RDP4: Detection and analysis of recombination patterns in virus genomes
Martin, Darren P., Murrell, Ben, Golden, Michael, Khoosal, Arjun, Muhire, Brejnev
Published in Virus evolution (26.05.2015)
Published in Virus evolution (26.05.2015)
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Less is more: an adaptive branch-site random effects model for efficient detection of episodic diversifying selection
Smith, Martin D, Wertheim, Joel O, Weaver, Steven, Murrell, Ben, Scheffler, Konrad, Kosakovsky Pond, Sergei L
Published in Molecular biology and evolution (01.05.2015)
Published in Molecular biology and evolution (01.05.2015)
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RELAX: detecting relaxed selection in a phylogenetic framework
Wertheim, Joel O, Murrell, Ben, Smith, Martin D, Kosakovsky Pond, Sergei L, Scheffler, Konrad
Published in Molecular biology and evolution (01.03.2015)
Published in Molecular biology and evolution (01.03.2015)
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Journal Article
Detecting and Analyzing Genetic Recombination Using RDP4
Martin, Darren P, Murrell, Ben, Khoosal, Arjun, Muhire, Brejnev
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2017)
Published in Methods in molecular biology (Clifton, N.J.) (01.01.2017)
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Journal Article
Detecting individual sites subject to episodic diversifying selection
Murrell, Ben, Wertheim, Joel O, Moola, Sasha, Weighill, Thomas, Scheffler, Konrad, Kosakovsky Pond, Sergei L
Published in PLoS genetics (01.07.2012)
Published in PLoS genetics (01.07.2012)
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Journal Article
An alpaca nanobody neutralizes SARS-CoV-2 by blocking receptor interaction
Hanke, Leo, Vidakovics Perez, Laura, Sheward, Daniel J., Das, Hrishikesh, Schulte, Tim, Moliner-Morro, Ainhoa, Corcoran, Martin, Achour, Adnane, Karlsson Hedestam, Gunilla B., Hällberg, B. Martin, Murrell, Ben, McInerney, Gerald M.
Published in Nature communications (04.09.2020)
Published in Nature communications (04.09.2020)
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Journal Article
SARS-CoV-2 exposure, symptoms and seroprevalence in healthcare workers in Sweden
Rudberg, Ann-Sofie, Havervall, Sebastian, Månberg, Anna, Jernbom Falk, August, Aguilera, Katherina, Ng, Henry, Gabrielsson, Lena, Salomonsson, Ann-Christin, Hanke, Leo, Murrell, Ben, McInerney, Gerald, Olofsson, Jennie, Andersson, Eni, Hellström, Cecilia, Bayati, Shaghayegh, Bergström, Sofia, Pin, Elisa, Sjöberg, Ronald, Tegel, Hanna, Hedhammar, My, Phillipson, Mia, Nilsson, Peter, Hober, Sophia, Thålin, Charlotte
Published in Nature communications (08.10.2020)
Published in Nature communications (08.10.2020)
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Slow Delivery Immunization Enhances HIV Neutralizing Antibody and Germinal Center Responses via Modulation of Immunodominance
Cirelli, Kimberly M., Carnathan, Diane G., Nogal, Bartek, Martin, Jacob T., Rodriguez, Oscar L., Upadhyay, Amit A., Enemuo, Chiamaka A., Gebru, Etse H., Choe, Yury, Viviano, Federico, Nakao, Catherine, Pauthner, Matthias G., Reiss, Samantha, Cottrell, Christopher A., Smith, Melissa L., Bastidas, Raiza, Gibson, William, Wolabaugh, Amber N., Melo, Mariane B., Cossette, Benjamin, Kumar, Venkatesh, Patel, Nirav B., Tokatlian, Talar, Menis, Sergey, Kulp, Daniel W., Burton, Dennis R., Murrell, Ben, Schief, William R., Bosinger, Steven E., Ward, Andrew B., Watson, Corey T., Silvestri, Guido, Irvine, Darrell J., Crotty, Shane
Published in Cell (16.05.2019)
Published in Cell (16.05.2019)
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Journal Article
RDP5: a computer program for analyzing recombination in, and removing signals of recombination from, nucleotide sequence datasets
Martin, Darren P, Varsani, Arvind, Roumagnac, Philippe, Botha, Gerrit, Maslamoney, Suresh, Schwab, Tiana, Kelz, Zena, Kumar, Venkatesh, Murrell, Ben
Published in Virus evolution (01.01.2021)
Published in Virus evolution (01.01.2021)
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Journal Article
The emergence and ongoing convergent evolution of the SARS-CoV-2 N501Y lineages
Martin, Darren P., Weaver, Steven, Tegally, Houriiyah, San, James Emmanuel, Shank, Stephen D., Wilkinson, Eduan, Lucaci, Alexander G., Giandhari, Jennifer, Naidoo, Sureshnee, Pillay, Yeshnee, Singh, Lavanya, Lessells, Richard J., Gupta, Ravindra K., Wertheim, Joel O., Nekturenko, Anton, Murrell, Ben, Harkins, Gordon W., Lemey, Philippe, MacLean, Oscar A., Robertson, David L., de Oliveira, Tulio, Kosakovsky Pond, Sergei L.
Published in Cell (30.09.2021)
Published in Cell (30.09.2021)
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Journal Article
Social and Genetic Networks of HIV-1 Transmission in New York City
Wertheim, Joel O, Kosakovsky Pond, Sergei L, Forgione, Lisa A, Mehta, Sanjay R, Murrell, Ben, Shah, Sharmila, Smith, Davey M, Scheffler, Konrad, Torian, Lucia V
Published in PLoS pathogens (01.01.2017)
Published in PLoS pathogens (01.01.2017)
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Journal Article
Selection, biophysical and structural analysis of synthetic nanobodies that effectively neutralize SARS-CoV-2
Custódio, Tânia F., Das, Hrishikesh, Sheward, Daniel J., Hanke, Leo, Pazicky, Samuel, Pieprzyk, Joanna, Sorgenfrei, Michèle, Schroer, Martin A., Gruzinov, Andrey Yu, Jeffries, Cy M., Graewert, Melissa A., Svergun, Dmitri I., Dobrev, Nikolay, Remans, Kim, Seeger, Markus A., McInerney, Gerald M., Murrell, Ben, Hällberg, B. Martin, Löw, Christian
Published in Nature communications (04.11.2020)
Published in Nature communications (04.11.2020)
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Journal Article
Broadly Neutralizing Antibody Responses in a Large Longitudinal Sub-Saharan HIV Primary Infection Cohort
Landais, Elise, Huang, Xiayu, Havenar-Daughton, Colin, Murrell, Ben, Price, Matt A, Wickramasinghe, Lalinda, Ramos, Alejandra, Bian, Charoan B, Simek, Melissa, Allen, Susan, Karita, Etienne, Kilembe, William, Lakhi, Shabir, Inambao, Mubiana, Kamali, Anatoli, Sanders, Eduard J, Anzala, Omu, Edward, Vinodh, Bekker, Linda-Gail, Tang, Jianming, Gilmour, Jill, Kosakovsky-Pond, Sergei L, Phung, Pham, Wrin, Terri, Crotty, Shane, Godzik, Adam, Poignard, Pascal
Published in PLoS pathogens (01.01.2016)
Published in PLoS pathogens (01.01.2016)
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Vaccine-Induced Protection from Homologous Tier 2 SHIV Challenge in Nonhuman Primates Depends on Serum-Neutralizing Antibody Titers
Pauthner, Matthias G., Nkolola, Joseph P., Havenar-Daughton, Colin, Murrell, Ben, Reiss, Samantha M., Bastidas, Raiza, Prévost, Jérémie, Nedellec, Rebecca, von Bredow, Benjamin, Abbink, Peter, Cottrell, Christopher A., Kulp, Daniel W., Tokatlian, Talar, Nogal, Bartek, Bianchi, Matteo, Li, Hui, Lee, Jeong Hyun, Butera, Salvatore T., Evans, David T., Hangartner, Lars, Finzi, Andrés, Wilson, Ian A., Wyatt, Richard T., Irvine, Darrell J., Schief, William R., Ward, Andrew B., Sanders, Rogier W., Crotty, Shane, Shaw, George M., Barouch, Dan H., Burton, Dennis R.
Published in Immunity (Cambridge, Mass.) (15.01.2019)
Published in Immunity (Cambridge, Mass.) (15.01.2019)
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Phenotypic characterization of single CD4+ T cells harboring genetically intact and inducible HIV genomes
Dufour, Caroline, Richard, Corentin, Pardons, Marion, Massanella, Marta, Ackaoui, Antoine, Murrell, Ben, Routy, Bertrand, Thomas, Réjean, Routy, Jean-Pierre, Fromentin, Rémi, Chomont, Nicolas
Published in Nature communications (27.02.2023)
Published in Nature communications (27.02.2023)
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A bispecific monomeric nanobody induces spike trimer dimers and neutralizes SARS-CoV-2 in vivo
Hanke, Leo, Das, Hrishikesh, Sheward, Daniel J., Perez Vidakovics, Laura, Urgard, Egon, Moliner-Morro, Ainhoa, Kim, Changil, Karl, Vivien, Pankow, Alec, Smith, Natalie L., Porebski, Bartlomiej, Fernandez-Capetillo, Oscar, Sezgin, Erdinc, Pedersen, Gabriel K., Coquet, Jonathan M., Hällberg, B. Martin, Murrell, Ben, McInerney, Gerald M.
Published in Nature communications (01.01.2022)
Published in Nature communications (01.01.2022)
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Vaccine elicitation of HIV broadly neutralizing antibodies from engineered B cells
Huang, Deli, Tran, Jenny Tuyet, Olson, Alex, Vollbrecht, Thomas, Tenuta, Mary, Guryleva, Mariia V., Fuller, Roberta P., Schiffner, Torben, Abadejos, Justin R., Couvrette, Lauren, Blane, Tanya R., Saye, Karen, Li, Wenjuan, Landais, Elise, Gonzalez-Martin, Alicia, Schief, William, Murrell, Ben, Burton, Dennis R., Nemazee, David, Voss, James E.
Published in Nature communications (17.11.2020)
Published in Nature communications (17.11.2020)
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Multianalyte serology in home-sampled blood enables an unbiased assessment of the immune response against SARS-CoV-2
Roxhed, Niclas, Bendes, Annika, Dale, Matilda, Mattsson, Cecilia, Hanke, Leo, Dodig-Crnković, Tea, Christian, Murray, Meineke, Birthe, Elsässer, Simon, Andréll, Juni, Havervall, Sebastian, Thålin, Charlotte, Eklund, Carina, Dillner, Joakim, Beck, Olof, Thomas, Cecilia E., McInerney, Gerald, Hong, Mun-Gwan, Murrell, Ben, Fredolini, Claudia, Schwenk, Jochen M.
Published in Nature communications (17.06.2021)
Published in Nature communications (17.06.2021)
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