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Gangavarapu, Karthik

Graduate Student

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  • 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

Background

education and training

• Ph.D. in Computational Biology, Scripps Research 2015 -
• B.S. in Pharmacy, Birla Institute of Technology & Science, Pilani 2010 - 2014

advisee of

• graduate advising relationship

  • Andersen, Kristian G., Ph.D.  candidacy, 2016 -
  • Su, Andrew, Ph.D.  candidacy, 2016 -

Contact

full name

• Karthik Gangavarapu

geographic location

• Scripps California