recent publications
-
academic article
-
Deng, X. D., Gu, W., Federman, S., Du Plessis, L., Pybus, O. G., Faria, N. R., Wang, C., Yu, G. X., Bushnell, B., Pan, C. Y., Guevara, H., Sotomayor-Gonzalez, A., et al. Genomic surveillance reveals multiple introductions of SARS-CoV-2 into Northern California Science 2020 369:582-587 DOI:10.1126/science.abb9263 PMID:32513865 PMCID:PMC7286545
-
Sullivan, B. M., Sakabe, S., Hartnett, J. N., Ngo, N., Goba, A., Momoh, M., Sandi, J. D., Kanneh, L., Cubitt, B., Garcia, S. D., Ware, B. C., Kotliar, D., et al. High crossreactivity of human T cell responses between Lassa virus lineages PLoS Pathogens 2020 16 DOI:10.1371/journal.ppat.1008352; 10.1371/journal.ppat.1008352.r001; 10.1371/journal.ppat.1008352.r002; 10.1371/journal.ppat.1008352.r003; 10.1371/journal.ppat.1008352.r004 PMID:32142546 PMCID:PMC7080273
-
Grubaugh, N. D., Saraf, S., Gangavarapu, K., Watts, A., Tan, A. L., Oidtman, R. J., Ladner, J. T., Oliveira, G., Matteson, N. L., Kraemer, M. U. G., Vogels, C. B. F., Hentoff, A., et al. Travel surveillance and genomics uncover a hidden Zika outbreak during the waning epidemic Cell 2019 178:1057-1071 DOI:10.1016/j.cell.2019.07.018 PMID:31442400 PMCID:PMC6716374
-
Grubaugh, N. D., Gangavarapu, K., Quick, J., Matteson, N. L., De Jesus, J. G., Main, B. J., Tan, A. L., Paul, L. M., Brackney, D. E., Grewal, S., Gurfield, N., Van Rompay, K. K. A., et al. An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar Genome Biology 2019 20 DOI:10.1186/s13059-018-1618-7 PMID:30621750 PMCID:PMC6325816
-
Saphire, E. O., Schendel, S. L., Fusco, M. L., Gangavarapu, K., Gunn, B. M., Wec, A. Z., Halfmann, P. J., Brannan, J. M., Herbert, A. S., Qiu, X. G., Wagh, K., He, S., et al. Systematic analysis of monoclonal antibodies against Ebola virus GP defines features that contribute to protection Cell 2018 174:938-952 DOI:10.1016/j.cell.2018.07.033 PMID:30096313 PMCID:PMC6102396
-
Gunn, B. M., Yu, W. H., Karim, M. M., Brannan, J. M., Herbert, A. S., Wec, A. Z., Halfmann, P. J., Fusco, M. L., Schendel, S. L., Gangavarapu, K., Krause, T., Qiu, X., et al. A role for Fc function in therapeutic monoclonal antibody-mediated protection against Ebola virus Cell Host & Microbe 2018 24:221-233 DOI:10.1016/j.chom.2018.07.009 PMID:30092199
-
Sakabe, S., Sullivan, B. M., Hartnett, J. N., Robles-Sikisaka, R., Gangavarapu, K., Cubitt, B., Ware, B. C., Kotliar, D., Branco, L. M., Goba, A., Momoh, M., Sandi, J. D., et al. Analysis of CD8(+) T cell response during the 2013-2016 Ebola epidemic in West Africa Proceedings of the National Academy of Sciences of the United States of America 2018 115:E7578-E7586 DOI:10.1073/pnas.1806200115 PMID:30038008 PMCID:PMC6094108
-
Gardner, L. M., Bota, A., Gangavarapu, K., Kraemer, M. U. G., Grubaugh, N. D. Inferring the risk factors behind the geographical spread and transmission of Zika in the Americas PLoS Neglected Tropical Diseases 2018 12 DOI:10.1371/journal.pntd.0006194 PMID:29346387 PMCID:PMC5790294
-
Grubaugh, N. D., Ladner, J. T., Kraemer, M. U. G., Dudas, G., Tan, A. L., Gangavarapu, K., Wiley, M. R., White, S., Theze, J., Magnani, D. M., Prieto, K., Reyes, D., et al. Genomic epidemiology reveals multiple introductions of Zika virus into the United States Nature 2017 546:401-405 DOI:10.1038/nature22400 PMID:28538723
-
Metsky, H. C., Matranga, C. B., Wohl, S., Schaffner, S. F., Freije, C. A., Winnicki, S. M., West, K., Qu, J., Baniecki, M. L., Gladden-Young, A., Lin, A. E., Tomkins-Tinch, C. H., et al. Zika virus evolution and spread in the Americas Nature 2017 546:411-15 DOI:10.1038/nature22402 PMID:28538734
-
Quick, J., Grubaugh, N. D., Pullan, S. T., Claro, I. M., Smith, A. D., Gangavarapu, K., Oliveira, G., Robles-Sikisaka, R., Rogers, T. F., Beutler, N. A., Burton, D. R., Lewis-Ximenez, L. L., et al. Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples Nature Protocols 2017 12:1261-1276 DOI:10.1038/nprot.2017.066 PMID:28538739
-
Griffith, M., Spies, N. C., Krysiak, K., McMichael, J. F., Coffman, A. C., Danos, A. M., Ainscough, B. J., Ramirez, C. A., Rieke, D. T., Kujan, L., Barnell, E. K., Wagner, A. H., et al. CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer Nature Genetics 2017 49:170-174 DOI:10.1038/ng.3774 PMID:28138153
-
Ricciardi, M. J., Magnani, D. M., Grifoni, A., Kwon, Y. C., Gutman, M. J., Grubaugh, N. D., Gangavarapu, K., Sharkey, M., Silveira, C. G. T., Bailey, V. K., Pedreno-Lopez, N., Gonzalez-Nieto, L., et al. Ontogeny of the B- and T-cell response in a primary Zika virus infection of a dengue-naive individual during the 2016 outbreak in Miami, FL PLoS Neglected Tropical Diseases 2017 11 DOI:10.1371/journal.pntd.0006000 PMID:29267278
-
Gangavarapu, K., Babji, V., Meissner, T., Su, A. I., Good, B. M. Branch: an interactive, web-based tool for testing hypotheses and developing predictive models Bioinformatics 2016 32:2072-2074 DOI:10.1093/bioinformatics/btw117 PMID:27153723 PMCID:PMC4920125
-