publications

2020

  1. Single-Cell Profiling of Ebola Virus Disease In Vivo Reveals Viral and Host Dynamics
    Kotliar, D., Lin, A.E., Logue, J., Hughes, T.K., Khoury, N.M., Raju, S.S., Wadsworth, M.H., Chen, H., Kurtz, J.R., Dighero-Kemp, B., Bjornson, Z.B., Mukherjee, N., Sellers, B.A., Tran, N., Bauer, M.R., Adams, G.C., Adams, R., Rinn, J.L., Melé, M., Schaffner, S.F., Nolan, G.P., Barnes, K.G., Hensley, L.E., McIlwain, D.R., Shalek, A.K., Sabeti, P.C., and Bennett, R.S.
    Cell 2020
  2. Identification of Common CD8+ T Cell Epitopes from Lassa Fever Survivors in Nigeria and Sierra Leone
    Sakabe, S., Hartnett, J.N., Ngo, N., Goba, A., Momoh, M., Sandi, J.D., Kanneh, L., Cubitt, B., Garcia, S.D., Ware, B., Kotliar, D., Robles-Sikisaka, R., Gangavarapu, K., Branco, L.M., Eromon, P., Odia, I., Ogbaini-Emovon, E., Folarin, O., Okogbenin, S., Okokhere, P.O., Happi, C., Sabeti, P.C., Andersen, K.G., Garry, R.F., Torre, J.C., Grant, D.S., Schieffelin, J.S., Oldstone, M.B.A., and Sullivan, B.M.
    J. Virol. 2020
  3. High crossreactivity of human T cell responses between Lassa virus lineages
    Sullivan, B.M., Sakabe, S., Hartnett, J.N., Ngo, N., Goba, A., Momoh, M., Demby Sandi, J., Kanneh, L., Cubitt, B., Garcia, S.D., Ware, B.C., Kotliar, D., Robles-Sikisaka, R., Gangavarapu, K., Branco, L., Eromon, P., Odia, I., Ogbaini-Emovon, E., Folarin, O., Okogbenin, S., Okokhere, P.O., Happi, C., Torre, J.C., Sabeti, P.C., Andersen, K.G., Garry, R.F., Grant, D.S., Schieffelin, J.S., and Oldstone, M.B.A.
    PLoS Pathog. 2020

2019

  1. Identifying gene expression programs of cell-type identity and cellular activity with single-cell RNA-Seq
    Kotliar, D., Veres, A., Nagy, M.A., Tabrizi, S., Hodis, E., Melton, D.A., and Sabeti, P.
    Elife 2019

2018

  1. Field validation of recombinant antigen immunoassays for diagnosis of Lassa fever
    Boisen, M.L., Hartnett, J.N., Shaffer, J.G., Goba, A., Momoh, M., Sandi, J.D., Fullah, M., Nelson, D.K.S., Bush, D.J., Rowland, M.M., Heinrich, M.L., Koval, A.P., Cross, R.W., Barnes, K.G., Lachenauer, A.E., Lin, A.E., Nekoui, M., Kotliar, D., Winnicki, S.M., Siddle, K.J., Gbakie, M., Fonnie, M., Koroma, V.J., Kanneh, L., Kulakosky, P.C., Hastie, K.M., Wilson, R.B., Andersen, K.G., Folarin, O.O., Happi, C.T., Sabeti, P.C., Geisbert, T.W., Saphire, E., Khan, S.H., Grant, D.S., Schieffelin, J.S., Branco, L.M., and Garry, R.F.
    Sci. Rep. 2018
  2. Detecting genome-wide directional effects of transcription factor binding on polygenic disease risk
    Reshef, Y.A., Finucane, H.K., Kelley, D.R., Gusev, A., Kotliar, D., Ulirsch, J.C., Hormozdiari, F., Nasser, J., O’Connor, L., Geijn, B., Loh, P., Grossman, S.R., Bhatia, G., Gazal, S., Palamara, P.F., Pinello, L., Patterson, N., Adams, R.P., and Price, A.L.
    Nature Genetics 2018
  3. Analysis of CD8+ T cell response during the 2013–2016 Ebola epidemic in West Africa
    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., Kanneh, L., Grant, D.S., Garry, R.F., Andersen, K.G., Torre, J.C., Sabeti, P.C., Schieffelin, J.S., and Oldstone, M.B.A.
    Proc. Natl. Acad. Sci. U. S. A. 2018
  4. Genomic Analysis of Lassa Virus during an Increase in Cases in Nigeria in 2018
    Siddle, K.J., Eromon, P., Barnes, K.G., Mehta, S., Oguzie, J.U., Odia, I., Schaffner, S.F., Winnicki, S.M., Shah, R.R., Qu, J., Wohl, S., Brehio, P., Iruolagbe, C., Aiyepada, J., Uyigue, E., Akhilomen, P., Okonofua, G., Ye, S., Kayode, T., Ajogbasile, F., Uwanibe, J., Gaye, A., Momoh, M., Chak, B., Kotliar, D., Carter, A., Gladden-Young, A., Freije, C.A., Omoregie, O., Osiemi, B., Muoebonam, E.B., Airende, M., Enigbe, R., Ebo, B., Nosamiefan, I., Oluniyi, P., Nekoui, M., Ogbaini-Emovon, E., Garry, R.F., Andersen, K.G., Park, D.J., Yozwiak, N.L., Akpede, G., Ihekweazu, C., Tomori, O., Okogbenin, S., Folarin, O.A., Okokhere, P.O., MacInnis, B.L., Sabeti, P.C., and Happi, C.T.
    N. Engl. J. Med. 2018

2017

  1. Integrated single-cell genetic and transcriptional analysis suggests novel drivers of chronic lymphocytic leukemia
    Wang, L., Fan, J., Francis, J.M., Georghiou, G., Hergert, S., Li, S., Gambe, R., Zhou, C.W., Yang, C., Xiao, S., Cin, P.D., Bowden, M., Kotliar, D., Shukla, S.A., Brown, J.R., Neuberg, D., Alessi, D.R., Zhang, C., Kharchenko, P.V., Livak, K.J., and Wu, C.J.
    Genome Res. 2017

2016

  1. Direct Identification of Hundreds of Expression-Modulating Variants using a Multiplexed Reporter Assay
    Tewhey, R., Kotliar, D., Park, D.S., Liu, B., Winnicki, S., Reilly, S.K., Andersen, K.G., Mikkelsen, T.S., Lander, E.S., Schaffner, S.F., and Sabeti, P.C.
    Cell 2016
  2. Transcriptomic Characterization of SF3B1 Mutation Reveals Its Pleiotropic Effects in Chronic Lymphocytic Leukemia
    Wang, L., Brooks, A.N., Fan, J., Wan, Y., Gambe, R., Li, S., Hergert, S., Yin, S., Freeman, S.S., Levin, J.Z., Fan, L., Seiler, M., Buonamici, S., Smith, P.G., Chau, K.F., Cibulskis, C.L., Zhang, W., Rassenti, L.Z., Ghia, E.M., Kipps, T.J., Fernandes, S., Bloch, D.B., Kotliar, D., Landau, D.A., Shukla, S.A., Aster, J.C., Reed, R., DeLuca, D.S., Brown, J.R., Neuberg, D., Getz, G., Livak, K.J., Meyerson, M.M., Kharchenko, P.V., and Wu, C.J.
    Cancer Cell 2016

2015

  1. Medical education in the United States: do residents feel prepared?
    Chen, C.A., Kotliar, D., and Drolet, B.C.
    Perspect. Med. Educ. 2015

2014

  1. Locally disordered methylation forms the basis of intratumor methylome variation in chronic lymphocytic leukemia
    Landau, D.A., Clement, K., Ziller, M.J., Boyle, P., Fan, J., Gu, H., Stevenson, K., Sougnez, C., Wang, L., Li, S., Kotliar, D., Zhang, W., Ghandi, M., Garraway, L., Fernandes, S.M., Livak, K.J., Gabriel, S., Gnirke, A., Lander, E.S., Brown, J., Neuberg, D., Kharchenko, P.V., Hacohen, N., Getz, G., Meissner, A., and Wu, C.J.
    Cancer Cell 2014
  2. Integration of genomic data enables selective discovery of breast cancer drivers
    Sanchez-Garcia, F., Villagrasa, P., Matsui, J., Kotliar, D., Castro, V., Akavia, U., Chen, B., Saucedo-Cuevas, L., Rodriguez Barrueco, R., Llobet-Navas, D., Silva, J., and Pe’er, D.
    Cell 2014

2013

    2012

      2011

        2010

        1. An integrated approach to uncover drivers of cancer
          Akavia, U.D., Litvin, O., Kim, J., Sanchez-Garcia, F., Kotliar, D., Causton, H.C., Pochanard, P., Mozes, E., Garraway, L.A., and Pe’er, D.
          Cell 2010