Search Results - "Carlson, Jonathan M"

Risk of rapid evolutionary escape from biomedical interventions targeting SARS-CoV-2 spike protein by Van Egeren, Debra, Novokhodko, Alexander, Stoddard, Madison, Tran, Uyen, Zetter, Bruce, Rogers, Michael, Pentelute, Bradley L, Carlson, Jonathan M, Hixon, Mark, Joseph-McCarthy, Diane, Chakravarty, Arijit

“…The spike protein receptor-binding domain (RBD) of SARS-CoV-2 is the molecular target for many vaccines and antibody-based prophylactics aimed at bringing…”
Get full text

Selection bias at the heterosexual HIV-1 transmission bottleneck by Carlson, Jonathan M., Schaefer, Malinda, Monaco, Daniela C., Batorsky, Rebecca, Claiborne, Daniel T., Prince, Jessica, Deymier, Martin J., Ende, Zachary S., Klatt, Nichole R., DeZiel, Charles E., Lin, Tien-Ho, Peng, Jian, Seese, Aaron M., Shapiro, Roger, Frater, John, Ndung'u, Thumbi, Tang, Jianming, Goepfert, Paul, Gilmour, Jill, Price, Matt A., Kilembe, William, Heckerman, David, Goulder, Philip J.R., Allen, Todd M., Allen, Susan, Hunter, Eric

“…HIV needs to be fit to transmit Although you might not think it, it's hard to catch HIV. Less than 1% of unprotected sexual exposures result in infection. What…”
Get full text

Widespread Impact of HLA Restriction on Immune Control and Escape Pathways of HIV-1 by Carlson, Jonathan M, Listgarten, Jennifer, Pfeifer, Nico, Tan, Vincent, Kadie, Carl, Walker, Bruce D, Ndung'u, Thumbi, Shapiro, Roger, Frater, John, Brumme, Zabrina L, Goulder, Philip J R, Heckerman, David

“…OA  Article Usage Stats Services JVI Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+…”
Get full text

Additive Contribution of HLA Class I Alleles in the Immune Control of HIV-1 Infection by LESLIE, Alasdair, MATTHEWS, Philippa C, GOULDER, Philip J. R, LISTGARTEN, Jennifer, CARLSON, Jonathan M, KADIE, Carl, NDUNG'U, Thumbi, BRANDER, Christian, COOVADIA, Hoosen, WALKER, Bruce D, HECKERMAN, David

“…OA  Article Usage Stats Services JVI Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+…”
Get full text

Impact of HLA-driven HIV adaptation on virulence in populations of high HIV seroprevalence by Payne, Rebecca, Muenchhoff, Maximilian, Mann, Jaclyn, Roberts, Hannah E, Matthews, Philippa, Adland, Emily, Hempenstall, Allison, Huang, Kuan-Hsiang, Brockman, Mark, Brumme, Zabrina, Sinclair, Marc, Miura, Toshiyuki, Frater, John, Essex, Myron, Shapiro, Roger, Walker, Bruce D, Ndung'u, Thumbi, McLean, Angela R, Carlson, Jonathan M, Goulder, Philip J R

“…It is widely believed that epidemics in new hosts diminish in virulence over time, with natural selection favoring pathogens that cause minimal disease…”
Get full text

Role of transmitted Gag CTL polymorphisms in defining replicative capacity and early HIV-1 pathogenesis by Prince, Jessica L, Claiborne, Daniel T, Carlson, Jonathan M, Schaefer, Malinda, Yu, Tianwei, Lahki, Shabir, Prentice, Heather A, Yue, Ling, Vishwanathan, Sundaram A, Kilembe, William, Goepfert, Paul, Price, Matthew A, Gilmour, Jill, Mulenga, Joseph, Farmer, Paul, Derdeyn, Cynthia A, Tang, Jiaming, Heckerman, David, Kaslow, Richard A, Allen, Susan A, Hunter, Eric

“…Initial studies of 88 transmission pairs in the Zambia Emory HIV Research Project cohort demonstrated that the number of transmitted HLA-B associated…”
Get full text

Differences in the Selection Bottleneck between Modes of Sexual Transmission Influence the Genetic Composition of the HIV-1 Founder Virus by Tully, Damien C, Ogilvie, Colin B, Batorsky, Rebecca E, Bean, David J, Power, Karen A, Ghebremichael, Musie, Bedard, Hunter E, Gladden, Adrianne D, Seese, Aaron M, Amero, Molly A, Lane, Kimberly, McGrath, Graham, Bazner, Suzane B, Tinsley, Jake, Lennon, Niall J, Henn, Matthew R, Brumme, Zabrina L, Norris, Philip J, Rosenberg, Eric S, Mayer, Kenneth H, Jessen, Heiko, Kosakovsky Pond, Sergei L, Walker, Bruce D, Altfeld, Marcus, Carlson, Jonathan M, Allen, Todd M

“…Due to the stringent population bottleneck that occurs during sexual HIV-1 transmission, systemic infection is typically established by a limited number of…”
Get full text

Prevalence and Characteristics of Hepatitis B Virus (HBV) Coinfection among HIV-Positive Women in South Africa and Botswana by Matthews, Philippa C, Beloukas, Apostolos, Malik, Amna, Carlson, Jonathan M, Jooste, Pieter, Ogwu, Anthony, Shapiro, Roger, Riddell, Lynn, Chen, Fabian, Luzzi, Graz, Jaggernath, Manjeetha, Jesuthasan, Gerald, Jeffery, Katie, Ndung'u, Thumbi, Goulder, Philip J R, Geretti, Anna Maria, Klenerman, Paul

“…There is progressive concern about the evolving burden of morbidity and mortality caused by coinfection with HIV-1 and hepatitis B virus (HBV) in sub-Saharan…”
Get full text

Selection of an HLA-C03:04-Restricted HIV-1 p24 Gag Sequence Variant Is Associated with Viral Escape from KIR2DL3+ Natural Killer Cells: Data from an Observational Cohort in South Africa by Hölzemer, Angelique, Thobakgale, Christina F, Jimenez Cruz, Camilo A, Garcia-Beltran, Wilfredo F, Carlson, Jonathan M, van Teijlingen, Nienke H, Mann, Jaclyn K, Jaggernath, Manjeetha, Kang, Seung-gu, Körner, Christian, Chung, Amy W, Schafer, Jamie L, Evans, David T, Alter, Galit, Walker, Bruce D, Goulder, Philip J, Carrington, Mary, Hartmann, Pia, Pertel, Thomas, Zhou, Ruhong, Ndung'u, Thumbi, Altfeld, Marcus

“…Viruses can evade immune surveillance, but the underlying mechanisms are insufficiently understood. Here, we sought to understand the mechanisms by which…”
Get full text

HLA-associated immune escape pathways in HIV-1 subtype B Gag, Pol and Nef proteins by Brumme, Zabrina L, John, Mina, Carlson, Jonathan M, Brumme, Chanson J, Chan, Dennison, Brockman, Mark A, Swenson, Luke C, Tao, Iris, Szeto, Sharon, Rosato, Pamela, Sela, Jennifer, Kadie, Carl M, Frahm, Nicole, Brander, Christian, Haas, David W, Riddler, Sharon A, Haubrich, Richard, Walker, Bruce D, Harrigan, P Richard, Heckerman, David, Mallal, Simon

“…Despite the extensive genetic diversity of HIV-1, viral evolution in response to immune selective pressures follows broadly predictable mutational patterns…”
Get full text

CD8 T cells targeting adapted epitopes in chronic HIV infection promote dendritic cell maturation and CD4 T cell trans-infection by Qin, Kai, Boppana, Sushma, Du, Victor Y, Carlson, Jonathan M, Yue, Ling, Dilernia, Dario A, Hunter, Eric, Mailliard, Robbie B, Mallal, Simon A, Bansal, Anju, Goepfert, Paul A

“…HIV-1 frequently escapes from CD8 T cell responses via HLA-I restricted adaptation, leading to the accumulation of adapted epitopes (AE). We previously…”
Get full text

A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control by Bartha, István, Carlson, Jonathan M, Brumme, Chanson J, McLaren, Paul J, Brumme, Zabrina L, John, Mina, Haas, David W, Martinez-Picado, Javier, Dalmau, Judith, López-Galíndez, Cecilio, Casado, Concepción, Rauch, Andri, Günthard, Huldrych F, Bernasconi, Enos, Vernazza, Pietro, Klimkait, Thomas, Yerly, Sabine, O'Brien, Stephen J, Listgarten, Jennifer, Pfeifer, Nico, Lippert, Christoph, Fusi, Nicolo, Kutalik, Zoltán, Allen, Todd M, Müller, Viktor, Harrigan, P Richard, Heckerman, David, Telenti, Amalio, Fellay, Jacques

“…HIV-1 sequence diversity is affected by selection pressures arising from host genomic factors. Using paired human and viral data from 1071 individuals, we ran…”
Get full text

Host-specific adaptation of HIV-1 subtype B in the Japanese population by Chikata, Takayuki, Carlson, Jonathan M, Tamura, Yoshiko, Borghan, Mohamed Ali, Naruto, Takuya, Hashimoto, Masao, Murakoshi, Hayato, Le, Anh Q, Mallal, Simon, John, Mina, Gatanaga, Hiroyuki, Oka, Shinichi, Brumme, Zabrina L, Takiguchi, Masafumi

“…The extent to which HIV-1 clade B strains exhibit population-specific adaptations to host HLA alleles remains incompletely known, in part due to incomplete…”
Get full text

Genotypic and Mechanistic Characterization of Subtype-Specific HIV Adaptation to Host Cellular Immunity by Kinloch, Natalie N, Lee, Guinevere Q, Carlson, Jonathan M, Jin, Steven W, Brumme, Chanson J, Byakwaga, Helen, Muzoora, Conrad, Bwana, Mwebesa B, Cobarrubias, Kyle D, Hunt, Peter W, Martin, Jeff N, Carrington, Mary, Bangsberg, David R, Harrigan, P Richard, Brockman, Mark A, Brumme, Zabrina L

“…The extent to which viral genetic context influences HIV adaptation to human leukocyte antigen (HLA) class I-restricted immune pressures remains incompletely…”
Get full text

Correlates of Protective Cellular Immunity Revealed by Analysis of Population-Level Immune Escape Pathways in HIV-1 by CARLSON, Jonathan M, BRUMME, Chanson J, HAUBRICH, Richard, NELSON, George, PFEIFER, Nico, DEZIEL, Charles E, HECKERMAN, David, APPS, Richard, CARRINGTON, Mary, MALLAL, Simon, RICHARD HARRIGAN, P, JOHN, Mina, MARTIN, Eric, BRUMME, Zabrina L, LISTGARTEN, Jennifer, BROCKMAN, Mark A, LE, Anh Q, CHUI, Celia K. S, COTTON, Laura A, KNAPP, David J. H. F, RIDDLER, Sharon A

“…OA  Article Usage Stats Services JVI Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+…”
Get full text

Early Selection in Gag by Protective HLA Alleles Contributes to Reduced HIV-1 Replication Capacity That May Be Largely Compensated for in Chronic Infection by BROCKMAN, Mark A, BRUMME, Zabrina L, KELLEHER, Anthony D, MARKOWITZ, Martin, JESSEN, Heiko, ROSENBERG, Eric, ALTFELD, Marcus, HARRIGAN, P. Richard, HECKERMAN, David, WALKER, Bruce D, ALLEN, Todd M, BRUMME, Chanson J, MIURA, Toshiyuki, SELA, Jennifer, ROSATO, Pamela C, KADIE, Carl M, CARLSON, Jonathan M, MARKLE, Tristan J, STREECK, Hendrik

“…Article Usage Stats Services JVI Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+ Mendeley…”
Get full text

Phylogenetic dependency networks: inferring patterns of CTL escape and codon covariation in HIV-1 Gag by Carlson, Jonathan M, Brumme, Zabrina L, Rousseau, Christine M, Brumme, Chanson J, Matthews, Philippa, Kadie, Carl, Mullins, James I, Walker, Bruce D, Harrigan, P Richard, Goulder, Philip J R, Heckerman, David

“…HIV avoids elimination by cytotoxic T-lymphocytes (CTLs) through the evolution of escape mutations. Although there is mounting evidence that these escape…”
Get full text

Frequent and Variable Cytotoxic-T-Lymphocyte Escape-Associated Fitness Costs in the Human Immunodeficiency Virus Type 1 Subtype B Gag Proteins by Boutwell, Christian L, Carlson, Jonathan M, Lin, Tien-Ho, Seese, Aaron, Power, Karen A, Peng, Jian, Tang, Yanhua, Brumme, Zabrina L, Heckerman, David, Schneidewind, Arne, Allen, Todd M

“…Article Usage Stats Services JVI Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+ Mendeley…”
Get full text

T cell receptor sequencing identifies prior SARS-CoV-2 infection and correlates with neutralizing antibodies and disease severity by Elyanow, Rebecca, Snyder, Thomas M, Dalai, Sudeb C, Gittelman, Rachel M, Boonyaratanakornkit, Jim, Wald, Anna, Selke, Stacy, Wener, Mark H, Morishima, Chihiro, Greninger, Alexander L, Gale, Jr, Michael, Hsiang, Tien-Ying, Jing, Lichen, Holbrook, Michael R, Kaplan, Ian M, Zahid, H Jabran, May, Damon H, Carlson, Jonathan M, Baldo, Lance, Manley, Thomas, Robins, Harlan S, Koelle, David M

“…BACKGROUNDMeasuring the immune response to SARS-CoV-2 enables assessment of past infection and protective immunity. SARS-CoV-2 infection induces humoral and T…”
Get full text

Protective HLA Class I Alleles That Restrict Acute-Phase CD8+ T-Cell Responses Are Associated with Viral Escape Mutations Located in Highly Conserved Regions of Human Immunodeficiency Virus Type 1 by WANG, Yaoyu E, BIN LI, ALTER, Galit, BRANDER, Christian, CARRINGTON, Mary, WALKER, Bruce D, ALTFELD, Marcus, HECKERMAN, David, ALLEN, Todd M, CARLSON, Jonathan M, STREECK, Hendrik, GLADDEN, Adrianne D, GOODMAN, Robert, SCHNEIDEWIND, Arne, POWER, Karen A, TOTH, Ildiko, FRAHM, Nicole

“…Article Usage Stats Services JVI Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+ Mendeley…”
Get full text