Research Output 1990 2017

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2017

Extra-epitopic hepatitis C virus polymorphisms confer resistance to broadly neutralizing antibodies by modulating binding to scavenger receptor B1

El-Diwany, R., Cohen, V. J., Mankowski, M. C., Wasilewski, L. N., Brady, J. K., Snider, A. E., Osburn, W. O., Murrell, B., Ray, S. C. & Bailey, J. R. Feb 1 2017 In : PLoS Pathogens. 13, 2, e1006235

Research output: Contribution to journalArticle

Scavenger Receptors
Neutralizing Antibodies
Hepacivirus
Epitopes
Monoclonal Antibodies

Intracellular HIV-1 rna and CD4+ t cell activation in patients starting antiretrovirals

El-Diwany, R., Breitwieser, F. P., Soliman, M., Skaist, A. M., Srikrishna, G., Blankson, J. N., Ray, S. C., Wheelan, S. J., Thomas, D. L. & Balagopal, A. Mar 29 2017 In : AIDS.

Research output: Contribution to journalArticle

HIV-1
T-Lymphocytes
RNA
Gene Expression
HLA-DR Antigens
2016

A hepatitis C virus envelope polymorphism confers resistance to neutralization by polyclonal sera and broadly neutralizing monoclonal antibodies

Wasilewski, L. N., El-Diwany, R., Munshaw, S., Snider, A. E., Brady, J. K., Osburn, W. O., Ray, S. C. & Bailey, J. R. 2016 In : Journal of Virology. 90, 7, p. 3773-3782 10 p.

Research output: Contribution to journalArticle

Neutralizing Antibodies
Hepacivirus
Monoclonal Antibodies
Serum
Hepatitis C virus

Hepatitis C virus resistance to broadly neutralizing antibodies measured using replication-competent virus and pseudoparticles

Wasilewski, L. N., Ray, S. C. & Bailey, J. R. Nov 1 2016 In : Journal of General Virology. 97, 11, p. 2883-2893 11 p., 000608

Research output: Contribution to journalArticle

Virus Replication
Neutralizing Antibodies
Hepacivirus
Proteins
Epitopes
2015
MicroRNAs
Hepacivirus
Hepatocytes
Infection
microRNA
Neutralizing Antibodies
Coinfection
Hepacivirus
Antibody Formation
HIV

Genome sequencing and analysis of geographically diverse clinical isolates of herpes simplex virus 2

Newman, R. M., Lamers, S. L., Weiner, B., Ray, S. C., Colgrove, R. C., Diaz, F., Jing, L., Wang, K., Saif, S., Young, S., Henn, M., Laeyendecker, O., Tobian, A. A. R., Cohen, J. I., Koelle, D. M., Quinn, T. C. & Knipe, D. M. 2015 In : Journal of Virology. 89, 16, p. 8219-8232 14 p.

Research output: Contribution to journalArticle

Human Herpesvirus 2
Genome
Human herpesvirus 2
genome
Human herpesvirus 1

Global diversity within and between human herpesvirus 1 and 2 glycoproteins

Lamers, S. L., Newman, R. M., Laeyendecker, O., Tobian, A. A. R., Colgrove, R. C., Ray, S. C., Koelle, D. M., Cohen, J., Knipe, D. M. & Quinn, T. C. 2015 In : Journal of Virology. 89, 16, p. 8206-8218 13 p.

Research output: Contribution to journalArticle

Human Herpesvirus 2
Human herpesvirus 1
Glycoproteins
glycoproteins
viruses

Interferon-free treatment of chronic hepatitis C with faldaprevir, deleobuvir and ribavirin: SOUND-C3, a Phase 2b study

Zeuzem, S., Dufour, J. F., Buti, M., Soriano, V., Buynak, R. J., Mantry, P., Taunk, J., Stern, J. O., Vinisko, R., Gallivan, J. P., Böcher, W., Mensa, F. J., Cobert, B., Gonzalwz-Peralta, R., Ray, S. C. & Talal, A. Feb 1 2015 In : Liver International. 35, 2, p. 417-421 5 p.

Research output: Contribution to journalArticle

Ribavirin
Chronic Hepatitis C
Interferons
Genotype
Fibrosis

Naturally selected hepatitis C virus polymorphisms confer broad neutralizing antibody resistance

Bailey, J. R., Wasilewski, L. N., Snider, A. E., El-Diwany, R., Osburn, W. O., Keck, Z., Foung, S. K. H. & Ray, S. C. Jan 2 2015 In : Journal of Clinical Investigation. 125, 1, p. 437-447 11 p.

Research output: Contribution to journalArticle

Neutralizing Antibodies
Hepacivirus
Cluster Analysis
Sequence Analysis
Vaccines
2014

Accelerating drug development through collaboration: The Hepatitis C drug development advisory group

Hutchison, C., Kwong, A., Ray, S., Struble, K., Swan, T. & Miller, V. 2014 In : Clinical Pharmacology and Therapeutics. 96, 2, p. 162-165 4 p.

Research output: Contribution to journalArticle

Hepatitis C
Hepacivirus
Patient Advocacy
Foster Home Care
HIV-1
Hepacivirus
Interferons
HIV
RNA
Genes

Clearance of hepatitis C infection is associated with the early appearance of broad neutralizing antibody responses

Osburn, W. O., Snider, A. E., Wells, B. L., Latanich, R., Bailey, J. R., Thomas, D. L., Cox, A. L. & Ray, S. C. 2014 In : Hepatology. 59, 6, p. 2140-2151 12 p.

Research output: Contribution to journalArticle

Hepatitis C
Neutralizing Antibodies
Antibody Formation
Infection
Genotype
Hepatitis C virus
Virus
Hepacivirus
Hepatocytes
hepatitis

The Role of Viral Introductions in Sustaining Community-Based HIV Epidemics in Rural Uganda: Evidence from Spatial Clustering, Phylogenetics, and Egocentric Transmission Models

Grabowski, M. K. , Lessler, J. , Redd, A. D. , Kagaayi, J. , Laeyendecker, O. , Ndyanabo, A. , Nelson, M. I. , Cummings, D. A. T. , Bwanika, J. B. , Mueller, A. C. , Reynolds, S. J. , Munshaw, S. , Ray, S. C. , Lutalo, T. , Manucci, J. , Tobian, A. A. R. , Chang, L. W. , Beyrer, C. , Jennings, J. M. , Nalugoda, F. & 4 others Serwadda, D., Wawer, M. J., Quinn, T. C. & Gray, R. H. 2014 In : PLoS Medicine. 11, 3, e1001610

Research output: Contribution to journalArticle

Uganda
Cluster Analysis
HIV
Community Networks
Africa South of the Sahara
2013

Use of laser capture microdissection to map hepatitis C virus-positive hepatocytes in human liver

Kandathil, A. J., Graw, F., Quinn, J., Hwang, H. S., Torbenson, M., Perelson, A. S., Ray, S. C., Thomas, D. L., Ribeiro, R. M. & Balagopal, A. Dec 2013 In : Gastroenterology. 145, 6

Research output: Contribution to journalArticle

Laser Capture Microdissection
Hepacivirus
Hepatocytes
Liver
Viral RNA
2012

Computational reconstruction of bole1a, a representative synthetic hepatitis C virus subtype 1a genome

Munshaw, S., Bailey, J. R., Liu, L., Osburn, W. O., Burke, K. P., Cox, A. L. & Ray, S. C. May 2012 In : Journal of Virology. 86, 10, p. 5915-5921 7 p.

Research output: Contribution to journalArticle

Hepacivirus
Genome
Hepatitis C virus
Genes
genome

Constraints on viral evolution during chronic hepatitis C virus infection arising from a common-source exposure

Bailey, J. R., Laskey, S., Wasilewski, L. N., Munshaw, S., Fanning, L. J., Kenny-Walsh, E. & Ray, S. C. Dec 2012 In : Journal of Virology. 86, 23, p. 12582-12590 9 p.

Research output: Contribution to journalArticle

Chronic Hepatitis C
Hepacivirus
Infection
infection
Hepatitis C virus

Hepatitis C virus epitope exposure and neutralization by antibodies is affected by time and temperature

Sabo, M. C., Luca, V. C., Ray, S. C., Bukh, J., Fremont, D. H. & Diamond, M. S. Jan 20 2012 In : Virology. 422, 2, p. 174-184 11 p.

Research output: Contribution to journalArticle

Hepacivirus
Epitopes
Temperature
Antibodies
Virion

Immunogenicity and cross-reactivity of a representative ancestral sequence in hepatitis C virus infection

Burke, K. P., Munshaw, S., Osburn, W. O., Levine, J., Liu, L., Sidney, J., Sette, A., Ray, S. C. & Cox, A. L. May 15 2012 In : Journal of Immunology. 188, 10, p. 5177-5188 12 p.

Research output: Contribution to journalArticle

Hepacivirus
T-Lymphocytes
Infection
Vaccines
Consensus Sequence

Laser captured hepatocytes show association of butyrylcholinesterase gene loss and fibrosis progression in hepatitis C-infected drug users

Munshaw, S., Hwang, H. S., Torbenson, M., Quinn, J., Hansen, K. D., Astemborski, J., Mehta, S. H., Ray, S. C., Thomas, D. L. & Balagopal, A. Aug 2012 In : Hepatology. 56, 2, p. 544-554 11 p.

Research output: Contribution to journalArticle

Butyrylcholinesterase
Hepatitis C
Drug Users
Hepacivirus
Hepatocytes

Spontaneous clearance of primary acute hepatitis C virus infection correlated with high initial viral RNA level and rapid HVR1 evolution

Liu, L., Fisher, B. E., Thomas, D. L., Cox, A. L. & Ray, S. C. Jun 2012 In : Hepatology. 55, 6, p. 1684-1691 8 p.

Research output: Contribution to journalArticle

Viral RNA
Hepacivirus
Infection
Viremia
Genes
2011

Analysis of genetic linkage of HIV from couples enrolled in the HIV prevention trials network 052 trial

Eshleman, S. H. , Hudelson, S. E. , Redd, A. D. , Wang, L. , Debes, R. , Chen, Y. Q. , Martens, C. A. , Ricklefs, S. M. , Selig, E. J. , Porcella, S. F. , Munshaw, S. , Ray, S. C. , Piwowar-Manning, E. , McCauley, M. , Hosseinipour, M. C. , Kumwenda, J. , Hakim, J. G. , Chariyalertsak, S. , De Bruyn, G. , Grinsztejn, B. & 8 others Kumarasamy, N., Makhema, J., Mayer, K. H., Pilotto, J., Santos, B. R., Quinn, T. C., Cohen, M. S. & Hughes, J. P. Dec 15 2011 In : Journal of Infectious Diseases. 204, 12, p. 1918-1926 9 p.

Research output: Contribution to journalArticle

Genetic Linkage
HIV
Bayes Theorem
Sexual Partners
Secondary Prevention

Molecular epidemiology of HIV type 1 in Singapore and identification of novel CRF01-AE/B recombinant forms

Ng, O. T., Munshaw, S., Lamers, S. L., Chew, K. K., Lin, L., Redd, A. D., Manucci, J., Quinn, T. C., Ray, S. C., Chua, A., Leo, Y. S. & Laeyendecker, O. Oct 1 2011 In : AIDS Research and Human Retroviruses. 27, 10, p. 1135-1137 3 p.

Research output: Contribution to journalArticle

Molecular Epidemiology
Singapore
HIV-1
Peptide Hydrolases
Bisexuality

The transhepatic endotoxin gradient is present despite liver cirrhosis and is attenuated after transjugular portosystemic shunt (TIPS)

Benten, D., Wiesch, J. S. Z., Sydow, K., Koops, A., Buggisch, P., Böger, R. H., Gaydos, C. A., Won, H., Franco, V., Lohse, A. W., Ray, S. C. & Balagopal, A. Oct 6 2011 In : BMC Gastroenterology. 11, 107

Research output: Contribution to journalArticle

Surgical Portasystemic Shunt
Endotoxins
Liver Cirrhosis
Lipopolysaccharides
Liver
2010

Acceleration of hepatitis C virus envelope evolution in humans is consistent with progressive humoral immune selection during the transition from acute to chronic infection

Liu, L., Fisher, B. E., Dowd, K. A., Astemborski, J., Cox, A. L. & Ray, S. C. May 2010 In : Journal of Virology. 84, 10, p. 5067-5077 11 p.

Research output: Contribution to journalArticle

Hepacivirus
Infection
Hepatitis C virus
infection
Neutralizing Antibodies

Analysis of HIV diversity using a high-resolution melting assay

Towler, W. I., James, M. M., Ray, S. C., Wang, L., Donnell, D., Mwatha, A., Guay, L., Nakabiito, C., Musoke, P., Jackson, J. B. & Eshleman, S. Aug 1 2010 In : AIDS Research and Human Retroviruses. 26, 8, p. 913-918 6 p.

Research output: Contribution to journalArticle

Freezing
HIV
Clone Cells
DNA
Nucleic Acid Denaturation

Control of HIV-1 in elite suppressors despite ongoing replication and evolution in plasma virus

O'Connell, K. A., Brennan, T. P., Bailey, J. R., Ray, S. C., Siliciano, R. F. & Blankson, J. N. Jul 2010 In : Journal of Virology. 84, 14, p. 7018-7028 11 p.

Research output: Contribution to journalArticle

Cytotoxic T-Lymphocytes
HIV-1
Viruses
Viremia
Clone Cells

Epidemiology of hepatitis C virus infection & liver disease among injection drug users (IDUS) in Chennai, India

Mehta, S. H., Vogt, S. L., Srikrishnan, A. K., Vasudevan, C. K., Murugavel, K. G., Saravanan, S., Anand, S., Suresh Kumar, M., Ray, S. C., Celentano, D. D., Solomon, S. & Solomon, S. S. Dec 2010 In : Indian Journal of Medical Research. 132, 12, p. 706-714 9 p.

Research output: Contribution to journalArticle

Drug Users
Hepacivirus
Liver Diseases
Epidemiology
HIV

Evolution of the HIV-1 nef gene in HLA-B*57 Positive Elite Suppressors

Salgado, M., Brennan, T. P., O'Connell, K. A., Bailey, J. R., Ray, S. C., Siliciano, R. F. & Blankson, J. N. Nov 8 2010 In : Retrovirology. 7, 94

Research output: Contribution to journalArticle

nef Genes
gag Genes
HLA-B Antigens
HIV-1
Mutation
Genetic Linkage
Hepatitis B virus
Leukocytes

Hepatitis C virus infection of neuroepithelioma cell lines

Fletcher, N. F., Yang, J. P., Farquhar, M. J., Hu, K., Davis, C., He, Q., Dowd, K., Ray, S. C., Krieger, S. E., Neyts, J., Baumert, T. F., Balfe, P., McKeating, J. A. & Wongstaal, F. Oct 2010 In : Gastroenterology. 139, 4

Research output: Contribution to journalArticle

Peripheral Primitive Neuroectodermal Tumors
Hepacivirus
Cell Line
Infection
Claudin-1

Spontaneous Control of Primary Hepatitis C Virus Infection and Immunity Against Persistent Reinfection

Osburn, W. O., Fisher, B. E., Dowd, K. A., Urban, G., Liu, L., Ray, S. C., Thomas, D. L. & Cox, A. L. Jan 2010 In : Gastroenterology. 138, 1, p. 315-324 10 p.

Research output: Contribution to journalArticle

Hepacivirus
Immunity
Infection
Viremia
Drug Users
2009

High diversity of hepatitis C viral quasispecies is associated with early virological response in patients undergoing antiviral therapy

Fan, X., Mao, Q., Zhou, D., Lu, Y., Xing, J., Xu, Y., Ray, S. C. & Di Bisceglie, A. M. 2009 In : Hepatology. 50, 6, p. 1765-1772 8 p.

Research output: Contribution to journalArticle

Hepatitis C
Hepacivirus
Antiviral Agents
Genetic Heterogeneity
Ribavirin

HIV-1 evolution following transmission to an HLA-B*5801-positive patient

O'Connell, K. A., Xu, J., Durbin, A. P., Apuzzo, L. G., Imteyaz, H., Williams, T. M., Ray, S. C., Margolick, J. B., Siliciano, R. F. & Blankson, J. N. Dec 2009 In : Journal of Infectious Diseases. 200, 12, p. 1820-1824 5 p.

Research output: Contribution to journalArticle

HLA-B Antigens
HIV-1
Mutation
Epitopes
Infection

Identification of nevirapine-resistant HIV-1 in the latent reservoir after single-dose nevirapine to prevent mother-to-child transmission of HIV-1

Wind-Rotolo, M., Durand, C., Cranmer, L., Reid, A., Martinson, N., Doherty, M., Jilek, B. L., Kagaayi, J., Kizza, A., Pillay, V., Laeyendecker, O., Reynolds, S. J., Eshleman, S. H., Lau, B., Ray, S. C., Siliciano, J. D., Quinn, T. C. & Siliciano, R. F. May 1 2009 In : Journal of Infectious Diseases. 199, 9, p. 1301-1309 9 p.

Research output: Contribution to journalArticle

Nevirapine
HIV-1
Viruses
T-Lymphocytes
Proviruses

Identification of ongoing human immunodeficiency virus type 1 (HIV-1) replication in residual viremia during recombinant HIV-1 poxvirus immunizations in patients with clinically undetectable viral loads on durable suppressive highly active antiretroviral therapy

Shiu, C., Cunningham, C. K., Greenough, T., Muresan, P., Sanchez-Merino, V., Carey, V., Jackson, J. B., Ziemniak, C., Fox, L., Belzer, M., Ray, S. C., Luzuriaga, K. & Persaud, D. Oct 2009 In : Journal of Virology. 83, 19, p. 9731-9742 12 p.

Research output: Contribution to journalArticle

Poxviridae
Viremia
Highly Active Antiretroviral Therapy
Viral Load
HIV-1

Kupffer cells are depleted with HIV immunodeficiency and partially recovered with antiretroviral immune reconstitution

Balagopal, A., Ray, S. C., De Oca, R. M., Sutcliffe, C. G., Vivekanandan, P., Higgins, Y., Mehta, S. H., Moore, R. D., Sulkowski, M. S., Thomas, D. L. & Torbenson, M. S. Nov 2009 In : AIDS. 23, 18, p. 2397-2404 8 p.

Research output: Contribution to journalArticle

Kupffer Cells
HIV
Cell Count
Liver
CD4 Lymphocyte Count

Selection Pressure From Neutralizing Antibodies Drives Sequence Evolution During Acute Infection With Hepatitis C Virus

Dowd, K. A., Netski, D. M., Wang, X. H., Cox, A. L. & Ray, S. C. Jun 2009 In : Gastroenterology. 136, 7, p. 2377-2386 10 p.

Research output: Contribution to journalArticle

Neutralizing Antibodies
Hepacivirus
Infection
Amino Acid Substitution
Humoral Immunity
2008

Acute hepatitis C

Maheshwari, A., Ray, S. & Thuluvath, P. J. 2008 In : The Lancet. 372, 9635, p. 321-332 12 p.

Research output: Contribution to journalArticle

Hepatitis C
Hepacivirus
Antiviral Agents
RNA
Infection

Analyses of HIV-1 drug-resistance profiles among infected adolescents experiencing delayed antiretroviral treatment switch after initial nonsuppressive highly active antiretroviral therapy

Agwu, A., Lindsey, J. C., Ferguson, K., Zhang, H., Spector, S., Rudy, B. J., Ray, S. C., Douglas, S. D., Flynn, P. M. & Persaud, D. Jul 1 2008 In : AIDS Patient Care and STDs. 22, 7, p. 545-552 8 p.

Research output: Contribution to journalArticle

Highly Active Antiretroviral Therapy
Drug Resistance
HIV-1
Reverse Transcriptase Inhibitors
Protease Inhibitors
HLA Antigens
Viral Load
HIV-1
T-Lymphocytes

Comprehensive genetic and epigenetic analysis of occult hepatitis B from liver tissue samples

Vivekanandan, P., Kannangai, R., Ray, S. C., Thomas, D. L. & Torbenson, M. Apr 15 2008 In : Clinical Infectious Diseases. 46, 8, p. 1227-1236 10 p.

Research output: Contribution to journalArticle

Hepatitis B
Hepatitis B virus
Epigenomics
Liver
Infection

Genetic divergence of hepatitis C virus: The role of HIV-related immunosuppression

Netski, D. M., Mao, Q., Ray, S. C. & Klein, R. S. Oct 2008 In : Journal of Acquired Immune Deficiency Syndromes. 49, 2, p. 136-141 6 p.

Research output: Contribution to journalArticle

Hepacivirus
Immunosuppression
HIV
Nucleotides
Infection

Hepatitis C virus immune escape via exploitation of a hole in the T cell repertoire

Wölfl, M., Rutebemberwa, A., Mosbruger, T., Mao, Q., Li, H. M., Netski, D., Ray, S. C., Pardoll, D., Sidney, J., Sette, A., Allen, T., Kuntzen, T., Kavanagh, D. G., Kuball, J., Greenberg, P. D. & Cox, A. L. Nov 1 2008 In : Journal of Immunology. 181, 9, p. 6435-6446 12 p.

Research output: Contribution to journalArticle

Hepacivirus
T-Lymphocytes
Infection
Epitopes
T-Lymphocyte Epitopes

High-programmed death-1 levels on hepatitis C virus-specific T cells during acute infection are associated with viral persistence and require preservation of cognate antigen during chronic infection

Rutebemberwa, A., Ray, S. C., Astemborski, J., Levine, J., Liu, L., Dowd, K. A., Clute, S., Wang, C., Korman, A., Sette, A., Sidney, J., Pardoll, D. M. & Cox, A. L. Dec 15 2008 In : Journal of Immunology. 181, 12, p. 8215-8225 11 p.

Research output: Contribution to journalArticle

Hepacivirus
T-Lymphocytes
Antigens
Infection
Epitopes

Human Immunodeficiency Virus-Related Microbial Translocation and Progression of Hepatitis C

Balagopal, A., Philp, F. H., Astemborski, J., Block, T. M., Mehta, A., Long, R., Kirk, G. D., Mehta, S. H., Cox, A. L., Thomas, D. L. & Ray, S. C. Jul 2008 In : Gastroenterology. 135, 1, p. 226-233 8 p.

Research output: Contribution to journalArticle

Hepatitis C
HIV
Lipopolysaccharides
Liver Diseases
Hepacivirus

Maternal neutralizing antibody and transmission of hepatitis C virus to infants

Dowd, K. A., Hershow, R. C., Yawetz, S., LaRussa, P., Diaz, C., Landesman, S. H., Paul, M. E., Read, J. S., Lu, M., Thomas, D. L., Netski, D. M. & Ray, S. C. Dec 1 2008 In : Journal of Infectious Diseases. 198, 11, p. 1651-1655 5 p.

Research output: Contribution to journalArticle

Neutralizing Antibodies
Hepacivirus
Pyridinolcarbamate
Hepatitis C Antibodies
Coinfection

Severe pruritus after completing pegylated interferon for hepatitis C

Hoffmann, C. J. & Ray, S. C. Jul 1 2008 In : AIDS Reader. 18, 11

Research output: Contribution to journalArticle

Pruritus
Hepatitis C
Interferons

Transmission of human immunodeficiency virus type 1 from a patient who developed AIDS to an elite suppressor

Bailey, J. R., O'Connell, K., Yang, H. C., Han, Y., Xu, J., Jilek, B., Williams, T. M., Ray, S. C., Siliciano, R. F. & Blankson, J. N. Aug 2008 In : Journal of Virology. 82, 15, p. 7395-7410 16 p.

Research output: Contribution to journalArticle

HIV-1
T-Lymphocytes
HIV long-term survivors
Human immunodeficiency virus 1
T-lymphocytes