Research Output 1990 2018

2018

Complex patterns of Hepatitis-C virus longitudinal clustering in a high-risk population

Rose, R., Lamers, S. L., Massaccesi, G., Osburn, W., Ray, S. C., Thomas, D. L., Cox, A. L. & Laeyendecker, O. Mar 1 2018 In : Infection, Genetics and Evolution. 58, p. 77-82 6 p.

Research output: Contribution to journalArticle

hepatitis
Hepatitis C virus
Hepacivirus
Cluster Analysis
virus

Expanded cellular clones carrying replication-competent HIV-1 persist, wax, and wane

Wang, Z., Gurule, E. E., Brennan, T. P., Gerold, J. M., Kwon, K. J., Hosmane, N. N., Kumar, M. R., Beg, S. A., Capoferri, A. A., Ray, S. C., Ho, Y. C., Hill, A. L., Siliciano, J. D. & Siliciano, R. F. Jan 1 2018 In : Proceedings of the National Academy of Sciences of the United States of America. 115, 11, p. E2575-E2584

Research output: Contribution to journalArticle

Waxes
HIV-1
Clone Cells
Proviruses
Cell Proliferation

Synergistic anti-HCV broadly neutralizing human monoclonal antibodies with independent mechanisms

Mankowski, M. C., Kinchen, V. J., Wasilewski, L. N., Flyak, A. I., Ray, S. C., Crowe, J. E. & Bailey, J. R. Jan 2 2018 In : Proceedings of the National Academy of Sciences of the United States of America. 115, 1, p. E82-E91

Research output: Contribution to journalArticle

Neutralizing Antibodies
Hepacivirus
Monoclonal Antibodies
Vaccines
Genotype
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 (Accepted/In press) In : AIDS.

Research output: Contribution to journalArticle

HIV-1
RNA
T-Lymphocytes
Therapeutics
Gene Expression

It's 10 pm; do you know where your data are? Data provenance, curation, and storage

Anderson, M. E. & Ray, S. C. May 12 2017 In : Circulation Research. 120, 10, p. 1551-1554 4 p.

Research output: Contribution to journalComment/debate

New therapies for treating hepatitis C virus: Impact on laboratory testing recommendations and clinical management

Tolan, N. V., Horowitz, G. L., Graham, C. S., Hillyard, D., Osburn, W. & Ray, S. Dec 1 2017 In : Clinical Chemistry. 63, 12, p. 1799-1805 7 p.

Research output: Contribution to journalComment/debate

Hepacivirus
Therapeutics
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

Hepatitis C virus
Neutralizing Antibodies
neutralizing antibodies
neutralization
Hepacivirus

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
Hepatitis C virus
Virus Diseases
MicroRNAs
microRNA
Hepacivirus
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
Human Herpesvirus 2
Genome
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
Human Herpesvirus 2
Human Herpesvirus 1
glycoproteins

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
Therapeutics

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
Pharmaceutical Preparations
Patient Advocacy
Foster Home Care
Hepacivirus
Interferons
HIV
Therapeutics
RNA

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
Genotype
Virus Diseases

Hepatitis C

Ray, S. C. & Thomas, D. L. Aug 28 2014 Mandell, Douglas, and Bennett's Principles and Practice of Infectious Diseases. Elsevier Inc., Vol. 2, p. 1904-1927.e9

Research output: Chapter in Book/Report/Conference proceedingChapter

Hepatitis C
Hepatocellular Carcinoma
Fibrosis
hepatitis
Hepatitis C virus
Viruses
Spatial Distribution
Hepacivirus

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

Hepatitis C virus

Ray, S. C., Bailey, J. R. & Thomas, D. L. May 21 2013 Fields Virology: Sixth Edition. Wolters Kluwer Health Adis (ESP), Vol. 1

Research output: Chapter in Book/Report/Conference proceedingChapter

Hepacivirus

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

Hepatitis C virus
Hepacivirus
Genome
genome
epitopes

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
Hepatitis C virus
Chronic Hepatitis C
Virus Diseases
Hepacivirus

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

Virus Diseases
Hepacivirus
T-Lymphocytes
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
Virus Diseases
Hepacivirus
Viremia
Alleles
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
Virus Diseases

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
Genome

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

Hepatitis C virus
Hepacivirus
Neutralizing Antibodies
neutralizing antibodies
Infection

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
Mothers
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
Human immunodeficiency virus 1
HIV-1
Viremia
cytotoxic T-lymphocytes

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

Epidemiology
Hepatitis C Antibodies
Virus Diseases
Drug Users
Viruses

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
HIV-1
Viral Load
Epitopes
Genetic Linkage
Hepatitis B
Hepatitis B virus
Leukocytes
Genotype

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

Virus Diseases
Hepacivirus
Cell Line
Claudin-1
Scavenger Receptors

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

Virus Diseases
Hepacivirus
Immunity
Viremia
Infection
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
Therapeutics
Genetic Heterogeneity

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
Epitopes
Mutation
Enzyme-Linked Immunospot Assay

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
Mothers
Viruses
Integrase Inhibitors

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
viremia
Highly Active Antiretroviral Therapy
Virus Replication

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
Pressure
Infection
Amino Acid Substitution
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
Hepatitis C Antibodies

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
Virus Replication

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
Virus Diseases