Variants of HCMV UL18 Sequenced Directly from Clinical Specimens Associate with Antibody and T-Cell Responses to HCMV

por Waters, Shelley, Lee, Silvia, Ariyanto, Ibnu, Leary, Shay, Munyard, Kylie, Gaudieri, Silvana, Irish, Ashley, Allcock, Richard J. N., Price, Patricia
Publicado 2022

Sequencing of the Viral UL111a Gene Directly from Clinical Specimens Reveals Variants of HCMV-Encoded IL-10 That Are Associated with Altered Immune Responses to HCMV

por Waters, Shelley, Lee, Silvia, Ariyanto, Ibnu, Kresoje, Nina, Leary, Shay, Munyard, Kylie, Gaudieri, Silvana, Irish, Ashley, Keil, Anthony D., Allcock, Richard J. N., Price, Patricia
Publicado 2022

Identifying Patient-Specific Epstein-Barr Nuclear Antigen-1 Genetic Variation and Potential Autoreactive Targets Relevant to Multiple Sclerosis Pathogenesis

por Tschochner, Monika, Leary, Shay, Cooper, Don, Strautins, Kaija, Chopra, Abha, Clark, Hayley, Choo, Linda, Dunn, David, James, Ian, Carroll, William M., Kermode, Allan G., Nolan, David
Publicado 2016

Visual Genomics Analysis Studio as a Tool to Analyze Multiomic Data

por Hertzman, Rebecca J., Deshpande, Pooja, Leary, Shay, Li, Yueran, Ram, Ramesh, Chopra, Abha, Cooper, Don, Watson, Mark, Palubinsky, Amy M., Mallal, Simon, Gibson, Andrew, Phillips, Elizabeth J.
Publicado 2021

Sequencing Directly from Clinical Specimens Reveals Genetic Variations in HCMV-Encoded Chemokine Receptor US28 That May Influence Antibody Levels and Interactions with Human Chemok...

por Waters, Shelley, Agostino, Mark, Lee, Silvia, Ariyanto, Ibnu, Kresoje, Nina, Leary, Shay, Munyard, Kylie, Gaudieri, Silvana, Gaff, Jessica, Irish, Ashley, Keil, Anthony D., Price, Patricia, Allcock, Richard J. N.
Publicado 2021

HIV integration sites in latently infected cell lines: evidence of ongoing replication

por Symons, Jori, Chopra, Abha, Malantinkova, Eva, De Spiegelaere, Ward, Leary, Shay, Cooper, Don, Abana, Chike O., Rhodes, Ajantha, Rezaei, Simin D., Vandekerckhove, Linos, Mallal, Simon, Lewin, Sharon R., Cameron, Paul U.
Publicado 2017

Erratum to: HIV integration sites in latently infected cell lines: evidence of ongoing replication

por Symons, Jori, Chopra, Abha, Malatinkova, Eva, De Spiegelaere, Ward, Leary, Shay, Cooper, Don, Abana, Chike O., Rhodes, Ajantha, Rezaei, Simin D., Vandekerckhove, Linos, Mallal, Simon, Lewin, Sharon R., Cameron, Paul U.
Publicado 2017

Pan-genomic analyses identify key Helicobacter pylori pathogenic loci modified by carcinogenic host microenvironments

por Noto, Jennifer M, Chopra, Abha, Loh, John T, Romero-Gallo, Judith, Piazuelo, M Blanca, Watson, Mark, Leary, Shay, Beckett, Amber C, Wilson, Keith T, Cover, Timothy L, Mallal, Simon, Israel, Dawn A, Peek, Richard M
Publicado 2018

Identification of a CD8+ T-cell response to a predicted neoantigen in malignant mesothelioma

por Sneddon, Sophie, Rive, Craig M., Ma, Shaokang, Dick, Ian M., Allcock, Richard J. N., Brown, Scott D., Holt, Robert A., Watson, Mark, Leary, Shay, Lee, Y. C. Gary, Robinson, Bruce W. S., Creaney, Jenette
Publicado 2019

Adaptation to HLA-associated immune pressure over the course of HIV infection and in circulating HIV-1 strains

por Alves, Eric, Al-Kaabi, Marwah, Keane, Niamh M., Leary, Shay, Almeida, Coral-Ann M., Deshpande, Pooja, Currenti, Jennifer, Chopra, Abha, Smith, Rita, Castley, Alison, Mallal, Simon, Kalams, Spyros A., Gaudieri, Silvana, John, Mina
Publicado 2022

Abacavir inhibits but does not cause self-reactivity to HLA-B*57:01-restricted EBV specific T cell receptors

por Sooda, Anuradha, Rwandamuriye, Francois, Wanjalla, Celestine N., Jing, Lichen, Koelle, David M., Peters, Bjoern, Leary, Shay, Chopra, Abha, Calderwood, Michael A., Mallal, Simon A., Pavlos, Rebecca, Watson, Mark, Phillips, Elizabeth J., Redwood, Alec J.
Publicado 2022

Tracking of activated cTfh cells following sequential influenza vaccinations reveals transcriptional profile of clonotypes driving a vaccine-induced immune response

por Currenti, Jennifer, Simmons, Joshua, Oakes, Jared, Gaudieri, Silvana, Warren, Christian M., Gangula, Rama, Alves, Eric, Ram, Ramesh, Leary, Shay, Armitage, Jesse D., Smith, Rita M., Chopra, Abha, Halasa, Natasha B., Pilkinton, Mark A., Kalams, Spyros A.
Publicado 2023

Strong spontaneous tumor neoantigen responses induced by a natural human carcinogen

por Creaney, Jenette, Ma, Shaokang, Sneddon, Sophie A, Tourigny, Michelle R, Dick, Ian M, Leon, Justine S, Khong, Andrea, Fisher, Scott A, Lake, Richard A, Lesterhuis, W Joost, Nowak, Anna K, Leary, Shay, Watson, Mark W, Robinson, Bruce W
Publicado 2015

Deep sequence analysis of HIV adaptation following vertical transmission reveals the impact of immune pressure on the evolution of HIV

por Currenti, Jennifer, Chopra, Abha, John, Mina, Leary, Shay, McKinnon, Elizabeth, Alves, Eric, Pilkinton, Mark, Smith, Rita, Barnett, Louise, McDonnell, Wyatt J., Lucas, Michaela, Noel, Francine, Mallal, Simon, Conrad, Joseph A., Kalams, Spyros A., Gaudieri, Silvana
Publicado 2019

Helicobacter pylori genetic diversification in the Mongolian gerbil model

por Beckett, Amber C., Loh, John T., Chopra, Abha, Leary, Shay, Lin, Aung Soe, McDonnell, Wyatt J., Dixon, Beverly R.E.A., Noto, Jennifer M., Israel, Dawn A., Peek Jr, Richard M., Mallal, Simon, Algood, Holly M. Scott, Cover, Timothy L.
Publicado 2018

Cross-Reactivity to Mutated Viral Immune Targets Can Influence CD8(+) T Cell Functionality: An Alternative Viral Adaptation Strategy

por Currenti, Jennifer, Law, Becker M.P., Qin, Kai, John, Mina, Pilkinton, Mark A., Bansal, Anju, Leary, Shay, Ram, Ramesh, Chopra, Abha, Gangula, Rama, Yue, Ling, Warren, Christian, Barnett, Louise, Alves, Eric, McDonnell, Wyatt J., Sooda, Anuradha, Heath, Sonya L., Mallal, Simon, Goepfert, Paul, Kalams, Spyros A., Gaudieri, Silvana
Publicado 2021

Generation of a Novel SARS-CoV-2 Sub-genomic RNA Due to the R203K/G204R Variant in Nucleocapsid: Homologous Recombination has Potential to Change SARS-CoV-2 at Both Protein and RNA...

por Leary, Shay, Gaudieri, Silvana, Parker, Matthew D., Chopra, Abha, James, Ian, Pakala, Suman, Alves, Eric, John, Mina, Lindsey, Benjamin B., Keeley, Alexander J., Rowland-Jones, Sarah L., Swanson, Maurice S., Ostrov, David A., Bubenik, Jodi L., Das, Suman R., Sidney, John, Sette, Alessandro, de Silva, Thushan I., Phillips, Elizabeth, Mallal, Simon
Publicado 2021

Single-cell analysis shows that adipose tissue of persons with both HIV and diabetes is enriched for clonal, cytotoxic, and CMV-specific CD4+ T cells

por Wanjalla, Celestine N., McDonnell, Wyatt J., Ram, Ramesh, Chopra, Abha, Gangula, Rama, Leary, Shay, Mashayekhi, Mona, Simmons, Joshua D., Warren, Christian M., Bailin, Samuel, Gabriel, Curtis L., Guo, Liang, Furch, Briana D., Lima, Morgan C., Woodward, Beverly O., Hannah, LaToya, Pilkinton, Mark A., Fuller, Daniela T., Kawai, Kenji, Virmani, Renu, Finn, Aloke V., Hasty, Alyssa H., Mallal, Simon A., Kalams, Spyros A., Koethe, John R.
Publicado 2021

Subgenomic RNA identification in SARS-CoV-2 genomic sequencing data

por Parker, Matthew D., Lindsey, Benjamin B., Leary, Shay, Gaudieri, Silvana, Chopra, Abha, Wyles, Matthew, Angyal, Adrienn, Green, Luke R., Parsons, Paul, Tucker, Rachel M., Brown, Rebecca, Groves, Danielle, Johnson, Katie, Carrilero, Laura, Heffer, Joe, Partridge, David G., Evans, Cariad, Raza, Mohammad, Keeley, Alexander J., Smith, Nikki, Filipe, Ana Da Silva, Shepherd, James G., Davis, Chris, Bennett, Sahan, Sreenu, Vattipally B., Kohl, Alain, Aranday-Cortes, Elihu, Tong, Lily, Nichols, Jenna, Thomson, Emma C., Wang, Dennis, Mallal, Simon, de Silva, Thushan I.
Publicado 2021

Altered subgenomic RNA abundance provides unique insight into SARS-CoV-2 B.1.1.7/Alpha variant infections

por Parker, Matthew D., Stewart, Hazel, Shehata, Ola M., Lindsey, Benjamin B., Shah, Dhruv R., Hsu, Sharon, Keeley, Alexander J., Partridge, David G., Leary, Shay, Cope, Alison, State, Amy, Johnson, Katie, Ali, Nasar, Raghei, Rasha, Heffer, Joe, Smith, Nikki, Zhang, Peijun, Gallis, Marta, Louka, Stavroula F., Hornsby, Hailey R., Alamri, Hatoon, Whiteley, Max, Foulkes, Benjamin H., Christou, Stella, Wolverson, Paige, Pohare, Manoj, Hansford, Samantha E., Green, Luke R., Evans, Cariad, Raza, Mohammad, Wang, Dennis, Firth, Andrew E., Edgar, James R., Gaudieri, Silvana, Mallal, Simon, Collins, Mark O., Peden, Andrew A., de Silva, Thushan I.
Publicado 2022