney, R., Van Voorhis, J., Dunlevy, M., Farrow, D., Hunter, D., Morgan, T., Shore, K., Guzman, B., Izsak, A., Dixon, D. E., Cridge, A., Cano, L., Cao, X., Jiang, H., Leng, N., Johnson, S., Cantarel, B. L., Richards, S., English, A., Shatters, R. G., Childers, C., Chen, M. J., Hunter, W., Cilia, M., Mueller, L. A., Munoz-Torres, M., Nelson, D., Poelchau, M. F., Benoit, J. B., Wiersma-Koch, H., D’Elia, T., Brown, S. J. (2017). Improved annotation of the insect vector of citrus greening disease: biocuration by a diverse genomics community. Database: The Journal of Biological Databases and Curation. DOI: 10.1093/database/bax032.
  • Sandoval Pineda, J. F., Ochoa Corona, F. M., Torres Rojas, E. (2017). Evaluación de diferentes métodos de extracción de ARN a partir del hongo nativo Xylaria sp. Revista Colombiana de Biotecnología, 19(1), 42. DOI: 10.15446/rev.colomb.biote.v19n1.57114.
  • Scholtz, R., Polo, J. A., Fuhlendorf, S. D., Duckworth, G. D. (2017). Land cover dynamics influence distribution of breeding birds in the Great Plains, USA. Biological Conservation, 209, 323-331. DOI: 10.1016/j.biocon.2017.02.028.
  • Shah, J. K., Marin‐Rimoldi, E., Mullen, R. G., Keene, B. P., Khan, S., Paluch, A. S., Rai, N., Romanielo, L. L., Rosch, T. W., Yoo, B., Maginn, E. J. (2017). Cassandra: An open source Monte Carlo package for molecular simulation. Journal of Computational Chemistry., 38(19), 1727-1739. DOI: 10.1002/jcc.24807.
  • Shukla, K., Jaiswal, P. (2017). Wavefield-based regularization of multicomponent seismic data. Proceedings of the 2017 Society of Exploration Geophysicists International Exposition and Annual Meeting.
  • Shukla, K., Jaiswal, P., Carcione, J., Santos, J. (2017). Effect of capillary pressure on seismic velocities. Society of Exploration Geophysicists Technical Program Expanded Abstracts, , 4184-4189. DOI: 10.1190/segam2017-17751776.1.
  • Smith, P.M., Borunda, M. F. (2017). Torsional Potential Energy Surfaces of Dinitrobenzene Isomers. Advances in Condensed Matter Physics, 2017(3296845). DOI: 10.1155/2017/3296845.
  • Song, J., Carver, B. F., Powers, C., Yan, L., Klapste, J., El-Kassaby, Y. A., Chen, C. (2017). Practical application of genomic selection in a doubled-haploid winter wheat breeding program. Molecular Breeding, 37(117). DOI: 10.1007/s11032-017-0715-8.
  • Thistlethwaite, F. R., Ratcliffe, B., Klapste, J., Porth, I., Chen, C., Stoehr, M. U., El-Kassaby, Y. A. (2017). Genomic prediction accuracies in space and time for height and wood density of Douglas-fir using exome capture as the genotyping platform. BMC Genomics, 18(1), 930. DOI: 10.1186/s12864-017-4258-5.
  • Wang, B., Yi, H., Xu, K., Wang, Q. (2017). Prediction of the self-accelerating decomposition temperature of organic peroxides using QSPR models. Journal of Thermal Analysis and Calorimetry, 128(1), 399-406. DOI: 10.1007/s10973-016-5922-8.
  • Wang, J., Wu, S., Geng, J., Jaiswal, P. (2017). Acoustic wave attenuation in the gas hydrate-bearing sediments of Well GC955H, Gulf of Mexico. Marine Geophysical Research, 2017. DOI: 10.1007/s11001-017-9336-1.
  • Williamson, C. H. (2017). Computational Studies of 2D Diffusion and Water Nucleation. Dissertation.
  • Williamson, C. H., Hall, J. R., Fennell, C. J. (2017). Two-dimensional molecular simulations using rose potentials. Journal of Molecular Liquids, 228, 11-18. DOI: 10.1016/j.molliq.2016.10.016.
  • Yeh, K. B., Monagin, C., Fletcher, J. (2017). Promoting Scientific Transparency to Facilitate the Safe and Open International Exchange of Biological Materials and Electronic Data. Tropical Medicine and Infectious Disease, 2(4), 57. DOI: 10.3390/tropicalmed2040057.

2016

  • Andreason, S., Schneider, W., Wayadande, A. (2016). Detection of plant pathogens within insect vector transcriptome sequencing datasets. Proceedings of the 2016 annual meeting of the Entomological Society of America Southwestern Branch.
  • Avramov, A. P., Couger, M. B., Hartley, E. L., Land, C., Wellendorf, R., Hanafy, R. A., Budd, C., French, D. P., Hoff, W. D., Youssef, N. (2016). Draft genome sequence of Microbacterium oleivorans strain Wellendorf implicates heterotrophic versatility and bioremediation potential. Genomics Data, 10, 54-60. DOI: 10.1016/j.gdata.2016.09.005.
  • Babu, B., Jeyaprakash, A., Jones, D., Schubert, T. S., Baker, C., Washburn, B. K., Miller, S. H., Poduch, K., Knox, G. W., Ochoa-Corona, F. M., Paret, M. L. (2016). Development of a rapid, sensitive TaqMan real-time RT-PCR assay for the detection of Rose rosette virus using multiple gene targets. Journal of Virological Methods, 235, 41-50. DOI: 10.1016/j.jviromet.2016.05.010.
  • Babu, K. S., Bajc, B., Saad, S. (2016). New class of SO (10) models for flavor. Physical Review D, 94(1), 15030. DOI: 10.1103/PhysRevD.94.015030.
  • Behafarid, F., Brasseur, J. G., Vijayakumar, G., Jayaraman, B., Wang, Y. (2016). Computational Studies of Drug Release, Transport and Absorption in the Human Intestines. 69th Annual Meeting of the American Physical Society Division of Fluid Dynamics, 61(20).
  • Blagden, T., Schneider, W., Melcher, U., Daniels, J., Fletcher, J. (2016). Adaptation and Validation of E-Probe Diagnostic Nucleic Acid Analysis for Detection of Escherichia coli O157: H7 in Metagenomic Data from Complex Food Matrices. Journal of Food Protection, 79(4), 574-581. DOI: 10.4315/0362-028X.JFP-15-440.
  • Brini, E., Paranahewage, S. S., Fennell, C. J., Dill, K. A. (2016). Adapting the semi-explicit assembly solvation model for estimating water-cyclohexane partitioning with the SAMPL5 molecules. Journal of Computer-Aided Molecular Design, 30(11), 1067-1077. DOI: 10.1007/s10822-016-9961-9..
  • Buchanan, J. W., Reecy, J. M., Garrick, D. J., Duan, Q., Beitz, D. C., Koltes, J. E., Saatchi, M., Koesterk, L., Mateescu, R. G. (2016). Deriving Gene Networks from SNP Associated with Triacylglycerol and Phospholipid Fatty Acid Fractions from Ribeyes of Angus Cattle. Frontiers in Genetics, 7, 116. DOI: 10.3389/fgene.2016.00116.
  • Calkins, S., Couger, M. B., Jackson, C., Zandler, J., Hudgins, G. C., Hanafy, R. A., Budd, C., French, D. P., Hoff, W. D., Youssef, N. (2016). Draft genome sequence of Staphylococcus hominis strain Hudgins isolated from human skin implicates metabolic versatility and several virulence determinants. Genomics Data, 10, 91-96. DOI: 10.1016/j.gdata.2016.10.003.
  • Calkins, S., Youssef, N. H. (2016). Insights into the Utility of the Focal Adhesion Scaffolding Proteins in the Anaerobic Fungus Orpinomyces sp. C1A. PLoS ONE, 11(9), e0163553. DOI: 10.1371/journal.pone.0163553.
  • Cho, J., Campbell, P., Wang, M., Alqathami, M., Mawlawi, O., Kerr, M., Cho, S. H. (2016). Feasibility of hydrogel fiducial markers for in vivo proton range verification using PET. Physics in Medicine and Biology, 61(5), 2162. DOI: 10.1088/0031-9155/61/5/2162.
  • Cho, J., Gonzalez-Lepera, C., Manohar, N., Kerr, M., Krishnan, S., Cho, S. H. (2016). Quantitative investigation of physical factors contributing to gold nanoparticle-mediated proton dose enhancement. Physics in Medicine and Biology, 61(6), 2562. DOI: 10.1088/0031-9155/61/6/2562..
  • Cho, J., Ibbott, G. S., Kerr, M. D., Amos, R. A., Stingo, F. C., Marom, E. M., Truong, M. T., Palacio, D. M., Betancourt, S. L., Erasmus, J. J., DeGroot, P. M., Carter, B. W., Gladish, G. W., Sabloff, B. S. Benveniste, M. F., Godoy, M. C., Patil, S., Sorensen, J., Mawlawi, O. R. (2016). Characterizing proton-activated materials to develop PET-mediated proton range verification markers. Physics in Medicine and Biology, 61(11), N291-N310. DOI: 10.1088/0031-9155/61/11/n291.
  • Cho, J., Wang, M., Gonzalez‐Lepera, C., Mawlawi, O., Cho, S. H. (2016). Development of bimetallic (Zn@ Au) nanoparticles as potential PET‐imageable radiosensitizers. Medical Physics, 43(8), 4775-4788. DOI: 10.1118/1.4958961.
  • Couger, M. B., Wright, A., Lutter, E. I., Youssef, N. (2016). Draft Genome Sequences of Five Pseudomonas aeruginosa Clinical Strains Isolated from Sputum Samples from Cystic Fibrosis Patients. Genome announcements, 4(1), e01528-15. DOI: 10.1128/genomeA.01528-1.
  • Daniel, J., Gallucci Mazziero, B., Dunn, B., Ochoa-Corona, G. (2016). A preemptive detection system to screen water for the presence of plant viruses. Presented at the 2016 American Phytopathological Society Annual Meeting. DOI: 10.1094/phyto-106-12-s4.3.
  • Daniels, J. (2016). Capturing Waterborne Plant Pathogenic Viruses: A Novel Tool for Agricultural Diagnostics using Three Model Viruses. Dissertation.
  • Das, S., Mykles, D. L. (2016). A comparison of resources for the annotation of a de novo assembled transcriptome in the molting gland (Y-organ) of the blackback land crab, Gecarcinus lateralis. Integrative and Comparative Biology, 56(6), 1103-1112. DOI: 10.1093/icb/icw107.
  • 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. DOI: 10.1016/j.cbd.2015.11.003.
  • Ding, T., Melcher, U. (2016). Influences of plant species, season and location on leaf endophytic bacterial communities of non-cultivated plants. PLoS ONE, 11(3), e0150895. DOI: 10.1371/journal.pone.0150895.
  • Dobhal, S., Olson, J. D., Arif, M., Garcia Suarez, J. A., Ochoa-Corona, F. M. (2016). A simplified strategy for sensitive detection of Rose rosette virus compatible with three RT-PCR chemistries. Journal of Virological Methods, 232, 47-56. DOI: 10.1016/j.jviromet.2016.01.013.
  • Doust, A. N. (2016). The Effect of Photoperiod on Flowering Time, Plant Architecture, and Biomass in Setaria. In Doust, A., Diao X. (eds) Genetics and Genomics of Setaria. Plant Genetics and Genomics: Corp and Models, 19. DOI: 10.1007/978-3-319-45105-3_12.
  • Foster, C. A. (2016). A Computational Approach for Accessing Phosphorylated Response Regulator Conformations and Signaling Complexes Involving the Fungal Phosphorelay Protein YPD1. Dissertation.
  • Foster, C. A., West, A. H. (2016). Use of restrained molecular dynamics to predict the conformations of phosphorylated receiver domains in two-component signaling systems. Proteins: structure, function, and bioinformatics, 85(1), 155-176. DOI: 10.1002/prot.25207.
  • Frahm, K. A., Peffer, M. E., Zhang, J. Y., Luthra, S., Chakka, A. B., Couger, M. B., Chandran, U. R., Monaghan, A. P., DeFranco, D. B. (2016). Research resource: the dexamethasone transcriptome in hypothalamic embryonic neural stem cells. Molecular Endocrinology, 30(1), 144-154. DOI: 10.1210/me.2015-1258.
  • Francisco, C. A., Mermin, J., Schweig, J. (2016). LCM lattices supporting pure resolutions. Proceedings of the American Mathematical Society, 144, 2315-2325. DOI: 10.1090/proc/12890.
  • Gallucci Mazziero, B. (2016). Waterborne plant virus sampling and detection in aqueous environment . Presented at the 2016 American Phytopathological Society Annual Meeting. DOI: 10.1094/PHYTO-106-12-S4.1.
  • Garcia Suarez, J. A., Dobhal, S., Ochoa Corona, F. M. (2016). Virus Detection of Tobamovirus with Wide Spectrum Degenerate Oligonucleotides by TD-RT-PCR High Resolution Melting. Presented at the 2016 International Congress of Biotechnology and Biodiversity in Guayaquil, Ecuador, , 40.
  • Habiger, J., Watts, D., Anderson, M. (2016). Multiple testing with heterogeneous multinomial distributions. Biometrics, 73(2), 562-570. DOI: 10.1111/biom.12586.
  • Hanafy, R. A., Couger, M. B., Baker, K., Murphy, C., O’Kane, S. D., Budd, C., French, D. P., Hoff, W. D., Youssef, N. (2016). Draft genome sequence of Micrococcus luteus strain O'Kane implicates metabolic versatility and the potential to degrade polyhydroxybutyrates. Genomics Data, 9, 148-153. DOI: 10.1016/j.gdata.2016.08.006.
  • Harris, A. J., Fu, C., Xiang, Q. Y. J., Holland, L., Wen, J. (2016). Testing the monophyly of Aesculus L. and Billia Peyr., woody genera of tribe Hippocastaneae of the Sapindaceae. Molecular Phylogenetics and Evolution, 102, 145-151. DOI: 10.1016/j.ympev.2016.06.001.
  • Jayaraman, B., Brasseur, J., Haupt, S., Lee, J. (2016). Deviations from Equilibrium in Daytime Atmospheric Boundary Layer Turbulence arising from Nonstationary Mesoscale Forcing. 69th Annual Meeting of the American Physical Society Division of Fluid Dynamics, 61(20).
  • Kanost, M. R., Arrese, E. L., Cao, X., Chen, Y. R., Chellapilla, S., Goldsmith, M. R., Grosse-Wilde, E., Heckel, D. G., Herndon, N., Jiang, H., Papanicolaou, A., Qu, J., Soulages, J. L., Vogel, H., Walters, J. Waterhouse, R. M., Ahn, S. J., Almeida, F. C., An, C., Aqrawi, P., Bretschneider, A., Bryant, W. B., Bucks, S., Chao, H., Chevignon, G., Christen, J. M., Clarke, D. F., Dittmer, N. T., Ferguson, L. C. F., Garavelou, S., Gordon, K. H. J., Gunaratna, R. T. Han, Y. Hauser, F., He, Y., Heidel-Fischer, H., Hirsh, A., Hu, Y., Jiang, H., Kalra, D., Klinner, C., Konig C., Kovar, C., Kroll, A. R., Kuwar, S. S., Lee, S. L., Lehman, R., Li, K., Li, Z., Liang, H., Lovelace, S., Lu, Z., Mansfield, J. H., McCulloch, K. J., Mathew, T., Morton, B., Muzny, D. M., Neunemann, D., Ongeri, F., Pauchet, Y., Pu, L. L., Pyrousis, L., Rao, X. J., Redding, A., Roesel, C., Sanchez-Gracia, A., Schaack, S., Shukla, A., Tetreau, G., Wang, Y., Xiong, G. H., Traut, W., Walsh, T. K., Worley, K. C., Wu, D., Wu, W., Wu, Y. Q., Zhang, X., Zucker, H., Briscoe, A. D., Burmester, T., Clem, R. J., Feyereisen, R., Grimmelikhuijzen C. J. P., Hamodrakas, S. J., Hansson, B. S., Huguet, E., Jermiin, L. S., Lan, Q., Lehman, H. K., Lorenzen, M., Merzendorfer, H., Michalopoulos, L., Morton, D. B., Muthukrishnan, S., Oakeshott, J. G., Plmer, W., Park, Y., Passarelli, A. L., Rozas, J., Schwarts, L. M., Smith, w., Southgate, A., Vilcinskas, A., Vogt, R., Wang, P., Werren, J., Yu, X. Q., Zhou, J. J., Brown, S. J., Scherer, S. E., Richars, S., Blissard, G. W. (2016). Multifaceted biological insights from a draft genome sequence of the tobacco hornworm moth, Manduca sexta. Insect Biochemistry and Molecular Biology, 76, 118-147. DOI: 10.1016/j.ibmb.2016.07.005.
  • Kapoor, U., Shah, J. K. (2016). Preferential Ionic Interactions and Microscopic Structural Changes Drive Nonideality in Binary Ionic Liquid Mixtures as Revealed from Molecular Simulations. Industrial Engineering Chemistry Research, 55(51), 13132-13146. DOI: 10.1021/acs.iecr.6b03314.
  • Katsalirou, E., Deng, S., Gerakis, A., Nofziger, D. L. (2016). Long-term management effects on soil P, microbial biomass P, and phosphatase activities in prairie soils. European Journal of Soil Biology, 76, 61-69. DOI: 10.1016/j.ejsobi.2016.07.001.
  • Konemann, C. E., Kard, B. M., Payton, M. E., Deng, S. P., Warren, J. G., Wilson, T. M. (2016). CO2 Emissions from Soil on Oklahoma’s Tallgrass Prairie Preserve in the Presence or Absence of Termites (Isoptera: Rhinotermitidae). The American Midland Naturalist, 176(1), 60-71. DOI: 10.1674/0003-0031-176.1.60.
  • Lam, W. (2016). Phase-modulation induced quantum accelerator modes. Dissertation.
  • Larrea Sarmiento, A. E., Arif, M., Olmedo Velarde, A., Olson, J., Ochoa Corona, F. M. (2016). Sensitive Detection and Discrimination of HPWMoV, WSMV and TriMV Using Multiplex RT-PCR (Part II): Discrimination and Detection of Populations by High Resolution Melting. Presented at the 2016 International Congress of Biotechnology and Biodiversity in Guayaquil, Ecuador, , 39.
  • Li, X. F. (2016). Microbial Communities in Soil Ecosystems of Under Different Land Uses. Dissertation.
  • Liang, Y. (2016). Bayesian nonparametric inference for panel count data with dependent observation times. Proceedings of the 2016 ICSA Applied Statistics Symposium.
  • Ma, J., Pajouh, F. M., Balasundaram, B., Boginski, V. (2016). The minimum spanning k-core problem with bounded CVaR under probabilistic edge failures. INFORMS Journal on Computing, 28(2), 295-307. DOI: 10.1287/ijoc.2015.0679.
  • Maulik, R., San, O. (2016). Dynamic modeling of the horizontal eddy viscosity coefficient for quasigeostrophic ocean circulation problems. Journal of Ocean Engineering and Science, 1(4), 300-324. DOI: 10.1016/j.joes.2016.08.002.
  • Mazziero, B. G. (2016). Assessment of a virus sampling and detection method for water testing using Pepino mosaic virus. Dissertation.
  • Miao, Z. (2016). Combinatorial and global optimization approaches to the maximum quasi-clique. Dissertation.
  • Miller, N. T., Fuller, D., Couger, M. B., Bagazinski, M., Boyne, P., Devor, R. C., Hanafy, R. A., Budd, C., French, D. P., Hoff, W. D., Youssef, N. (2016). Draft genome sequence of Pseudomonas moraviensis strain Devor implicates metabolic versatility and bioremediation potential. Genomics Data, 9, 154-159. DOI: 10.1016/j.gdata.2016.08.004.
  • Moghadam, F., Couger, M. B., Russ, B., Ramsey, R., Hanafy, R. A., Budd, C., French, D. P., Hoff, W. D., Yousseff, N. (2016). Draft genome sequence and detailed analysis of Pantoea eucrina strain Russ and implication for opportunistic pathogenesis. Genomics Data, 10, 63-68. DOI: 10.1016/j.gdata.2016.09.006.
  • Mohanty, R. P. (2016). Pollen Biology and Landscape Ecology of Juniperus: An Integrative Study Using Quantitave Molecular Approaches, Ultrastructure and Habitat Modeling. Dissertation.
  • Molina Cardenas, S., Salazar Aguirre, A., Ochoa Corona, F., Olson, J. (2016). Fluorogenic Detection of Plant Viruses by Helicase Dependent Amplification with Self-Quenched Primers. Presented at the 2016 American Phytopathological Society Annual Meeting. DOI: 10.1094/PHYTO-106-12-S4.1.
  • Moncrief, I., Garzon, C., Marek, S., Stack, J., Gamliel, A., Garrido, P., Proano, F., Gard, M., Dehne, H., Fletcher, J. (2016). Development of simple sequence repeat (SSR) markers for discrimination among isolates of Fusarium proliferatum. Journal of Microbiological Methods, 126, 12-17. DOI: 10.1016/j.mimet.2016.03.013.
  • Moore, J., Yang, R., Wheeler, K., Youssef, N. (2016). Mentor1Sequencing the Microbial World One Bug at a Time. Research Reports from Life Science Freshmen Research Scholars, 2(1).
  • Moradi, E. (2016). Decomposition algorithms for detecting low-diameter clusters in graphs. Dissertation.
  • Mortazavian, H. (2016). Polymer Adsorption on Silica and Wettability of Graphene Oxide Surfaces, Experiments and Simulations. Dissertation.
  • Mortazavian, H., Fennell, C. J., Blum, F. D. (2016). Structure of the Interfacial Region in Adsorbed Poly(vinyl acetate) on Silica. Macromolecules, 49(1), 298-307. DOI: 10.1021/acs.macromol.5b02214.
  • Mortazavian, H., Fennell, C. J., Blum, F. D. (2016). Surface Bonding is Stronger for Poly(methyl methacrylate) than for Poly(vinyl acetate). Macromolecules, 49(11), 4211-4219. DOI: 10.1021/acs.macromol.6b00521.
  • Mykles, D. L., Burnett, K. G., Durica, D. S., Joyce, B. L., McCarthy, F. M., Schmidt, C. J., Stillman, J. H. (2016). Resources and recommendations for using transcriptomics to address grand challenges in comparative biology. Integrative and Comparative Biology, 56(6), 1183-1191. DOI: 10.1093/icb/icw083.
  • Neeman, H., Bergstrom, A., Brunson, D., Ganote, C., Gray, Z., Guilfoos, B., Kalescky, R., Lemley, E., Moore, B. G., Ramadugu, S. K., Romanella, A., Rush, J., Sherman, A. H., Stengel, B., Voss, D. (2016). The Advanced Cyberinfrastructure Research and Education Facilitators Virtual Residency: Toward a National Cyberinfrastructure Workforce. Proceedings of XSEDE ‘16, article 57. DOI: 10.1145/2949550.2949584.
  • Ochoa Corona, F. M., Daniels, J., Gallucci Mazziero, B., Carrillo Tarazona, Y., Cardozo Brugos, C., Ochoa, F. M. (2016). Toward Broad Detection of Plant Waterborne Viruses. Presented at the 2016 International Congress of Biotechnology and Biodiversity in Guayaquil, Ecuador, , 42.
  • Ochoa Corona, F., Salazar Aguirre, A. A. M., Molina Cardenas, S., Olmedo Velarde, A., Dobhal, S., Olson, J., Babu, B., Paret, M. (2016). Development of efficient diagnostic tools to enable rapid, easy-to-use, accurate and affordable detection of Rose rosette virus. Presented at the 2016 American Phytopathological Society Annual Meeting. DOI: 10.1094 / PHYTO-106-12-S4.164.
  • Olmedo Velarde, A., Larrea Sarmiento, A. E., Flores, F. J., Elbeaino, T., Ochoa Corona, F. M. (2016). Toward a Broad Detection of EmaravirusSpecies: qRT-PCR-HRM and Endpoint RT-PCR. Presented at the 2016 International Congress of Biotechnology and Biodiversity in Guayaquil, Ecuador, , 41.
  • Olmedo Velarde, A., Larrea Sarmiento, A. E., Ochoa Corona, F. M. (2016). Discriminating PotexvirusSpecies by qRT-PCR Coupled to High Resolution Melting. Presented at the 2016 International Congress of Biotechnology and Biodiversity in Guayaquil, Ecuador, , 63.
  • Olmedo Velarde, A., Ochoa Corona, F., Elbeaino, T. (2016). Toward broad detection of emaraviruses: Endpoint RT-PCR. Presented at the 2016 American Phytopathological Society Annual Meeting. DOI: 10.1094/PHYTO-106-12-S4.1.
  • Olmedo-Velarde, A., Ochoa-Corona, F. (2016). Discriminating Potexvirus species by RT-PCR coupled to High Resolution Melting . Presented at the 2016 American Phytopathological Society Annual Meeting. DOI: 10.1094/phyto-106-12-s4.2.
  • Pajouh, F. M., Balasundaram, B., Hicks, I. V. (2016). On the 2-club polytope of graphs. Operations Research, 64(6), 1466-1481. DOI: 10.1287/opre.2016.1500.
  • Paranahewage, S. S., Gierhart, C. S., Fennell, C. J. (2016). Predicting water-to-cyclohexane partitioning of the SAMPL5 molecules using dielectric balancing of force fields. Journal of Computer-Aided Molecular Design, 30(11), 1059-1065. DOI: 10.1007/s10822-016-9950-z..
  • Pena Zuniga, L., Ochoa-Corona, G., Ali, A. (2016). Multiplex RT-PCR detection of eight viruses infecting cucurbits and discrimination using High Resolution Melting analysis . Presented at the 2016 American Phytopathological Society Annual Meeting. DOI: 10.1094/phyto-106-12-s4.4.
  • Salazar, A., Molina, S., Ochoa Corona, F. M., Olson, J. (2016). Detección de Rose Rosette Virus Medianteel Método de Amplificación Isotérmica de Ácidos Nucleicos Lamp (Loop-Mediated Isothermal Amplification). Presented at the 2016 International Congress of Biotechnology and Biodiversity in Guayaquil, Ecuador, , 43.
  • Schneider, W. D. H., Gonçalves, T. A., Uchima, C. A., Couger, M. B., Prade, R., Squina, F. M., Dillon, A. J. P., Camassola, M. (2016). Penicillium echinulatum secretome analysis reveals the fungi potential for degradation of lignocellulosic biomass. Biotechnology for Biofuels, 9(1), 66. DOI: 10.1186/s13068-016-0476-3.
  • Selvaraju, S., Adhikari, S., Hopson, R. A., Dai, S., Rheingold, A. L., Borunda, M. F., Nelson, T. L. (2016). Effects of structural variations on the optical and electronic properties of eumelanin-inspired small molecules. Journal of Materials Chemistry C, 4(18), 3995-3999. DOI: 10.1039/C5TC03982G.
  • Singh, A., Fennell, C. J., Weaver, J. D. (2016). Photocatalyst size controls electron and energy transfer: selectable E/Z isomer synthesis via C–F alkenylation. Chemical Science, 7(11), 6796-6802. DOI: 10.1039/C6SC02422J.
  • Suarez, J. G., Dobhal, S., Ochoa-Corona, F. (2016). Virus detection of Tobamovirus with wide spectrum degenerate oligonucleotides by TD RT-PCR High Resolution Melting . Presented at the 2016 American Phytopathological Society Annual Meeting. DOI: 10.1094/phyto-106-12-s4.1.
  • Timmons, C., Trees, E., Ribot, E. M., Gerner-Smidt, P., LaFon, P., Im, S., Ma, L. M. (2016). Multiple-locus variable-number tandem repeat analysis for straindiscrimination of non-O157 Shiga toxin-producingEscherichia coli. Journal of Microbiological Methods, 125, 70-80. DOI: 10.1016/j.mimet.2016.04.005.
  • Van Den Bussche, R. A., Judkins, M. E., Montague, M. J., Warren, W. C. (2016). A Resource of Genome-Wide Single Nucleotide Polymorphisms (Snps) for the Conservation and Management of Golden Eagles. Journal of Raptor Research, 51(1), 368-377. DOI: 10.3356/JRR-16-47.1.
  • Vijayakumar, G., Brasseur, J., Lavely, A. W., Jayaraman, B., Craven, B. (2016). Interaction of Atmospheric Turbulence with Blade Boundary Layer Dynamics on a 5MW Wind Turbine using Blade-boundary-layer-resolved CFD with hybrid URANS-LES. Presented at the 34th Wind Energy Symposium. DOI: 10.2514/6.2016-0521.
  • Zhao, S., Chen, X., Deng, S., Dong, X., Song, A., Yao, J., Fang, W., Chen, F. (2016). The Effects of Fungicide, Soil Fumigant, Bio-Organic Fertilizer and Their Combined Application on Chrysanthemum Fusarium Wilt Controlling, Soil Enzyme Activities and Microbial Properties. Molecules, 21(4), 526. DOI: 10.3390/molecules21040526.

2015

  • Al-Rubaye, A. A., Couger, M. B., Ojha, S., Pummill, J. F., Koon II, J. A., Wideman Jr, R. F., Rhoads, D. D. (2015). Genome analysis of Staphylococcus agnetis, an agent of lameness in broiler chickens. PLoS ONE, 10(11), e0143336. DOI: 10.1371/journal.pone.0143336.
  • Balasundaram, B. (2015). Cliques Clubs. Proceedings of a seminar series for the Department of Industrial and Systems Engineering at Texas A&M University.
  • Balasundaram, B. (2015). On the 2-club polytope of graphs. Proceedings of the 22nd International Symposium on Mathematical Programming.
  • Brasseur, J., Bajali, J., Haupt, S., Lee, J. (2015). Nonequilibrium Response of the Daytime Atmospheric Boundary Layer to Mesoscale Forcing. Presented at the 2015 American Physical Society Meeting.
  • Brunson, D., Akin, D., Alderman, P., Creager, G., Deaton, J., Dumancas, G., Evert, J., Fennell, C., Fondjo, F., Gentis, D., Havle, J., Hoyt, P., Lemley, E., Linde, E., Louthan, G., Mehta, P., Morris, M., Schafer, J., Severini, H., Snow, J., Xiong, N., Neeman, H. (2015). The OneOklahoma Cyberinfrastructure Initiative: A Model for Multi-Institutional Collaboration Conference. National Science Foundation Workshop on The Role of Regional Organizations in Imporving Access to National Cyberinfrastructure, white paper.
  • Buchanan, J.W., Koltes, J.E., Reecy, J.M., Mateescu, R.G. (2015). Deriving gene networks involving tenderness and sensory attributes in steaks from Angus beef cattle. Proceedings of the 23rd International Plant and Animal Genome Conference.
  • Cao, X., He, Y., Hu, Y., Wang, Y., Chen, Y. R., Bryant, B., Clem, R. J., Schwartz, L. M., Blissard, G., Jiang, H. (2015). The immune signaling pathways of Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 64-74. DOI: 10.1016/j.ibmb.2015.03.006.
  • Cao, X., He, Y., Hu, Y., Zhang, X., Wang, Y., Zou, Z., Chen, Y., Blissard, G. W., Kanost, M. R., Jiang, H. (2015). Sequence conservation, phylogenetic relationships, and expression profiles of nondigestive serine proteases and serine protease homologs in Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 51-63. DOI: 10.1016/j.ibmb.2014.10.006.
  • Cao, X., Jiang, H. (2015). Integrated modeling of protein-coding genes in the Manduca sexta genome using RNA-Seq data from the biochemical model insect. Insect Biochemistry and Molecular Biology, 62, 2-10. DOI: 10.1016/j.ibmb.2015.01.007.
  • Couger, M. B., Hanafy, R. A., Edens, C., Budd, C., French, D. P., Hoff, W. D., Elshahed, M. S., Youssef, N. H. (2015). Draft Genome of the Arthrobacter sp. Strain Edens01. Genome Announcements, 3(6), e01475-15. DOI: 10.1128/genomeA.01475-15.
  • Couger, M. B., Hanafy, R. A., Mitacek, R. M., Budd, C., French, D. P., Hoff, W. D., Elshahed, M. S., Youssef, N. H. (2015). The Draft Genome Sequence of Xanthomonas sp. Strain Mitacek01 Expands the Pangenome of a Genus of Plant Pathogens. Genome Announcements, 3(6), e01450-15. DOI: 10.1128/genomeA.01450-15.
  • Couger, M. B., Hurlbut, A., Murphy, C. L., Budd, C., French, D. P., Hoff, W. D., Elshahed, M. S., Youssef, N. H. (2015). Draft Genome Sequence of the Environmental Isolate Chryseobacterium sp. Hurlbut01. Genome Announcements, 3(5), e01071-15. DOI: 10.1128/genomeA.01071-15.
  • Couger, M. B., Youssef, N. H., Struchtemeyer, C. G., Liggenstoffer, A. S., Elshahed, M. S. (2015). Transcriptomic analysis of lignocellulosic biomass degradation by the anaerobic fungal isolate Orpinomyces sp. strain C1A. Biotechnology for Biofuels, 8(1), 208. DOI: 10.1186/s13068-015-0390-0.
  • Dutta, M., Ali, A., Melcher, U. (2015). Detection, discrimination and discovery of a new Tobacco streak virus strain. Journal of Virological Methods, 221, 15-21. DOI: 10.1016/j.jviromet.2015.03.025.
  • Espindola, A., Schneider, W., Hoyt, P. R., Marek, S. M., Garzon, C. (2015). A new approach for detecting fungal and oomycete plant pathogens in next generation sequencing metagenome data utilising electronic probes. International Journal of Data Mining and Bioinformatics, 12(2), 115-128. DOI: 10.1504/IJDMB.2015.069422.
  • Gao, Y. D., Harris, A. J., He, X. J. (2015). Morphological and ecological divergence of Lilium and Nomocharis within the Hengduan Mountains and Qinghai-Tibetan Plateau may result from habitat specialization and hybridization. BMC Evolutionary Biology, 15(1), 147. DOI: 10.1186/s12862-015-0405-2.
  • He, Y., Cao, X., Li, K., Hu, Y., Chen, Y. R., Blissard, G., Kanost, M. R., Jiang, H. (2015). A genome-wide analysis of antimicrobial effector genes and their transcription patterns in Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 23-37. DOI: 10.1016/j.ibmb.2015.01.015.
  • Heisterkamp, D.R. (2015). Lambda-Consensus Clustering. Proceedings of the 14th IEEE International Conference on Machine Learning and Applications.
  • Jayaraman, B., Brasseur, J., Wang, Y. (2015). Influence of Non-homogeneous Particle Distributions on Drug Release in a Couette in vitro Dissolution Device. 68th Annual Meeting of the American Physical Society Division of Fluid Dynamics, 60(21).
  • Ma, J. (2015). Proactive approaches for system design under uncertainty applied to network synthesis and capacity planning. Dissertation.
  • Matyi, S. A., Hoyt, P. R., Ayoubi-Canaan, P., Hasan, N. A., Gustafson, J. E. (2015). Draft genome sequence of strain ATCC 33958, reported to be Elizabethkingia miricola. Genome Announcements, 3(4), e00828-15. DOI: 10.1128/genomeA.00828-15.
  • Miao, Z. (2015). On the Lagrangian dual of the maximum quasiclique problem. Proceedings of the 2015 INFORMS Annual Meeting.
  • Moradi, E., Balasundaram, B. (2015). Finding a maximum k-club using the k-clique formulation and canonical hypercube cuts. Optimization Letters, , 1-11. DOI: 10.1007/s11590-015-0971-7.
  • Mortazavian, H., Fennell, C. J., Blum, F. D. (2015). Structure of the Interfacial Region in Adsorbed Poly (vinyl acetate) on Silica. Macromolecules, 49(1), 298-307. DOI: 10.1021/acs.macromol.5b02214.
  • Neeman, H., Adams, K., Alexander, J., Brunson, D., Calhoun, S. P., Deaton, J. Fondjo Fotou, F., Frinkle, K., Gray, Z., Lemley, E., Louthan, G. Monaco, G., Morris, M., Snow, J., Zimmerman, B. (2015). On Fostering a Culture of Research Cyberinfrastructure Grant Proposals within a Community of Service Providers in an EPSCoR State. Proceedings of XSEDE ‘15, article 19. DOI: 10.1145/2792745.2792764.
  • Nicholson, S. J., Nickerson, M. L., Dean, M., Song, Y., Hoyt, P. R., Rhee, H., Kim, C., Puterka, G. J. (2015). The genome of Diuraphis noxia, a global aphid pest of small grains. BMC Genomics, 16(1), 429. DOI: 10.1186/s12864-015-1525-1.
  • Prabhakaran, M., Couger, M. B., Jackson, C. A., Weirick, T., Fathepure, B. Z. (2015). Genome sequences of the lignin-degrading Pseudomonas sp. strain YS-1p and Rhizobium sp. strain YS-1r isolated from decaying wood. Genome Announcements, 3(2), e00019-15. DOI: 10.1128/genomeA.00019-15.
  • Rao, X. J., Cao, X., He, Y., Hu, Y., Zhang, X., Chen, Y. R., Blissard, G., Kanost, M. R., Yu, X. Q., Jiang, H. (2015). Structural features, evolutionary relationships, and transcriptional regulation of C-type lectin-domain proteins in Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 75-85. DOI: 10.1016/j.ibmb.2014.12.006.
  • Shyamal, S., Anilkumar, G., Bhaskaran, R., Doss, G. P., Durica, D. S. (2015). Significant fluctuations in ecdysteroid receptor gene (EcR) expression in relation to seasons of molt and reproduction in the grapsid crab, Metopograpsus messor (Brachyura: Decapoda). General and Comparative Endocrinology, 211, 39-51. DOI: 10.1016/j.ygcen.2014.11.006.
  • Tetreau, G., Cao, X., Chen, Y. R., Muthukrishnan, S., Jiang, H., Blissard, G. W., Kanost, M. R., Wang, P.. (2015). Overview of chitin metabolism enzymes in Manduca sexta: identification, domain organization, phylogenetic analysis and gene expression. Insect Biochemistry and Molecular Biology, 62, 114-126. DOI: 10.1016/j.ibmb.2015.01.006.
  • Tetreau, G., Dittmer, N. T., Cao, X., Agrawal, S., Chen, Y. R., Muthukrishnan, S., Haobo, J., Blissard, G. W., Kanost, M. R., Wang, P. (2015). Analysis of chitin-binding proteins from Manduca sexta provides new insights into evolution of peritrophin A-type chitin-binding domains in insects. Insect Biochemistry and Molecular Biology, 62, 127-141. DOI: 10.1016/j.ibmb.2014.12.002.
  • Utt, K. L., Rivero, P., Mehboudi, M., Harriss, E. O., Borunda, M. F., SanJuan, A. A. P., Barraza-Lopez, S. (2015). Intrinsic defects, fluctuations of the local shape, and the photo-oxidation of black phosphorus. ACS Central Science, 1(6), 320-327. DOI: 10.1021/acscentsci.5b00244.
  • Vemula, S., Crick, C. (2015). Hadoop Image Processing Framework. Proceedings of the 4th IEEE International Congress on Big Data.
  • Vijayakumar, G., Lavely, A., Jayaraman, B., Craven, B., Brasseur, J. (2015). Dominant mechanism of load fluctuations on a wind turbine in a realistic atmosphere through Hybrid URANS-LES. 68th Annual Meeting of the American Physical Society Division of Fluid Dynamics, 60(21).
  • Weitemier, K., Straub, S. C., Fishbein, M., Liston, A. (2015). Intragenomic polymorphisms among high-copy loci: a genus-wide study of nuclear ribosomal DNA in Asclepias (Apocynaceae). PeerJ, 3, e718. DOI: 10.7717/peerj.718.
  • Worcester, L. (2015). Phylogeny and Biogeography of the Podostemma clade, Asclepias L. (Apocynaceae). Dissertation.
  • Youssef, N. H., Couger, M. B., McCully, A. L., Criado, A. E. G., Elshahed, M. S. (2015). Assessing the global phylum level diversity within the bacterial domain: a review. Journal of Advanced Research, 6(3), 269-282. DOI: 10.1016/j.jare.2014.10.005.
  • Yukihara, E. G., Doull, B. A., Ahmed, M., Brons, S., Tessonnier, T., Jäkel, O., Greilich, S. (2015). Time-resolved optically stimulated luminescence of Al2O3: C for ion beam therapy dosimetry. Physics in Medicine and Biology, 60(17), 6613. DOI: 10.1088/0031-9155/60/17/6613.
  • Zhang, X., He, Y., Cao, X., Gunaratna, R. T., Chen, Y. R., Blissard, G., Kanost, M. R., Jiang, H. (2015). Phylogenetic analysis and expression profiling of the pattern recognition receptors: Insights into molecular recognition of invading pathogens in Manduca sexta. Insect Biochemistry and Molecular Biology, 62, 38-50. DOI: 10.1016/j.ibmb.2015.02.001.
  • Zhang, X., Zheng, Y., Cao, X., Ren, R., Yu, X. Q., Jiang, H. (2015). Identification and profiling of Manduca sexta microRNAs and their possible roles in regulating specific transcripts in fat body, hemocytes, and midgut. Insect Biochemistry and Molecular Biology, 62, 11-22. DOI: 10.1016/j.ibmb.2014.08.006.

2014

  • Alam, M. M., Vilankar, K. P., Field, D. J., Chandler, D. M. (2014). Local masking in natural images: A database and analysis. Journal of Vision, 14(8), 22-22. DOI: 10.1167/14.8.22.
  • Brian Couger, M., Pipes, L., Squina, F., Prade, R., Siepel, A., Palermo, R., Katze, M. G., Mason, C. E., Blood, P. D. (2014). Enabling large‐scale next‐generation sequence assembly with Blacklight. Concurrency and Computation: Practice and Experience, 26(13), 2157-2166. DOI: 10.1002/cpe.3231.
  • Buchanan, J.W., Koltes, J.E., Reecy, J.M., Mateescu, R.G. (2014). Deriving gene networks underlying fatty acid composition of the triacylglycerol lipid fraction in Angus longissimus muscle. Proceedings of the International Plant and Animal Genome Conference.
  • Durica, D. S., Das, S., Najar, F., Roe, B., Phillips, B., Kappalli, S., Anilkumar, G. (2014). Alternative splicing in the fiddler crab cognate ecdysteroid receptor: Variation in receptor isoform expression and DNA binding properties in response to hormone. General and Comparative Endocrinology, 206, 80-95. DOI: 10.1016/j.ygcen.2014.05.034.
  • Dutta, M., Bashir, N. S., Palmer, M. W., Melcher, U. (2014). Genomic characterization of Ambrosia asymptomatic virus 1 and evidence of other Tymovirales members in the Oklahoma tallgrass prairie revealed by sequence analysis. Archives of Virology, 159(7), 1755-1764. DOI: 10.1007/s00705-014-1985-7.
  • Farag, I. F., Davis, J. P., Youssef, N. H., Elshahed, M. S. (2014). Global patterns of abundance, diversity and community structure of the Aminicenantes (candidate phylum OP8). PLoS ONE, 9(3), e92139. DOI: 10.1371/journal.pone.0092139.
  • Keesee, M., Zhang, Y., Cox, S., Mouser, M., Chavez, C. Wall, S., Goode, A., Deaton, J., Maheshwari, S., Emery, B., Merrill, L., McVey, S., Mohr, V., Sardi, L., Neeman, H., Alexander, J., George, B., Gray, Z., Brunson, D., S. (2014). Digital Oklahoma: Harnessing the Speed of Light. Oklahoma Broadband Initiative technical report. DOI: 10.13140/RG.2.1.2293.4881.
  • Khan, M.N.A., Fan, G., Heisterkamp, D.R., Yu, L. (2014). Automatic Target Recognition in Infrared Imagery Using Dense HOG Features and Relevance Grouping of Vocabulary. Proceedings of the 2014 IEEE Workshop on Perception Beyond Visible Spectrum (in conjunction with CVPR 2014).
  • Lin, P., Chen, X., Moktan, H., Arrese, E. L., Duan, L., Wang, L., Soulages, J. L., Zhou, D. H. (2014). Membrane attachment and structure models of lipid storage droplet protein 1. Biochimica et Biophysica Acta (BBA)-Biomembranes, 1838(3), 874-881. DOI: 10.1016/j.bbamem.2013.12.003.
  • Lu, H., Bukkapatnam, S., Harimkar, S., Singh, R., Bardenhagen, S. (2014). Simulations of Failure via Three-Dimensional Cracking in Fuel Cladding for Advanced Nuclear Fuels. US Department of Energy Sponsored Technical Report. DOI: 10.2172/1116513.
  • Ma, J. (2014). The minimum spanning k-core problem with bounded CVaR under probabilistic edge failures. Proceedings of the 2014 INFORMS Annual Meeting.
  • Matyi, S. A., Ramaraj, T., Sundararajan, A., Lindquist, I. E., Devitt, N. P., Schilkey, F. D., Lamichhane-Khadka, R., Hoyt, P. R., Mudge, J., Gustafson, J. E. (2014). Draft genomes of heterogeneous vancomycin-intermediate Staphylococcus aureus strain MM66 and MM66 derivatives with altered vancomycin resistance levels. Genome Announcements, 2(4), e00688-14. DOI: 10.1128/genomeA.00688-14.
  • Melcher, U., Verma, R., Schneider, W. L. (2014). Metagenomic search strategies for interactions among plants and multiple microbes. Frontiers in Plant Science, 5, 268. DOI: 10.3389/fpls.2014.00268.
  • Miao, Z. (2014). A global optimization approach for the maximum quasi-clique problem. Proceedings of the 2014 INFORMS Annual Meeting.
  • Miao, Z., Balasundaram, B., Pasiliao, E. L. (2014). An exact algorithm for the maximum probabilistic clique problem. Journal of Combinatorial Optimization, 28(1), 105-120. DOI: 10.1007/s10878-013-9699-4.
  • Moradi, E. (2014). Finding a maximum k-club using the k-clique formation and lazy cuts. Proceedings of the 2014 INFORMS Annual Meeting.
  • Neeman, H., Akin, D., Alexander, J., Brunson, D., Calhoun S. P., Deaton, J., Fondjo Fotou, F., George, B., Gentis, D., Gray, Z., Huebsch, E., Louthan, G., Runion, M., Snow, J., Zimmerman, B. (2014). The OneOklahoma Friction Free Network: Towards a Multi-Institutional Science DMZ in an EPSCoR State. Proceedings of XSEDE ‘14, paper 72. DOI: 10.1145/2616498.2616542.
  • Norouzzadeh, P., Myles, C. W., Vashaee, D. (2014). Structural, electronic, phonon and thermodynamic properties of hypothetical type-VIII clathrates Ba 8 Si 46 and Ba 8 Al 16 Si 30 investigated by first principles. Journal of Alloys and Compounds, 587, 474-480. DOI: 10.1016/j.jallcom.2013.10.190.
  • Pajouh, F. M., Miao, Z., Balasundaram, B. (2014). A branch-and-bound approach for maximum quasi-cliques. Annals of Operations Research, 216(1), 145-161. DOI: 10.1007/s10479-012-1242-y.
  • Ramaraj, T., Matyi, S. A., Sundararajan, A., Lindquist, I. E., Devitt, N. P., Schilkey, F. D., Lamichhane-Khadka, R., Hoyt, P. R., Mudge, J., Gustafson, J. E. (2014). Draft genome sequences of vancomycin-susceptible Staphylococcus aureus related to heterogeneous vancomycin-intermediate Saureus. Genome Announcements, 2(5), e01033-14. DOI: 10.1128/genomeA.01033-14.
  • Sahu, S. S., Weirick, T., Kaundal, R. (2014). Predicting genome-scale Arabidopsis-Pseudomonas syringae interactome using domain and interolog-based approaches. BMC Bioinformatics, 15(11), S13. DOI: 10.1186/1471-2105-15-S11-S13.
  • Soufiani, A. R. (2014). Computational Studies of Molybdenum Oxide Clusters and Environmental Corrosion of Iron and Zinc. Dissertation.
  • Stobbe, A. H., Schneider, W. L., Hoyt, P. R., Melcher, U. (2014). Screening metagenomic data for viruses using the e-probe diagnostic nucleic acid assay. Phytopathology, 104(10), 1125-1129. DOI: 10.1094/PHYTO-11-13-0310-R.
  • Struchtemeyer, C. G., Ranganathan, A., Couger, M. B., Liggenstoffer, A. S., Youssef, N. H., Elshahed, M. S. (2014). Survival of the anaerobic fungus Orpinomyces sp. strain C1A after prolonged air exposure. Scientific Reports, 4. DOI: 10.1038/srep06892.
  • Ternes, C. M., Schönknecht, G. (2014). Gene transfers shaped the evolution of de novo NAD+ biosynthesis in eukaryotes. Genome Biology and Evolution, 6(9), 2335-2349. DOI: 10.1093/gbe/evu185.
  • Weirick, T., Sahu, S. S., Mahalingam, R., Kaundal, R. (2014). LacSubPred: predicting subtypes of Laccases, an important lignin metabolism-related enzyme class, using in silico approaches. BMC Bioinformatics, 15(11), S15. DOI: 10.1186/1471-2105-15-S11-S15.

2013

  • Coyner, B. S., Braun, J. K., Mares, M. A., Bussche, R. A. (2013). Taxonomic validity of species groups in the genus Akodon (Rodentia, Cricetidae). Zoologica Scripta, 42(4), 335-350. DOI: 10.1111/zsc.12014.
  • Das, S., Durica, D. S. (2013). Ecdysteroid receptor signaling disruption obstructs blastemal cell proliferation during limb regeneration in the fiddler crab, Uca pugilator. Molecular and Cellular Endocrinology, 365(2), 249-259. DOI: 10.1016/j.mce.2012.10.026.
  • Davis, M., Clarke, S. (2013). Influence of microRNA on the maintenance of human iron metabolism. Nutrients, 5(7), 2611-2628. DOI: 10.3390/nu5072611.
  • Ding, T., Palmer, M. W., Melcher, U. (2013). Community terminal restriction fragment length polymorphisms reveal insights into the diversity and dynamics of leaf endophytic bacteria. BMC Microbiology, 13(1), 1. DOI: 10.1186/1471-2180-13-1.
  • Gao, Y. D., Harris, A. J., Zhou, S. D., He, X. J. (2013). Evolutionary events in Lilium (including Nomocharis, Liliaceae) are temporally correlated with orogenies of the Q–T plateau and the Hengduan Mountains. Molecular Phylogenetics and Evolution, 68(3), 443-460. DOI: 10.1016/j.ympev.2013.04.026.
  • Haas, B. J., Papanicolaou, A., Yassour, M., Grabherr, M., Blood, P. D., Bowden, J., Couger, M. B., Eccles, D., Li, B., Lieber, M., MacManes, M. D., Ott, M., Orvis, J., Pochet, N., Strozzi, F., Weeks, N., Westerman, R., William, T., Dewey, C. N., Henschel, R., LeDuc, R. D., Friedman, N., Regev, A. (2013). De novo transcript sequence reconstruction from RNA-Seq: reference generation and analysis with Trinity. Nature protocols, 8(8). DOI: 10.1038/nprot.2013.084.
  • Kaundal, R., Sahu, S. S., Verma, R., Weirick, T. (2013). Identification and characterization of plastid-type proteins from sequence-attributed features using machine learning. BMC Bioinformatics, 14(14), S7. DOI: 10.1186/1471-2105-14-S14-S7.
  • Ma, J., Balasundaram, B. (2013). Solving chance-constrained spanning k-core problem via decomposition and integer programming. Proceedings of the 2013 Industrial and Systems Engineering Research Conference.
  • Matyi, S. A., Dupre, J. M., Johnson, W. L., Hoyt, P. R., White, D. G., Brody, T., Odenwald, W. F., Gustafson, J. E. (2013). Isolation and characterization of Staphylococcus aureus strains from a Paso del Norte dairy. Journal of Dairy Science, 96(6), 3535-3542. DOI: 10.3168/jds.2013-6590.
  • Matyi, S. A., Hoyt, P. R., Hosoyama, A., Yamazoe, A., Fujita, N., Gustafson, J. E. (2013). Draft genome sequences of Elizabethkingia meningoseptica. Genome Announcements, 1(4), e00444-13. DOI: 10.1128/genomeA.00444-13.
  • Mauro-Herrera, M., Wang, X., Barbier, H., Brutnell, T. P., Devos, K. M., Doust, A. N. (2013). Genetic control and comparative genomic analysis of flowering time in Setaria (Poaceae). G3: Genes, Genomes, Genetics, 3(2), 283-295. DOI: 10.1534/g3.112.005207.
  • Neeman, H., Brunson, D., Deaton, J., Gray, Z., Huebsch, E., Gentis, D., Horton, D. (2013). The Oklahoma Cyberinfrastructure Initiative. Proceedings of XSEDE ‘13, paper 100.
  • Nof, S. Y., Cheng, G. J., Weiner, A. M., Chen, X. W., Bechar, A., Jones, M. G., Reed, C. B., Donmez, A., Weldon, T. D., Bermel, P., Bukkapatnam, S. T. S., Cheng, C., Kumara, S. R. T., Bement, A., Koubek, R., Bidanda, B., Shin, Y. C., Capponi, A., Lee, S., Lehto, M. R., Liu, A. L., Nohadani, O., Dantus, M., Lorraine, P. W., Nolte, D. D., Proctor, R. W., Sardesai, H. P., Shi, L., Wachs, J. P., Zhang, X. C. (2013). Laser and photonic systems integration: Emerging innovations and framework for research and education. Human Factors and Ergonomics in Manufacturing Service Industries, 23(6), 483-516. DOI: 10.1002/hfm.20555.
  • Norouzzadeh, P., Myles, C. W., Vashaee, D. (2013). Electronic, elastic, vibrational, and thermodynamic properties of type-VIII clathrates Ba8Ga16Sn30 and Ba8Al16Sn30 by first principles. Journal of Applied Physics, 114(16), 163509. DOI: 10.1063/1.4826213.
  • Pham, P., Guo, Y. (2013). A semiclassical study of cis-trans isomerization in HONO using an interpolating moving least-squares potential. The Journal of Chemical Physics, 138(14), 144304. DOI: 10.1063/1.4799270.
  • Schrick, E. K., Forget, T. J., Roewe, K. D., Schrick, A. C., Moore, C. E., Golen, J. A., Rheingold, A. L., Materer, N. F., Weinert, C. S. (2013). Substituent effects in digermanes: electrochemical, theoretical, and structural investigations. Organometallics, 32(7), 2245-2256. DOI: 10.1021/om400132z.
  • Schumacher, L. L., Love, B. C., Ferrell, M., DeSilva, U., Fernando, R., Ritchey, J. W. (2013). Canine intestinal histoplasmosis containing hyphal forms. Journal of Veterinary Diagnostic Investigation, 25(2), 304-307. DOI: 10.1177/1040638713479604.
  • Schönknecht, G., Chen, W. H., Ternes, C. M., Barbier, G. G., Shrestha, R. P., Stanke, M., Brautigam, A., Baker, B. J., Banfield, J. F., Garavito, R. M., Carr, K., Wilkerson, C., Rensing, S. A., Gagneul, D., Dickenson, N. E., Oesterhelt, C., Lercher, M. J., Weber, A. P. M. (2013). Gene transfer from bacteria and archaea facilitated evolution of an extremophilic eukaryote. Science, 339(6124), 1207-1210. DOI: 10.1126/science.1231707.
  • Stobbe, A. H., Daniels, J., Espindola, A. S., Verma, R., Melcher, U., Ochoa-Corona, F., Garzon, C., Fletcher, J., Schneider, W. (2013). E-probe Diagnostic Nucleic acid Analysis (EDNA): a theoretical approach for handling of next generation sequencing data for diagnostics. Journal of Microbiological Methods, 94(3), 356-366. DOI: 10.1016/j.mimet.2013.07.002.
  • Wang, S., Rahnavard, N. (2013). Binary Compressive Sensing via Sum of l1-Norm and i(infinity)-Norm Regularization. 2013 IEEE Military Communications Conference. DOI: 10.1109/MILCOM.2013.274.
  • Wasala, L., Talley, J. L., DeSilva, U., Fletcher, J., Wayadande, A. (2013). Transfer of Escherichia coli O157: H7 to spinach by house flies, Musca domestica (Diptera: Muscidae). Phytopathology, 103(4), 373-380. DOI: 10.1094/PHYTO-09-12-0217-FI.
  • Youssef, N. H., Couger, M. B., Struchtemeyer, C. G., Liggenstoffer, A. S., Prade, R. A., Najar, F. Z., Atiyeh, H. K., Wilkins, M. R., Elshahed, M. S. (2013). The genome of the anaerobic fungus Orpinomyces sp. strain C1A reveals the unique evolutionary history of a remarkable plant biomass degrader. Applied and Environmental Microbiology, 79(15), 4620-4634. DOI: 10.1128/AEM.00821-13.

2012

  • Cheng, C., Bukkapatnam, S. T., Raff, L. M., Hagan, M., Komanduri, R. (2012). Monte Carlo simulation of carbon nanotube nucleation and growth using nonlinear dynamic predictions. Chemical Physics Letters, 530, 81-85. DOI: 10.1016/j.cplett.2012.01.067.
  • Cheng, C., Bukkapatnam, S. T., Raff, L. M., Komanduri, R. (2012). Towards control of carbon nanotube synthesis process using prediction-based fast Monte Carlo simulations. Journal of Manufacturing Systems, 31(4), 438-443. DOI: 10.1016/j.jmsy.2012.06.006.
  • Cheng, C., Bukkapatnam, S.T.S., Raff, L.M., Komanduri, R. (2012). Novel Nanoinformatics methods for scaling up atomistic-scale simulation of carbon nanotube synthesis. Proceedings of the 2012 Industrial and Systems Engineering Research Conference.
  • Constantin, P., Lai, M. C., Sharma, R., Tseng, Y. H., Wu, J. (2012). New numerical results for the surface quasi-geostrophic equation. Journal of Scientific Computing, 50(1), 1-28. DOI: 10.1007/s10915-011-9471-9.
  • Davis, M. R., Rendina, E., Peterson, S. K., Lucas, E. A., Smith, B. J., Clarke, S. L. (2012). Enhanced expression of lipogenic genes may contribute to hyperglycemia and alterations in plasma lipids in response to dietary iron deficiency. Genes Nutrition, 7(3), 415-425. DOI: 10.1007/s12263-011-0278-y.
  • Ding, T. (2012). The Analysis of the Diversity and Distribution of Leaf Endophytic Bacterial Communities. Dissertation.
  • Espindola, A.S., Garzon, C.D., Fletcher, J., Schneider, W.L. (2012). Validation of EDNA, a newly developed bioinformatics tool, for the detection of Pythium ultimum from metagenomic samples. Proceedings of the 2012 Annual Meeting of the American Phytopathological Society.
  • Fernando, B.R., Hermansky, S., Kim, H., Bible, M.R., Carter, S.D., DeSilva, U. (2012). Impact of diet on swine fecal microbiome. Proceedings of the International Conference on the Status of Plant and Animal Genome Research.
  • Francisco, C. A., Mermin, J., Schweig, J. (2012). Generalizing the Borel property. Journal of the London Mathematical Society, 87(3), 724-740. DOI: 10.1112/jlms/jds071.
  • Handa, S., Slaughter, L. M. (2012). Enantioselective alkynylbenzaldehyde cyclizations catalyzed by chiral gold (I) acyclic diaminocarbene complexes containing weak Au–arene interactions. Angewandte Chemie, 124(12), 2966-2969. DOI: 10.1002/ange.201107789.
  • Pajouh, F. M. (2012). Polyhedral cominatorics, complexity algorithms for k-clubs in graphs. Dissertation.
  • Pelser, P. B., Abbott, R. J., Comes, H. P., Milton, J. J., Moeller, M., Looseley, M. E., Cron, G. V., Barcelona, J. F., Kennedy, A. H., Watson, L. E., Barone, R., Hernandez, F., Kadereit, J. W. (2012). The genetic ghost of an invasion past: colonization and extinction revealed by historical hybridization in Senecio. Molecular Ecology, 21(2), 369-387. DOI: 10.1111/j.1365-294X.2011.05399.x.
  • Ray, A., Saykhedkar, S., Ayoubi-Canaan, P., Hartson, S. D., Prade, R., Mort, A. J. (2012). Phanerochaete chrysosporium produces a diverse array of extracellular enzymes when grown on sorghum. Applied Microbiology and Biotechnology, 93(5), 2075-2089. DOI: 10.1007/s00253-012-3907-5.
  • Sattar, S., Addo-Quaye, C., Song, Y., Anstead, J. A., Sunkar, R., Thompson, G. A. (2012). Expression of small RNA in Aphis gossypii and its potential role in the resistance interaction with melon. PLoS ONE, 7(11), e48579. DOI: 10.1371/journal.pone.0048579.
  • Sattar, S., Song, Y., Anstead, J. A., Sunkar, R., Thompson, G. A. (2012). Cucumis melo microRNA expression profile during aphid herbivory in a resistant and susceptible interaction. Molecular Plant-Microbe Interactions, 25(6), 839-848. DOI: 10.1094/MPMI-09-11-0252.
  • Saykhedkar, S., Ray, A., Ayoubi-Canaan, P., Hartson, S. D., Prade, R., Mort, A. J. (2012). A time course analysis of the extracellular proteome of Aspergillus nidulans growing on sorghum stover. Biotechnology for Biofuels, 5(1), 52. DOI: 10.1186/1754-6834-5-52.
  • Schneider, W. L., Stobbe, A.H., Daniels, J., Espindola, A.S., Verma, R., Blagden, T., Fletcher, J., Ochoa-Corona, F., Garzon, C., Hoyt, P. R. (2012). Next-generation diagnostics: Eliminating the excessive sequence processing associated with next-generation sequencing using EDNA. Proceedings from the 2012 Phytopathology Annual Meeting, 7, 155-155.
  • Stobbe, A. H., Melcher, U., Palmer, M. W., Roossinck, M. J., Shen, G. (2012). Co-divergence and host-switching in the evolution of tobamoviruses. Journal of General Virology, 93(2), 408-418. DOI: 10.1099/vir.0.034280-0.
  • Stobbe, A., Melcher, U. K., Schneider, W. L. (2012). Designing and validation of e-probes to strain type Plum pox virus. Phytopathology, 102(7), 115.
  • Stobbe, A., Melcher, U.K., Fletcher, J., Schneider, W.L. (2012). Validation of a unique sequence-based detection of plant pathogens using next-generation sequence data. Phytopathology, 102(7), 114-115.
  • Verma, R., Melcher, U. (2012). A Support Vector Machine based method to distinguish proteobacterial proteins from eukaryotic plant proteins. BMC Bioinformatics, 13(15), S9. DOI: 10.1186/1471-2105-13-S15-S9.
  • Yerramsetty, K. M., Neely, B. J., Gasem, K. A. (2012). A non-linear structure–property model for octanol–water partition coefficient. Fluid Phase Equilibria, 332, 85-93. DOI: 10.1016/j.fluid.2012.07.001.
  • Youssef, N. H., Ashlock-Savage, K. N., Elshahed, M. S. (2012). Phylogenetic diversities and community structure of members of the extremely halophilic Archaea (order Halobacteriales) in multiple saline sediment habitats. Applied and Environmental Microbiology, 78(5), 1332-1344. DOI: 10.1128/AEM.07420-11.
  • Zhu, L., Chen, S., Jiang, Z., Zhang, Z., Ku, H. C., Li, X., McCann, M., Harris, S., Lust, G., Jones, P., Todhunter, R. (2012). Identification of quantitative trait loci for canine hip dysplasia by two sequential multipoint linkage analyses. Journal of Applied Statistics, 39(8), 1719-1731. DOI: 10.1080/02664763.2012.673121.

2011

  • Allred, B. W., Fuhlendorf, S. D., Engle, D. M., Elmore, R. D. (2011). Ungulate preference for burned patches reveals strength of fire–grazing interaction. Ecology and Evolution, 1(2), 132-144. DOI: 10.1002/ece3.12.
  • Allred, B. W., Fuhlendorf, S. D., Hamilton, R. G. (2011). The role of herbivores in Great Plains conservation: comparative ecology of bison and cattle. Ecosphere, 2(3), 1-17. DOI: 10.1890/ES10-00152.1.
  • Daniels, J., Stobbe, T., Espindola, A., Schneider, W. L., Fletcher, J., Ochoa-Corona, F. (2011). In silico simulation of massively parallel sequencing as a diagnostic tool for bacterial phytopathogens. Phytopathology, 101(6), S41.
  • Espindola, A. S., Stobbe, A. H., Daniels, J., Fletcher, J., Garzon, C. D., Schneider, W. L. (2011). Design and validation of queries for the detection of Puccinia graminis in simulated metagenomes. Phytopathology, 101(6), S50.
  • Fernando, B.R., DeSilva. U. (2011). Phage biome of the bovine rumen. Proceedings of the 2011 International Conference on the Status of Plant and Animal Genome Research.
  • Francisco, C. A., Mermin, J., Schweig, J. (2011). Borel generators. Journal of Algebra, 332(1), 522-542. DOI: 10.1016/j.jalgebra.2010.09.042.
  • Friedenberg, S. G., Zhu, L., Zhang, Z., van den Berg Foels, W., Schweitzer, P. A., Wang, W., Fisher, P. J., Dykes, N. L., Corey, E., Vernier-Singer, M., Jung, S. W., Sheng, X., Hunter, L. S., McDonough, S. P., Lust, G., Bliss, S. P., Krotscheck, U., Gunn, T. M., Todhunter, R. J. (2011). Evaluation of a fibrillin 2 gene haplotype associated with hip dysplasia and incipient osteoarthritis in dogs. American Journal of Veterinary Research, 72(4), 530-540. DOI: 10.2460/ajvr.72.4.530.
  • Harris, A.J., Xiang Q.Y. (2011). The Bayes–DIVA method and its application for testing biogeographic origins of inter-continental disjunct endemics. Proceedings of the 2011 International Botanical Congress.
  • Ku. H., Zhu, L. (2011). Bayesian Regression Analysis of Quantitative Trait with Correlated Phenotypic Data. Proceedings of the 2011 Joint Statistical Meetings.
  • Link-Perez, M. A., Watson, L. E., Hickey, R. J. (2011). Redefinition of Adiantopsis Fée (Pteridaceae): Systematics, diversification, and biogeography. Taxon, 60(5), 1255-1268.
  • Stobbe, A. H., Daniels, J., Espindola, A., Schneider, W. L., Fletcher, J., Melcher, U. K. (2011). Use of massively parallel sequencing as a diagnostic tool. Phytopathology, 101(6), S171-S172.
  • Struchtemeyer, C. G., Davis, J. P., Elshahed, M. S. (2011). Influence of the drilling mud formulation process on the bacterial communities in thermogenic natural gas wells of the Barnett Shale. Applied and Environmental Microbiology, 77(14), 4744-4753. DOI: 10.1128/AEM.00233-11.
  • Zhu, L., Feng, F., Bustamante, C. (2011). A Regression-based Approach for Estimating Recombination Rate from Population Genomic Data. Proceedings of the 2011 International conference on Bioinformatics Computational Biology.

2010

  • Bukkapatnam, S. T., Cheng, C. (2010). Forecasting the evolution of nonlinear and nonstationary systems using recurrence-based local Gaussian process models. Physical Review E, 82(5), 56206. DOI: 10.1103/PhysRevE.82.056206.
  • Liggenstoffer, A. S., Youssef, N. H., Couger, M. B., Elshahed, M.S. (2010). Phylogenetic diversity and community structure of anaerobic fungi (Phylum Neacallymastigales) in ruminant and non-ruminant herbivores. ISME Journal, 4(10), 1225-1235.
  • Pummill, J., Brunson, D., Apon, A. (2010). Community Funding Models for Computational Resources. NSF-funded Workshop on Sustainable Funding and Business Models for Academic Cyberinfrastructure Centers, position paper.
  • Youssef, N. H., Couger, M. B., Elshahed, M. S. (2010). Fine-scale bacterial beta diversity within a complex ecosystem (Zodletone Spring, OK, USA): the role of the rare biosphere. PLoS ONE, 5(8), e12414. DOI: 10.1371/journal.pone.0012414.

2009

  • Harris, A. J., XIANG, Q. Y. J. (2009). Estimating ancestral distributions of lineages with uncertain sister groups: a statistical approach to Dispersal–Vicariance Analysis and a case using Aesculus L.(Sapindaceae) including fossils. Journal of Systematics and Evolution, 47(5), 349-368. DOI: 10.1111/j.1759-6831.2009.00044.x.
  • Zhang, W., Guo, Y. (2009). First-principles study of crystal structures of under pressure. Solid State Communications, 149(33), 1342-1346. DOI: 10.1016/j.ssc.2009.05.027.

2008

  • Andreason, S., Schneider, W., Davis, R., Wayadande, A. (2008). E-probe diagnostic nucleic acid assay (EDNA) detection of Spiroplasma kunkelli in gray lawn leafhopper, Exitianus exitiosu, (Uhl.), transcriptome sequencing dataset. Proceedings of the 2008 annual meeting of the Entomological Society of America.

 

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