Analysis and forecasting of global real time RT-PCR primers and probes for SARS-CoV-2 von Nayar, Gowri, Seabolt, Edward E., Kunitomi, Mark, Agarwal, Akshay, Beck, Kristen L., Mukherjee, Vandana, Kaufman, James H.

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Predicting Epitope Candidates for SARS-CoV-2 von Agarwal, Akshay, Beck, Kristen L, Capponi, Sara, Kunitomi, Mark, Nayar, Gowri, Seabolt, Edward, Mahadeshwar, Gandhar, Bianco, Simone, Mukherjee, Vandana, Kaufman, James H

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Statistical Mechanics and Thermodynamics of Viral Evolution von Jones, Barbara A, Lessler, Justin, Bianco, Simone, Kaufman, James H

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ggMOB: Elucidation of genomic conjugative features and associated cargo genes across bacterial genera using genus-genus mobilization networks von Nayar, Gowri, Terrizzano, Ignacio, Seabolt, Ed, Agarwal, Akshay, Boucher, Christina, Ruiz, Jaime, Slizovskiy, Ilya B, Kaufman, James H, Noyes, Noelle R

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Semi-Supervised Pipeline for Autonomous Annotation of SARS-CoV-2 Genomes von Beck, Kristen L., Seabolt, Edward, Agarwal, Akshay, Nayar, Gowri, Bianco, Simone, Krishnareddy, Harsha, Ngo, Timothy A., Kunitomi, Mark, Mukherjee, Vandana, Kaufman, James H.

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Re-purposing software for functional characterization of the microbiome von Gardiner, Laura-Jayne, Haiminen, Niina, Utro, Filippo, Parida, Laxmi, Seabolt, Ed, Krishna, Ritesh, Kaufman, James H.

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Globally local: Hyper-local modeling for accurate forecast of COVID-19 von Gopalakrishnan, Vishrawas, Pethe, Sayali, Kefayati, Sarah, Srinivasan, Raman, Hake, Paul, Deshpande, Ajay, Liu, Xuan, Hoang, Etter, Davila, Marbelly, Bianco, Simone, Kaufman, James H.

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Hierarchically Labeled Database Indexing Allows Scalable Characterization of Microbiomes von Utro, Filippo, Haiminen, Niina, Siragusa, Enrico, Gardiner, Laura-Jayne, Seabolt, Ed, Krishna, Ritesh, Kaufman, James H., Parida, Laxmi

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A global model of malaria climate sensitivity: comparing malaria response to historic climate data based on simulation and officially reported malaria incidence von Edlund, Stefan, Davis, Matthew, Douglas, Judith V, Kershenbaum, Arik, Waraporn, Narongrit, Lessler, Justin, Kaufman, James H

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The cost of simplifying air travel when modeling disease spread von Lessler, Justin, Kaufman, James H, Ford, Daniel A, Douglas, Judith V

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Extinction pathways and outbreak vulnerability in a stochastic Ebola model von Nieddu, Garrett T., Billings, Lora, Kaufman, James H., Forgoston, Eric, Bianco, Simone

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Functional Genomics Platform, A Cloud-Based Platform for Studying Microbial Life at Scale von Seabolt, Edward E., Nayar, Gowri, Krishnareddy, Harsha, Agarwal, Akshay, Beck, Kristen L., Terrizzano, Ignacio, Kandogan, Eser, Kunitomi, Mark, Roth, Mary, Mukherjee, Vandana, Kaufman, James H.

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An extensible spatial and temporal epidemiological modelling system von Ford, Daniel Alexander, Kaufman, James H, Eiron, Iris

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Explaining the Moon Illusion von Kaufman, Lloyd, Kaufman, James H.

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STEM: An Open Source Tool for Disease Modeling von Douglas, Judith V, Bianco, Simone, Edlund, Stefan, Engelhardt, Tekla, Filter, Matthias, Günther, Taras, Hu, Kun Maggie, Nixon, Emily J, Sevilla, Nereyda L, Swaid, Ahmad, Kaufman, James H

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Insular Microbiogeography: Three Pathogens as Exemplars von Kaufman, James H., Elkins, Christopher A., Davis, Matthew, Weis, Allison M., Huang, Bihua C., Mammel, Mark K., Patel, Isha R., Beck, Kristen L., Edlund, Stefan, Chambliss, David, Douglas, Judith, Bianco, Simone, Kunitomi, Mark, Weimer, Bart C.

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Food authentication from shotgun sequencing reads with an application on high protein powders von Haiminen, Niina, Edlund, Stefan, Chambliss, David, Kunitomi, Mark, Weimer, Bart C., Ganesan, Balasubramanian, Baker, Robert, Markwell, Peter, Davis, Matthew, Huang, B. Carol, Kong, Nguyet, Prill, Robert J., Marlowe, Carl H., Quintanar, André, Pierre, Sophie, Dubois, Geraud, Kaufman, James H., Parida, Laxmi, Beck, Kristen L.

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The Social Contract Core von Kaufman, James H., Edlund, Stefan, Ford, Daniel A., Powers, Calvin

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Statistical Mechanics and Thermodynamics of Viral Evolution: e0137482 von Jones, Barbara A, Lessler, Justin, Bianco, Simone, Kaufman, James H

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Food authentication from shotgun sequencing reads with an application on high protein powders von Haiminen, Niina, Edlund, Stefan, Chambliss, David, Kunitomi, Mark, Weimer, Bart C, Ganesan, Balasubramanian, Baker, Robert, Markwell, Peter, Davis, Matthew, Huang, B Carol, Kong, Nguyet, Prill, Robert J, Marlowe, Carl H, Quintanar, André, Pierre, Sophie, Dubois, Geraud, Kaufman, James H, Parida, Laxmi, Beck, Kristen L

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