Universität zu Köln

Bar-On, Yotam, Gruell, Henning, Schoofs, Till, Pai, Joy A., Nogueira, Lilian, Butler, Allison L., Millard, Katrina, Lehmann, Clara, Suarez, Isabelle, Oliveira, Thiago Y., Karagounis, Theodora ORCID: 0000-0003-1481-9589, Cohen, Yehuda Z., Wyen, Christoph, Scholten, Stefan, Handl, Lisa, Belblidia, Shiraz, Dizon, Juan P., Vehreschild, Joerg J., Witmer-Pack, Maggi, Shimeliovich, Irina, Jain, Kanika, Fiddike, Kerstin, Seaton, Kelly E., Yates, Nicole L., Horowitz, Jill, Gulick, Roy M., Pfeifer, Nico, Tomaras, Georgia D., Seaman, Michael S., Faetkenheuer, Gerd, Caskey, Marina, Klein, Florian and Nussenzweig, Michel C. (2018). Safety and antiviral activity of combination HIV-1 broadly neutralizing antibodies in viremic individuals. Nat. Med., 24 (11). S. 1701 - 1710. NEW YORK: NATURE PUBLISHING GROUP. ISSN 1546-170X

Caskey, Marina ORCID: 0000-0003-1727-8693, Schoofs, Till, Gruell, Henning, Settler, Allison, Karagounis, Theodora ORCID: 0000-0003-1481-9589, Kreider, Edward F., Murrell, Ben ORCID: 0000-0002-0393-4445, Pfeifer, Nico ORCID: 0000-0002-4647-8566, Nogueira, Lilian, Oliveira, Thiago Y., Learn, Gerald H., Cohen, Yehuda Z., Lehmann, Clara, Gillor, Daniel, Shimeliovich, Irma, Unson-O'Brien, Cecilia, Weiland, Daniela, Robles, Alexander, Kuemmerle, Tim, Wyen, Christoph, Levin, Rebeka, Witmer-Pack, Maggi, Eren, Kemal, Ignacio, Caroline, Kiss, Szilard ORCID: 0000-0003-3433-8432, West, Anthony P., Jr., Mouquet, Hugo ORCID: 0000-0002-4230-610X, Zingman, Barry S., Gulick, Roy M., Keler, Tibor, Bjorkman, Pamela J., Seaman, Michael S., Hahn, Beatrice H., Faetkenheuer, Gerd, Schlesinger, Sarah J., Nussenzweig, Michel C. and Kleine, Florian (2017). Antibody 10-1074 suppresses viremia in HIV-1-infected individuals. Nat. Med., 23 (2). S. 185 - 192. NEW YORK: NATURE PUBLISHING GROUP. ISSN 1546-170X

De Luca, Andrea, Pezzotti, Patrizio, Boucher, Charles, Doering, Matthias, Incardona, Francesca ORCID: 0000-0002-7386-8551, Kaiser, Rolf, Lengauer, Thomas ORCID: 0000-0003-3801-2640, Pfeifer, Nico, Schuelter, Eugen, Vandamme, Anne-Mieke, Zazzi, Maurizio and Geretti, Anna Maria (2019). Clinical use, efficacy, and durability of maraviroc for antiretroviral therapy in routine care: A European survey. PLoS One, 14 (11). SAN FRANCISCO: PUBLIC LIBRARY SCIENCE. ISSN 1932-6203

Doering, Matthias, Borrego, Pedro, Buech, Joachim, Martins, Andreia, Friedrich, Georg, Camacho, Ricardo Jorge, Eberle, Josef, Kaiser, Rolf, Lengauer, Thomas ORCID: 0000-0003-3801-2640, Taveira, Nuno ORCID: 0000-0003-0176-5585 and Pfeifer, Nico (2016). Geno2pheno (coreceptor-hiv2): a new diagnostic tool for the genotypic determination of HIV-2 coreceptor usage. J. Int. AIDS Soc., 19. CHICHESTER: JOHN WILEY & SONS LTD. ISSN 1758-2652

Doering, Matthias, Borrego, Pedro ORCID: 0000-0002-1949-9484, Buech, Joachim, Martins, Andreia, Friedrich, Georg, Camacho, Ricardo Jorge, Eberle, Josef, Kaiser, Rolf, Lengauer, Thomas ORCID: 0000-0003-3801-2640, Taveira, Nuno ORCID: 0000-0003-0176-5585 and Pfeifer, Nico ORCID: 0000-0002-4647-8566 (2016). A genotypic method for determining HIV-2 coreceptor usage enables epidemiological studies and clinical decision support. Retrovirology, 13. LONDON: BIOMED CENTRAL LTD. ISSN 1742-4690

Doering, Matthias, Buech, Joachim, Friedrich, Georg, Pironti, Alejandro, Kalaghatgi, Prabhav, Knops, Elena, Heger, Eva, Obermeier, Martin, Daeumer, Martin, Thielen, Alexander, Kaiser, Rolf, Lengauer, Thomas ORCID: 0000-0003-3801-2640 and Pfeifer, Nico (2018). geno2pheno[ngs-freq]: a genotypic interpretation system for identifying viral drug resistance using next-generation sequencing data. Nucleic Acids Res., 46 (W1). S. W271 - 7. OXFORD: OXFORD UNIV PRESS. ISSN 1362-4962

Doering, Matthias, Kreer, Christoph ORCID: 0000-0002-9140-9850, Lehnen, Nathalie, Klein, Florian and Pfeifer, Nico (2019). Modeling the Amplification of Immunoglobulins through Machine Learning on Sequence-Specific Features. Sci Rep, 9. LONDON: NATURE PUBLISHING GROUP. ISSN 2045-2322

Ehrhardt, Stefanie A., Zehner, Matthias, Kraehling, Verena, Cohen-Dvashi, Hadas, Kreer, Christoph ORCID: 0000-0002-9140-9850, Elad, Nadav ORCID: 0000-0001-6222-2280, Gruell, Henning, Ercanoglu, Meryem S., Schommers, Philipp ORCID: 0000-0003-3375-6800, Gieselmann, Lutz, Eggeling, Ralf ORCID: 0000-0002-3583-1029, Dahlke, Christine, Wolf, Timo, Pfeifer, Nico, Addo, Marylyn M., Diskin, Ron, Becker, Stephan and Klein, Florian (2019). Polyclonal and convergent antibody response to Ebola virus vaccine rVSV-ZEBOV. Nat. Med., 25 (10). S. 1589 - 1614. NEW YORK: NATURE PUBLISHING GROUP. ISSN 1546-170X

Grund, Sebastian, Gkioule, Charikleia, Termos, Tahani, Pfeifer, Nico ORCID: 0000-0002-4647-8566, Kobbe, Guido, Verheyen, Jens and Adams, Ortwin (2015). Primarily oseltamivir-resistant influenza A (H1N1pdm09) virus evolving into a multidrug-resistant virus carrying H275Y and I223R neuraminidase substitutions. Antivir. Ther., 20 (1). S. 97 - 101. LONDON: INT MEDICAL PRESS LTD. ISSN 1359-6535

Horemheb-Rubio, Gibran, Eggeling, Ralf, Schmeisser, Norbert, Pfeifer, Nico ORCID: 0000-0002-4647-8566, Lengauer, Thomas, Gaertner, Barbara C., Prifert, Christiane, Kochanek, Matthias, Scheid, Christoph, Adams, Ortwin and Kaiser, Rolf ORCID: 0000-0002-2640-2548 (2022). Respiratory viruses dynamics and interactions: ten years of surveillance in central Europe. BMC Public Health, 22 (1). LONDON: BMC. ISSN 1471-2458

Korenkov, Michael ORCID: 0000-0002-2988-8483, Poopalasingam, Nareshkumar ORCID: 0000-0002-4981-6209, Madler, Matthias, Vanshylla, Kanika ORCID: 0000-0003-4552-9170, Eggeling, Ralf, Wirtz, Maike, Fish, Irina, Dewald, Felix, Gieselmann, Lutz, Lehmann, Clara, Fatkenheuer, Gerd, Gruell, Henning, Pfeifer, Nico, Heger, Eva and Klein, Florian (2021). Evaluation of a Rapid Antigen Test To Detect SARS-CoV-2 Infection and Identify Potentially Infectious Individuals. J. Clin. Microbiol., 59 (9). WASHINGTON: AMER SOC MICROBIOLOGY. ISSN 1098-660X

Kreer, Christoph, Doering, Matthias, Lehnen, Nathalie, Ercanoglu, Meryem S., Gieselmann, Lutz, Luca, Domnica, Jain, Kanika, Schommers, Philipp, Pfeifer, Nico and Klein, Florian (2020). openPrimeR for multiplex ampli fi cation of highly diverse templates. J. Immunol. Methods, 480. AMSTERDAM: ELSEVIER. ISSN 1872-7905

Kreer, Christoph, Zehner, Matthias, Weber, Timm, Ercanoglu, Meryem S., Gieselmann, Lutz, Rohde, Cornelius, Halwe, Sandro, Korenkov, Michael, Schommers, Philipp ORCID: 0000-0003-3375-6800, Vanshylla, Kanika, Di Cristanziano, Veronica, Janicki, Hanna, Brinker, Reinhild, Ashurov, Artem, Kraehling, Verena, Kupke, Alexandra, Cohen-Dvashi, Hadas, Koch, Manuel, Eckert, Jan Mathis, Lederer, Simone, Pfeifer, Nico, Wolf, Timo, Vehreschild, Maria J. G. T., Wendtner, Clemens, Diskin, Ron, Gruell, Henning, Becker, Stephan and Klein, Florian (2020). Longitudinal Isolation of Potent Near-Germline SARS-CoV-2-Neutralizing Antibodies from COVID-19 Patients. Cell, 182 (4). S. 843 - 867. CAMBRIDGE: CELL PRESS. ISSN 1097-4172

Marty, Nina, Saeng-Aroon, Siriphan, Heger, Eva, Thielen, Alexander, Obermeier, Martin, Pfeifer, Nico, Kaiser, Rolf and Klimkait, Thomas ORCID: 0000-0003-4945-6511 (2021). Adapting the geno2pheno[coreceptor] tool to HIV-1 subtype CRF01_AE by phenotypic validation using clinical isolates from South-East Asia. J. Clin. Virol., 136. AMSTERDAM: ELSEVIER. ISSN 1873-5967

Matsuda, Masakazu, Louvel, Severine, Sugiura, Wataru, Haas, Alexandra, Pfeifer, Nico, Yokomaku, Yoshiyuki, Iwatani, Yasumasa, Kaiser, Rolf and Klimkait, Thomas ORCID: 0000-0003-4945-6511 (2018). Performance Evaluation of a Genotypic Tropism Test Using HIV-1 CRF01_AE Isolates in Japan. Jpn. J. Infect. Dis., 71 (4). S. 264 - 267. TOKYO: NATL INST INFECTIOUS DISEASES. ISSN 1884-2836

Mendoza, Pilar, Gruell, Henning, Nogueira, Lilian, Pai, Joy A., Butler, Allison L., Millard, Katrina, Lehmann, Clara, Suarez, Isabelle, Oliveira, Thiago Y., Lorenzi, Julio C. C., Cohen, Yehuda Z., Wyen, Christoph, Kuemmerle, Tim, Karagounis, Theodora ORCID: 0000-0003-1481-9589, Lu, Ching-Lan, Handl, Lisa, Unson-O'Brien, Cecilia, Patel, Roshni, Ruping, Carola, Schlotz, Maike, Witmer-Pack, Maggi, Shimeliovich, Irina, Kremer, Gisela, Thomas, Eleonore, Seaton, Kelly E., Horowitz, Jill, West, Anthony P., Jr., Bjorkman, Pamela J., Tomaras, Georgia D., Gulick, Roy M., Pfeifer, Nico, Faetkenheuer, Gerd, Seaman, Michael S., Klein, Florian, Caskey, Marina and Nussenzweig, Michel C. (2018). Combination therapy with anti-HIV-1 antibodies maintains viral suppression. Nature, 561 (7724). S. 479 - 497. LONDON: NATURE PUBLISHING GROUP. ISSN 1476-4687

Pironti, Alejandro, Pfeifer, Nico, Kaiser, Rolf, Walter, Hauke and Lengauer, Thomas ORCID: 0000-0003-3801-2640 (2014). Improved therapy-success prediction with GSS estimated from clinical HIV-1 sequences. J. Int. AIDS Soc., 17. S. 155 - 157. CHICHESTER: JOHN WILEY & SONS LTD. ISSN 1758-2652

Pironti, Alejandro, Pfeifer, Nico, Walter, Hauke, Jensen, Bjorn-Erik O., Zazzi, Maurizio ORCID: 0000-0002-0344-6281, Gomes, Perpetua ORCID: 0000-0003-3271-8255, Kaiser, Rolf and Lengauer, Thomas ORCID: 0000-0003-3801-2640 (2017). Using drug exposure for predicting drug resistance - A data-driven genotypic interpretation tool. PLoS One, 12 (4). SAN FRANCISCO: PUBLIC LIBRARY SCIENCE. ISSN 1932-6203

Pironti, Alejandro, Sierra, Saleta, Kaiser, Rolf, Lengauer, Thomas ORCID: 0000-0003-3801-2640 and Pfeifer, Nico ORCID: 0000-0002-4647-8566 (2015). Effects of sequence alterations on results from genotypic tropism testing. J. Clin. Virol., 65. S. 68 - 74. AMSTERDAM: ELSEVIER SCIENCE BV. ISSN 1873-5967

Pironti, Alejandro, Sierra, Saleta, Kaiser, Rolf, Lengauer, Thomas ORCID: 0000-0003-3801-2640 and Pfeifer, Nico ORCID: 0000-0002-4647-8566 (2015). Effects of sequence alterations on results from genotypic tropism testing. J. Clin. Virol., 65. S. 68 - 74. AMSTERDAM: ELSEVIER SCIENCE BV. ISSN 1873-5967

Pironti, Alejandro, Walter, Hauke, Pfeifer, Nico ORCID: 0000-0002-4647-8566, Knops, Elena, Luebke, Nadine, Buech, Joachim, Di Giambenedetto, Simona, Kaiser, Rolf and Lengauer, Thomas ORCID: 0000-0003-3801-2640 (2017). Determination of Phenotypic Resistance Cutoffs From Routine Clinical Data. JAIDS, 74 (5). S. E129 - 9. PHILADELPHIA: LIPPINCOTT WILLIAMS & WILKINS. ISSN 1077-9450

Scheid, Johannes F., Horwitz, Joshua A., Bar-On, Yotam, Kreider, Edward F., Lu, Ching-Lan, Lorenzi, Julio C. C., Feldmann, Anna, Braunschweig, Malte, Nogueira, Lilian, Oliveira, Thiago ORCID: 0000-0002-2654-0879, Shimeliovich, Irina, Patel, Roshni, Burke, Leah, Cohen, Yehuda Z., Hadrigan, Sonya, Settler, Allison, Witmer-Pack, Maggi, West, Anthony P., Jr., Juelg, Boris ORCID: 0000-0002-4687-9626, Keler, Tibor, Hawthorne, Thomas, Zingman, Barry, Gulick, Roy M., Pfeifer, Nico ORCID: 0000-0002-4647-8566, Learn, Gerald H., Seaman, Michael S., Bjorkman, Pamela J., Klein, Florian, Schlesinger, Sarah J., Walker, Bruce D., Hahn, Beatrice H., Nussenzweig, Michel C. and Caskey, Marina ORCID: 0000-0003-1727-8693 (2016). HIV-1 antibody 3BNC117 suppresses viral rebound in humans during treatment interruption. Nature, 535 (7613). S. 556 - 573. LONDON: NATURE PUBLISHING GROUP. ISSN 1476-4687

Schoofs, Till, Klein, Florian, Braunschweig, Malte, Kreider, Edward F., Feldmann, Anna, Nogueira, Lilian, Oliveira, Thiago ORCID: 0000-0002-2654-0879, Lorenzi, Julio C. C., Parrish, Erica H., Learn, Gerald H., West, Anthony P., Jr., Bjorkman, Pamela J., Schlesinger, Sarah J., Seaman, Michael S., Czartoski, Julie, McElrath, M. Juliana, Pfeifer, Nico ORCID: 0000-0002-4647-8566, Hahn, Beatrice H., Caskey, Marina ORCID: 0000-0003-1727-8693 and Nussenzweig, Michel C. (2016). HIV-1 therapy with monoclonal antibody 3BNC117 elicits host immune responses against HIV-1. Science, 352 (6288). S. 997 - 1002. WASHINGTON: AMER ASSOC ADVANCEMENT SCIENCE. ISSN 1095-9203

Vanshylla, Kanika ORCID: 0000-0003-4552-9170, Di Cristanziano, Veronica, Kleipass, Franziska, Dewald, Felix, Schommers, Philipp ORCID: 0000-0003-3375-6800, Gieselmann, Lutz ORCID: 0000-0003-3699-3318, Gruell, Henning, Schlotz, Maike, Ercanoglu, Meryem S., Stumpf, Ricarda, Mayer, Petra, Zehner, Matthias, Heger, Eva, Johannis, Wibke, Horn, Carola, Suarez, Isabelle, Jung, Norma, Salomon, Susanne, Eberhardt, Kirsten Alexandra, Gathof, Birgit, Faetkenheuer, Gerd, Pfeifer, Nico, Eggeling, Ralf, Augustin, Max, Lehmann, Clara and Klein, Florian (2021). Kinetics and correlates of the neutralizing antibody response to SARS-CoV-2 infection in humans. Cell Host Microbe, 29 (6). S. 917 - 934. CAMBRIDGE: CELL PRESS. ISSN 1934-6069

Vanshylla, Kanika ORCID: 0000-0003-4552-9170, Tober-Lau, Pinkus ORCID: 0000-0002-9148-3663, Gruell, Henning, Muenn, Friederike, Eggeling, Ralf, Pfeifer, Nico ORCID: 0000-0002-4647-8566, Le, N. Han, Landgraf, Irmgard, Kurth, Florian ORCID: 0000-0002-3807-473X, Sander, Leif E. and Klein, Florian ORCID: 0000-0003-1376-1792 (2022). Durability of omicron-neutralising serum activity after mRNA booster immunisation in older adults. Lancet Infect. Dis., 22 (4). S. 445 - 447. OXFORD: ELSEVIER SCI LTD. ISSN 1474-4457

Weber, Timm ORCID: 0000-0003-2079-842X, Potthoff, Julian, Bizu, Sven ORCID: 0000-0003-4839-2472, Labuhn, Maurice, Dold, Leona, Schoofs, Till, Horning, Marcel ORCID: 0000-0003-1468-4645, Ercanoglu, Meryem S., Kreer, Christoph ORCID: 0000-0002-9140-9850, Gieselmann, Lutz ORCID: 0000-0003-3699-3318, Vanshylla, Kanika ORCID: 0000-0003-4552-9170, Langhans, Bettina, Janicki, Hanna, Stroeh, Luisa J., Knops, Elena, Nierhoff, Dirk, Spengler, Ulrich, Kaiser, Rolf, Bjorkman, Pamela J., Krey, Thomas, Bankwitz, Dorothea, Pfeifer, Nico ORCID: 0000-0002-4647-8566, Pietschmann, Thomas, Flyak, Andrew, I and Klein, Florian ORCID: 0000-0003-1376-1792 (2022). Analysis of antibodies from HCV elite neutralizers identifies genetic determinants of broad neutralization. Immunity, 55 (2). S. 341 - 363. CAMBRIDGE: CELL PRESS. ISSN 1097-4180

van de Klundert, Maarten A. A., Antonova, Anastasiia, Di Teodoro, Giulia, Diez, Rafael Cena, Chkhartishvili, Nikoloz, Heger, Eva, Kuznetsova, Anna, Lebedev, Aleksey, Narayanan, Aswathy, Ozhmegova, Ekaterina ORCID: 0000-0002-3110-0843, Pronin, Alexander, Shemshura, Andrey ORCID: 0000-0003-1637-4229, Tumanov, Alexandr, Pfeifer, Nico, Kaiser, Rolf, Saladini, Francesco ORCID: 0000-0002-9934-377X, Zazzi, Maurizio ORCID: 0000-0002-0344-6281, Incardona, Francesca, Bobkova, Marina ORCID: 0000-0001-5481-8957 and Sonnerborg, Anders (2022). Molecular Epidemiology of HIV-1 in Eastern Europe and Russia. Viruses-Basel, 14 (10). BASEL: MDPI. ISSN 1999-4915