Scientific Publications

A. Crits-Christoph, K. Gangavarapu, J.E. Pekar, N. Moshiri, R. Singh, J.I. Levy, S.A. Goldstein, M.A. Suchard, S. Popescu, D.L. Robertson, P. Lemey, J.O. Wertheim, R.F. Garry, A.L. Rasmussen, K.G. Andersen, E.C. Holmes, A. Rambaut, M. Worobey, F. Débarre. Genetic evidence of susceptible wildlife in SARS-CoV-2 positive samples at the Huanan Wholesale Seafood Market, Wuhan: Analysis and interpretation of data released by the Chinese Center for Disease Control. Zenodo. DOI: 10.5281/zenodo.7754298. March 20, 2023.

R.W. Cross, A.N. Prasad, C.B. Woolsey, K.N. Agans, V. Borisevich, N.S. Dobias, J.E. Comer, D.J. Deer, J.B. Geisbert, A.L. Rasmussen, W.I. Lipkin, K.A. Fenton, T.W. Geisbert. Natural history of nonhuman primates after conjunctival exposure to Ebola virus. Scientific Reports 13(1): 4175. March 13, 2023.

S.N. Rich, V. Richards, C. Mavian, B. Rife Magalis, N. Grubaugh, S. Rasmussen, S. Dellicour, B. Vrancken, C. Carrington, R. Fisk-Hoffman, D. Danso-Odei, D. Chacreton, J. Shapiro, M.N. Seraphin, C. Hepp, A. Black, A. Dennis, N. Trovao, A.M. Vandamme, A. Rasmussen, M. Lauzardo, N. Dean, M. Salemi, M. Prosperi. Application of phylodynamic tools to inform the public health response to COVID-19: a qualitative analysis of expert opinions. JMIR Formative Research. DOI: 10.2196/39409. December 27, 2022.

M. Worobey, J.I. Levy, L. Malpica Serrano, A. Crits-Christoph, J.E. Pekar, S.A. Goldstein, A.L. Rasmussen, M.U.G. Kraemer, C. Newman, M.P.G. Koopmans, M.A. Suchard, J.O. Wertheim, P. Lemey, D.L. Robertson, R.F. Garry, E.C. Holmes, A. Rambaut, K.G. Andersen. The Huanan Seafood Wholesale Market in Wuhan was the early epicenter of the COVID-19 pandemic. Science 377(6609): 951-959. DOI: 10.1126/science.abp8715. July 26, 2022.

M. Cevik, A.L. Rasmussen, I.I. Bogoch, J. Kindrachuk. Acute hepatitis of unknown origin in children. BMJ 377: o1197. DOI: 10.1136/bmj.o1197. May 17, 2022.

L.M. Brosseau, K. Escandón, A.K. Ulrich, A.L. Rasmussen, C.J. Roy, G.J. Bix, S.V. Popescu, K.A. Moore, M.T. Osterholm. Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Dose, Infection, and Disease Outcomes for Coronavirus Disease 2019 (COVID-19): A Review. Clinical Infectious Diseases 75(1): e1195-e1201. DOI: 10.1093/cid/ciab903. August 24, 2022.

C.J. Carlson, R.J. Gibb, G.F. Albery, L. Brierley, R. Connor, T. Dallas, E.A. Eskew, A.C. Fagre, M.J. Farrell, H.K. Frank, R.d.L. Muylaert, T. Poisot, A.L. Rasmussen, S.J. Ryan, S. Seifert. The Global Virome in One Network (VIRION): an atlas of vertebrate-virus associations. mBio 13(2): e0298521. DOI: 10.1128/mbio.02985-21. April 26, 2022.

R.M. Broeckel, F. Feldmann, K.L. McNally, A.I. Chiramel, G.L. Sturdevant, J.M. Leung, P.W. Hanley, J. Lovaglio, R. Rosenke, D.P. Scott, G. Saturday, F. Bouamr, A.L Rasmussen, S.J. Robertson, S.M. Best. A pigtailed macaque model of Kyasanur Forest disease virus and Alkhurma hemorrhagic disease virus pathogenesis. PLoS Pathogens 17(12): e1009678. DOI: 10.1371/journal.ppat.1009678. December 2, 2021.

G.F. Albery, D.J. Becker, L. Brierley, C.E. Brook, R.C. Christofferson, L.E. Cohen, T.A. Dallas, E.A. Eskew, A.C. Fagre, M.J. Farrell, E. Glennon, S. Guth, M.B. Joseph, N. Mollentze, B.A. Neely, T. Poisot, A.L. Rasmussen, S.J. Ryan, S. Seifert, A.R. Sjodin, E.M. Sorrell, C.J. Carlson. The science of the host-virus network. Nature Microbiology 6(12): 1483-1492. DOI: 10.1038/s41564-021-00999-5. November 24, 2021.

C.J. Carlson, M.J. Farrell, Z. Grange, B.A. Han, N. Mollentze, A.L. Phelan, A.L. Rasmussen, G.F. Albery, B. Bett, D.M. Brett-Major, L.E. Cohen, T. Dallas, E.A. Eskew, A.C. Fagre, K.M. Forbes, R. Gibb, S. Halabi, C.C. Hammer, R. Katz, J. Kindrachuk, R.L. Muylaert, F.B. Nutter, J. Ogola, K.J. Olival, M. Rourke, S.J. Ryan, N. Ross, S.N. Seifert, T. Sironen, C.J. Standley, K. Taylor, M. Venter, P.W. Webala. The future of zoonotic risk prediction. Philosophical Transactions of the Royal Society B 376: 1837. DOI: 10.1098/rstb.2020.0358. November 8, 2021.

E.C. Holmes, S.A. Goldstein, A.L. Rasmussen, D.L. Robertson, A. Crits-Christoph, J.O. Wertheim, S.J. Anthony, W.S. Barclay, M.F. Boni, P.C. Doherty, J. Farrar, J.L. Geoghegan, X. Jiang, J.L. Leibowitz, S.J.D. Neil, T. Skern, S.R. Weiss, M. Worobey, K.G. Andersen, R.F. Garry, and A. Rambaut. The Origins of SARS-CoV-2: A Critical Review. Zenodo. DOI: 10.1016/j.cell.2021.08.017. September 16, 2021.

K. Escandón, A.L. Rasmussen, I.I. Bogoch, E.J. Murray, K. Escandón, S.V. Popescu, and J. Kindrachuk. COVID-19 false dichotomies and a comprehensive review of the evidence regarding public health, COVID-19 symptomatology, SARS-CoV-2 transmission, mask wearing, and reinfection. BMC Infectious Diseases 21:710. DOI: 10.1186/s12879-021-06357-4. July 27, 2021.

A.L. Rasmussen and S.V. Popescu. SARS-CoV-2 transmission without symptoms. Science 371(6535): 1206-1207. DOI: 10.1126/science.abf9569. March 19, 2021.

K.M. Forbes, O. Anzala, C.J. Carlson, A.A. Kelvin, K. Kuppalli, E.M. Leroy, G.D. Maganga, M.M. Masika, I.M. Mombo, D.M. Mwaengo, R.F. Niama, J. Nziza, J. Ogola, B.S. Pickering, A.L. Rasmussen, T. Sironen, O. Vapalahti, P.W. Webala, J. Kindrachuk. Towards a coordinated strategy for intercepting human disease emergence in Africa. The Lancet Microbe 2(2): e51-52. DOI: 10.1016/s2666-5247(20)30220-2. February 2, 2021.

A.L. Rasmussen. On the origins of SARS-CoV-2. Nature Medicine 27(9). DOI: 10.1038/s41591-020-01205-5. January 13, 2021.

A.L. Rasmussen. Vaccination Is the Only Acceptable Path to Herd Immunity. Med, online. DOI: 10.1016/j.medj.2020.12.004. December 18, 2020.

D. Gurdasani, L. Bear, D. Bogaert, R.A. Burgess, R. Busse, R. Cacciola, Y. Charpak, T. Colbourn, J. Drury, K. Friston, V. Gallo, L.R. Goldman, T. Greenhalgh, Z. Hyde, K. Kuppalli, M.S. Majumder, J.M. Martin-Moreno, M. McKee, S. Michie, E. Mossialos, A. Nouri, C. Pagel, D. Pimenta, S. Popescu, V. Priesemann, A.L. Rasmussen, S. Reicher, W. Ricciardi, K. Rice, J. Silver, T.C. Smith, C. Wenham, R. West, G. Yamey, C. Yates, H. Ziauddeen. The UK needs a sustainable strategy for COVID-19. The Lancet 396(10265): 1800-1801. DOI: 10.1016/s0140-6736(20)32350-3. December 5, 2020.

A.L. Rasmussen, K. Escandón, and S.V. Popescu. Facial Masking for Covid-19. New England Journal of Medicine, online. DOI: 10.1056/NEJMc2030886. October 23, 2020.

C. Muñoz-Fontela, W.E. Dowling, S.G.P. Funnell, P.S. Gsell, X.R. Balta, R. Albrecht, H. Andersen, R. Baric, M.W. Carroll, Q. Chuan, I. Crozier, K. Dallmeier, L. de Waal, E. de Wit, L. Deland, E. Dohm, P. Duprex, D. Falzarano, C. Finch, M.B. Frieman, B. Graham, L. Gralinski, B. Haagmans, G. Hamilton, A.L. Hartman, S. Herfst, W. Klimstra, I. Knezevic, J. Kuhn, R. Le Grand, M. Lewis, W.-C. Liu, P. Maisonnasse, A.K. McElroy, V. Munster, N. Oreshkova, A.L. Rasmussen, J. Rocha Pereira, B. Rockx, E. Rodríguez, T. Rogers, F.J. Salguero, M. Shotsaert, K. Stittelaar, H.J. Thibaut, C.-T. Tseng, J. Vergara-Alert, M. Beer, T. Brasel, J.F.W. Chan, A. García-Sastre, J. Neyts, S. Perlman, D. Reed, J.A. Richt, C.J. Roy, J. Segalés, S. Vasan, A.M. Henao-Restrepo, and D.H. Barouch. Animal models for COVID-19. Nature 586: 509-515. DOI: 10.1038/s41586-020-2787-6. Sept 23, 2020.

N.D. Grubaugh, W.P. Hanage, and A.L. Rasmussen. Making sense of mutation: what D614G means for the COVID-19 pandemic remains unclear. Cell, S0092-8674(20)30817-5. DOI: 10.1016/j.cell.2020.06.040. July 2, 2020.

K. Kuppalli and A.L. Rasmussen. A glimpse into the eye of the COVID-19 cytokine storm. EBioMedicine 55: 102789. DOI: 10.1016/j.ebiom.2020.102789. PMID: 32388462. May 7, 2020.

A. Price, A. Okumura, E. Haddock, F. Feldmann, K. Meade-White, P. Sharma, M. Artami, W.I. Lipkin, D.W. Threadgill, H. Feldmann, A.L. Rasmussen. Transcriptional Correlates of Tolerance and Lethality in Mice Predict Ebola Virus Disease Patient Outcomes. Cell Reports 30(6): 1702-1713. DOI: 10.1016/j.celrep.2020.01.026. PMID: 32049004. Feb 11, 2020.

A.G. Goodman and A.L. Rasmussen. Host-Pathogen Interactions During Arbovirus Infection. Frontiers in Cellular and Infection Microbiology 9:77. March 26, 2019. PMID: 30972308.

A. Price, A. Caciula, C. Guo, B. Lee, J. Morrison, A. Rasmussen, W.I. Lipkin, and K. Jain. DEvis: An R package for aggregation and visualization of differential expression data. BMC Bioinformatics 20(1): 110. March 4, 2019. PMID: 30832568.

A.L. Rasmussen. Host Factors Involved in Ebola Virus Replication. Current Topics in Microbiology and Immunology 419: 113-150. 2018. PMID: 28710692

J. Olejnik, A. Forero, L.R. Deflube, A.J. Hume, W.A. Manhart, A. Nishida, A. Marzi, M.G. Katze, H. Ebihara, A.L. Rasmussen, and E. Mühlberger. Ebolaviruses associated with differential pathogenicity induce distinct host responses in human macrophages. Journal of Virology 91(11): pii e00179-17. June 1, 2017. PMID: 28331091.

M. Dutta, S.J. Robertson, A. Okumura, D.P. Scott, J. Chang, J.M. Weiss, G.L. Sturdevant, F. Feldmann, E. Haddock, A.I. Chiramel, S.S. Ponia, J.D. Dougherty, M.G. Katze, A.L. Rasmussen, and S.M. Best. A Systems Approach Reveals MAVS Signaling in Myeloid Cells as Critical for Resistance to Ebola Virus in Murine Models of Infection. Cell Reports 18(3): 816-829. January 17, 2017. PMID: 28099857. PMCID: PMC5289750.

A.L. Rasmussen. Host Factors in Ebola Infection. Annual Reviews in Genetics and Genomics 17: 333-351. August 31, 2016. PMID: 27147086.

A.L. Rasmussen and M.G. Katze. Genomic Signatures of Emerging Viruses: A New Era of Systems Epidemiology. Cell Host and Microbe 19(5): 611-618. May 11, 2016. PMID: 27173929.

A.L. Rasmussen.  Probing the Viromic Frontiers. mBio 6(6): e01767-15. November 10, 2015. PMID: 26556279. PMCID: PMC4659475.

A. Okumura, A.L. Rasmussen, P. Halfmann, F. Feldmann, A. Yoshimura, H. Feldmann, Y. Kawaoka, R.N. Harty, and M.G. Katze. Suppressor of Cytokine Signaling 3 Is an Inducible Host Factor That Regulates Virus Egress during Ebola Virus Infection. Journal of Virology 89(20): 10399-406. October 15, 2015. PMID: 26246577. PMCID: PMC4580175.

K.J. Lubick, S.J. Robertson, K.L. McNally, B.A. Freedman, A.L. Rasmussen, R.T. Taylor, A.D. Walts, S. Tsuruda, M. Sakai, M. Ishizuka, E.F. Boer, E.C. Foster, A.I. Chiramel, C.B. Addison, R. Green, D.L. Kastner, M.G. Katze, S.M. Holland, A. Forlino, A.F. Freeman, M. Boehm, K. Yoshii, and S.M. Best. Flavivirus Antagonism of Type I Interferon Signaling Reveals Prolidase as a Regulator of IFNAR1 Surface Expression. Cell Host Microbe 18(1): 61-74. July 8, 2015. PMID: 26159719. PMCID: PMC4505794.

C.R. Green, P. Cowan, R. Elk, K.M. O'Neil, and A.L. Rasmussen.  National Institutes of Health Pathways to Prevention Workshop: advancing the research on myalgic encephalomyelitis/chronic fatigue syndrome. Annals of Internal Medicine 162:841-50. June 16, 2015. PMID: 26075757.

A.L. Rasmussen, N. Tchitchek, D. Safronetz, V.S. Carter, C.M. Williams, E. Haddock, M.J. Korth, H. Feldmann, and M.G. Katze.  Delayed inflammatory and cell death responses are associated with reduced pathogenicity in Lujo virus-infected cynomolgous macaques.  Journal of Virology: 89(5): 2543-52. March 1, 2015. PMID: 25520505. PMCID: PMC4325716.

A.L. Rasmussen, A. Okumura, M.T. Ferris, R. Green, F. Feldmann, S.M. Kelly, D.P. Scott, D. Safronetz, E. Haddock, R. LaCasse, M.J. Thomas, P. Sova, V.S. Carter, D.R. Miller, G.D. Shaw, M.J. Korth, M.T. Heise, R.S. Baric, F.P.M. de Villena, H. Feldmann, and M.G. Katze.  Host genetic diversity enables Ebola hemorrhagic fever pathogenesis and resistance.  Science 346(6212): 987-91.  November 21, 2014. PMID: 25359852.  PMCID: PMC4241145. 

N. Tchitchek, D. Safronetz, A.L. Rasmussen, C. Martens, K. Virtaneva, S.F. Porcella, H. Feldmann, H. Ebihara*, and M.G. Katze*.  Assembly of an Expressed Sequence Tag Library Derived from Syrian Hamster (Mesocricetus auratus) Organs. PLoS ONE 9(11):e112617.  November 14, 2014.  PMID: 25398096.  PMCID: PMC4232415.

D. Falzarano, E. de Wit, F. Feldmann, A. L. Rasmussen, A. Okumura, X. Peng, M.J. Thomas, N. van Doremalen, E. Haddock, L. Nagy, R. LaCasse, T. Liu, J. Zhu, J.S. McLellan, D.P. Scott, M.G. Katze, H. Feldmann, and V.J. Munster.  Infection with MERS-CoV causes lethal pneumonia in the common marmoset.  PLoS Pathogens.  10(8): e1004250.  August 21, 2014.  PMID: 25144235.  PMCID: PMC4140844.

E. de Wit, A.L. Rasmussen, F. Feldmann, T. Bushmaker, C. Martellaro, E. Haddock, A. Okumura, S.C. Proll, J. Chang, D. Gardner, M.G. Katze, V.J. Munster, and H. Feldmann.  Influenza virus A/Anhui/1/2013 (H7N9) replicates efficiently in the upper and lower respiratory tract of cynomolgus macaques.  mBio 5(4): e01331-14. August 12, 2014. PMID: 25118237.  PMCID: PMC4145683.

D. Falzarano, E. de Wit, A.L. Rasmussen, F. Feldmann, A. Okumura, D.P. Scott, D. Brining, T. Bushmaker, C. Martellaro, A.G. Benecke, M.G. Katze, V.J. Munster, and H. Feldmann.  Combined interferon-a2b and ribavirin treatment of rhesus macaques improves clinical outcome following infection with Middle East respiratory syndrome coronavirus (MERS-CoV).  Nature Medicine 19(10): 1313-1317.  October 2013. PMID: 24013700. PMCID: PMC4093902.

E. de Wit, A.L. Rasmussen, D. Falzarano, T. Bushmaker, F. Feldmann, D.L. Brining, E.R. Fischer, C. Martellaro, A. Okumura, J. Chang, D. Scott, A.G. Benecke, M.G. Katze, H. Feldmann, and V.J. Munster.  Middle East respiratory syndrome coronavirus (MERS-CoV) causes transient lower respiratory tract infection in rhesus macaques.  Proceedings of the National Academy of Sciences 110(41):16598-603.  October 8, 2013. PMID: 24062443. PMCID: PMC3799368.

A.L. Rasmussen*, I.-M. Wang*, M.C. Shuhart*, S.C. Proll, Y. He, R. Cristescu, C. Roberts, V.S. Carter, C.M. Williams, D.L. Diamond, J.T. Bryan, R. Ulrich, M.J. Korth, L.V. Thomassen, and M.G. Katze.  Chronic Immune Activation is a Distinguishing Feature of Liver and PBMC Gene Signatures from HCV/HIV Coinfected Patients and May Contribute to Hepatic Fibrogenesis.  Virology 430(1): 43-52.  August 15, 2012.  PMID: 22608059.  PMCID: PMC3371131.

A.L. Rasmussen*, N. Tchitchek*, N.J. Susnow, A.L. Krasnoselsky, D.L. Diamond, M.M. Yeh, S.C. Proll, M.J. Korth, K.-A. Walters, S. Lederer, A.M. Larson, R. L. Carithers Jr., A. Benecke, and M.G. Katze.  Early Transcriptional Programming Links Progression to Hepatitis C Virus-Induced Severe Liver Disease in Transplant Patients.  Hepatology 56(1): 17-27.  July 2012. PMID: 22278598.  PMCID: PMC3349763.

D.L. Diamond, A.L. Krasnoselsky, K. E. Burnum, M.E. Monroe, B. Webb-Robertson, J.E. McDermott, M.M. Yeh, S. Strom, S.C. Proll, S.E. Belisle, A.L. Rasmussen, K. Walters, J.M. Jacobs, M.A. Gritsenko, D.G. Camp, R. Bhattacharya, J.D. Perkins, R.L. Carithers Jr., I.W. Liou, A.M. Larson, K.M. Waters, R.D. Smith, and M.G. Katze.  Proteome and Computational Analyses Reveal New Insights into the Mechanisms of Hepatitis C Virus-Mediated Liver Disease.  Hepatology 56(1): 28-38.  July 2012. PMID: 22331615.  PMCID: PMC3387320.

J.E. McDermott, D.L. Diamond, C. Corley, A.L. Rasmussen, M.G. Katze, and K.M. Waters.  Topological Analysis of Protein Co-Abundance Networks Identifies Novel Host Targets Important for HCV Infection and Pathogenesis. BMC Systems Biology 6: 28, April 30, 2012. PMID: 22546282.  PMCID: PMC3383540.

A.L. Rasmussen, D.L. Diamond, J.E. McDermott, X. Gao, T.O. Metz, M.M. Matzke, V.S. Carter, S.E. Belisle, M.J. Korth, K.M. Waters, R.D. Smith, and M.G. Katze.  Systems Virology Identifies a Mitochondrial Fatty Acid Oxidation Enzyme, DCI, Required for HCV Replication and Likely Pathogenesis.  Journal of Virology, 85(22): 11646-11654.  15 November 2011. PMID: 21917952.  PMCID: PMC3209311.

A.L. Rasmussen and V.R. Racaniello, Selection of Rhinovirus 1A Variants Adapted for Growth in Mouse Lung Epithelial Cells.  Virology 420(2): 82-88, 25 November 2011. PMID: 21943827.  PMCID: PMC3205939.

M. Bonyhadi, M. Frohlich, A. Rasmussen, C. Ferrand, L. Grosmaire, E. Robinet, J. Leis, R.T. Maziarz, P. Tiberghien, and R.J. Berenson.  In vitro engagement of CD3 and CD28 Corrects T Cell Defects in Chronic Lymphocytic Leukemia.  Journal of Immunology 174(4): 2366-2375.  15 Feb 2005. PMID: 15699173.

*Authors contributed equally to this work