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David J. Topham, Ph.D.

David J. Topham, Ph.D.

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About Me

David Topham joined the faculty at the University of Rochester Medical Center in 1999 and was appointed in 2009 as Vice Provost and Executive Director of the Health Science Center for Computational Innovation (HSCCI), a partnership between the University and IBM. As Executive Director of the HSCCI, ...
David Topham joined the faculty at the University of Rochester Medical Center in 1999 and was appointed in 2009 as Vice Provost and Executive Director of the Health Science Center for Computational Innovation (HSCCI), a partnership between the University and IBM. As Executive Director of the HSCCI, Dr. Topham's responsibility is to support collaboration in biomedical research using High Performance Computational Resources. He will bring together academic biomedical and health-related Research Investigators, High Performance Computational Biologists, and HP Research Computing resources. Dr. Topham provides strategic direction to the HSCCI and facilitates the development of research projects between UR scientists and its corporate partners, as well as support from state and federal agencies.

Dr. Topham is a tenured Professor of Microbiology and Immunology, a member of the David H. Smith Center for Vaccine Biology and Immunology. He was Director and PI of the Respiratory Pathogens Research Center from 2011-2018. He also served as Director and PI of the New York Influenza Center of Excellence--one of the six national Centers of Excellence in Influenza Research and Surveillance supported by the National Institutes of Health, which ran from 2007-2021. He was recently appointed as the Founding Director of the University of Rochester Translational Immunology and Infectious Disease Institute. His research interests are in the area of immune responses to influenza and experimental vaccines and include computational modeling of the immune system.

Faculty Appointments

Professor - Department of Microbiology and Immunology, Center for Vaccine Biology and Immunology (SMD)

Marie Curran Wilson and Joseph Chamberlain Wilson Professorship - Department of Microbiology and Immunology, Center for Vaccine Biology and Immunology (SMD)

Director, Translational Immunology and Infectious Diseases Institute - Department of Microbiology and Immunology (SMD) - Joint

Credentials

Post-doctoral Training & Residency

St. Jude Children's Research Hospital, Memphis, TN, Department of Immunology (Mentor, Peter C. Doherty) 1994 - 1999

Education

PhD | University of Vermont. Cellular/Molecular Biology. 1994

MS | University of Vermont. Pathology. 1992

BS | University of Vermont. Biology. 1986

Awards

Scholar. 2001

Research

Virus infections of the respiratory tract are responsible for a great deal of illness and even death among the world's human population. Influenza and now coronaviruses, in particular, have a history of causing deadly pandemics and the continuing emergence of highly pathogenic H5 and H7 influenzas a...
Virus infections of the respiratory tract are responsible for a great deal of illness and even death among the world's human population. Influenza and now coronaviruses, in particular, have a history of causing deadly pandemics and the continuing emergence of highly pathogenic H5 and H7 influenzas around the world is reason for concern. It is essential to understand how the immune system clears a virus infection and provides long term immunity if we are to design more rational vaccination and treatment strategies. The lab has a combined program in basic research using animal models of influenza infection and immunity, as well as a translational research program to study human immune responses to influenza and coronavirus infection and vaccination. Within these programs we are investigating the mechanisms that provide optimal immune protection against these viruses. One particular focus is to understand how T cells are regulated in the environment of the lung tissue and airways. We believe this is the key to generating long-lived protective immunity against diverse influenza viruses and coronavirus variants, including potential pandemic strains. The concepts and information we gather from the animal models are being directly translated into the human situation. To this end, we have established University of Rochester Translational Immunology and Infectious Disease Institute, a robust, collaborative program for basic and translational investigation of virology, pathogenesis, immunology, and vaccines.

Patents

Arrayed Detector System For Measurement of Influenza Immune Response

Issue date: July 16, 2013

Patent #: 8,486,619

Country: United States

Inventors: Charles R Mace, Benjamin Locke Miller, Tim R Mosmann, David J Topham

Arrayed Detector System for Measurement of Influenza Immune Response

Issue date: March 22, 2017

Patent #: ZL200980125645.5

Country: China, People's Republic of

Inventors: Charles R Mace, Benjamin Locke Miller, Tim R Mosmann, David J Topham

Arrayed Detector System for Measurement of Influenza Immune Response

Issue date: July 06, 2016

Patent #: 2286223

Country: Europe

Inventors: Charles R Mace, Benjamin Locke Miller, Tim R Mosmann, David J Topham

Arrayed Detector System for Measurement of Influenza Immune Response

Issue date: December 22, 2015

Patent #: 9,217,745

Country: United States

Inventors: Charles R Mace, Benjamin Locke Miller, Tim R Mosmann, David J Topham

Arrayed Detector System for Measurement of Influenza Immune Response

Issue date: July 06, 2016

Patent #: FR2286223

Country: France

Inventors: Charles R Mace, Benjamin Locke Miller, Tim R Mosmann, David J Topham

Arrayed Detector System for Measurement of Influenza Immune Response

Issue date: July 06, 2016

Patent #: 60200903959

Country: Germany

Inventors: Charles R Mace, Benjamin Locke Miller, Tim R Mosmann, David J Topham

Arrayed Detector System for Measurement of Influenza Immune Response

Issue date: July 06, 2016

Patent #: CH2286223

Country: Switzerland/Liechtenstein

Inventors: Charles R Mace, Benjamin Locke Miller, Tim R Mosmann, David J Topham

Arrayed Detector System for Measurement of Influenza Immune Response

Issue date: July 06, 2016

Patent #: GB2286223

Country: United Kingdom

Inventors: Charles R Mace, Benjamin Locke Miller, Tim R Mosmann, David J Topham

Publications

Journal Articles

Association of disease severity and genetic variation during primary Respiratory Syncytial Virus infections.

Bender W, Zhang Y, Corbett A, Chu C, Grier A, Wang L, Qiu X, McCall MN, Topham DJ, Walsh EE, Mariani TJ, Scheuermann R, Caserta MT, Anderson CS

BMC medical genomics.. 2024 June 1917 (1):165. Epub 06/19/2024.

Correction for Piepenbrink et al., "Highly Cross-Reactive and Protective Influenza A Virus H3N2 Hemagglutinin- and Neuraminidase-Specific Human Monoclonal Antibodies".

Piepenbrink M, Oladunni F, Nogales A, Khalil AM, Fitzgerald T, Hilimire TA, Basu M, Fucile C, Topham DJ, Rosenberg AF, Martinez-Sobrido L, Kobie JJ

Microbiology spectrum.. 2024 January 30 :e0338923. Epub 01/30/2024.

Mouse Memory CD8 T Cell Subsets Defined by Tissue-Resident Memory Integrin Expression Exhibit Distinct Metabolic Profiles.

Sportiello M, Poindexter A, Reilly EC, Geber A, Lambert Emo K, Jones TN, Topham DJ

ImmunoHorizons.. 2023 October 17 (10):652-669. Epub 1900 01 01.

Long-term results of vaccination with adjuvanted recombinant varicella zoster glycoprotein E during initial Bruton tyrosine kinase inhibitors therapy for chronic lymphocytic leukemia or lymphoplasmacytic lymphoma.

Brady MT, Laniewski N, Strawderman M, Chu CC, Kanagaiah P, Sangster MY, Topham DJ, Friedberg JW, Zent CS

American journal of hematology.. 2023 July 23 Epub 07/23/2023.

Highly Cross-Reactive and Protective Influenza A Virus H3N2 Hemagglutinin- and Neuraminidase-Specific Human Monoclonal Antibodies.

Piepenbrink M, Oladunni F, Nogales A, Khalil AM, Fitzgerald T, Basu M, Fucile C, Topham DJ, Rosenberg AF, Martinez-Sobrido L, Kobie JJ

Microbiology spectrum.. 2023 June 15 :e0472822. Epub 06/15/2023.

Interferon alpha inducible protein 6 is a negative regulator of innate immune responses by modulating RIG-I activation.

Villamayor L, Rivero V, López-García D, Topham DJ, Martínez-Sobrido L, Nogales A, DeDiego ML

Frontiers in immunology.. 2023 14 :1105309. Epub 01/30/2023.

Use of Host Response to Refine the Diagnosis of Group A Streptococcal Pharyngitis.

Yu J, Tycksen E, Yang W, Mariani TJ, Bhattacharya S, Falsey AR, Topham DJ, Storch GA

Journal of the Pediatric Infectious Diseases Society.. 2022 September 25 Epub 09/25/2022.

Aberrant newborn T cell and microbiota developmental trajectories predict respiratory compromise during infancy.

McDavid A, Laniewski N, Grier A, Gill AL, Kessler HA, Huyck H, Carbonell E, Holden-Wiltse J, Bandyopadhyay S, Carnahan J, Dylag AM, Topham DJ, Falsey AR, Caserta MT, Pryhuber GS, Gill SR, Scheible KM

iScience.. 2022 April 1525 (4):104007. Epub 03/01/2022.

The negative effect of pre-existing immunity on influenza vaccine responses transcends the impact of vaccine formulation type and vaccination history.

Moritzky SA, Richards KA, Glover MA, Krammer F, Chaves FA, Topham DJ, Branche A, Nayak JL, Sant AJ

The Journal of infectious diseases.. 2022 February 24 Epub 02/24/2022.

Formation and Expansion of Memory B Cells against Coronavirus in Acutely Infected COVID-19 Individuals.

Embong AK, Nguyen-Contant P, Wang J, Kanagaiah P, Chaves FA, Fitzgerald TF, Zhou Q, Kosoy G, Branche AR, Miller BL, Zand MS, Sangster MY, Topham DJ

Pathogens.. 2022 January 2911 (2)Epub 01/29/2022.

A systems genomics approach uncovers molecular associates of RSV severity.

McCall MN, Chu CY, Wang L, Benoodt L, Thakar J, Corbett A, Holden-Wiltse J, Slaunwhite C, Grier A, Gill SR, Falsey AR, Topham DJ, Caserta MT, Walsh EE, Qiu X, Mariani TJ

PLoS computational biology.. 2021 December 2817 (12):e1009617. Epub 12/28/2021.

Association of Human Milk Antibody Induction, Persistence, and Neutralizing Capacity With SARS-CoV-2 Infection vs mRNA Vaccination.

Young BE, Seppo AE, Diaz N, Rosen-Carole C, Nowak-Wegrzyn A, Cruz Vasquez JM, Ferri-Huerta R, Nguyen-Contant P, Fitzgerald T, Sangster MY, Topham DJ, Järvinen KM

JAMA pediatrics.. 2021 November 10 Epub 11/10/2021.

MicroRNA-29 specifies age-related differences in the CD8+ T cell immune response.

Yee Mon KJ, Zhu H, Daly CWP, Vu LT, Smith NL, Patel R, Topham DJ, Scheible K, Jambo K, Le MTN, Rudd BD, Grimson A

Cell reports.. 2021 November 937 (6):109969. Epub 1900 01 01.

Squalene-Based Influenza Vaccine Adjuvants and Their Impact on the Hemagglutinin-Specific B Cell Response.

Nguyen-Contant P, Sangster MY, Topham DJ

Pathogens.. 2021 March 1710 (3)Epub 03/17/2021.

Airway gene-expression classifiers for respiratory syncytial virus (RSV) disease severity in infants.

Wang L, Chu CY, McCall MN, Slaunwhite C, Holden-Wiltse J, Corbett A, Falsey AR, Topham DJ, Caserta MT, Mariani TJ, Walsh EE, Qiu X

BMC medical genomics.. 2021 February 2514 (1):57. Epub 02/25/2021.

Characterization of SARS-CoV-2 RNA, Antibodies, and Neutralizing Capacity in Milk Produced by Women with COVID-19.

Pace RM, Williams JE, Järvinen KM, Belfort MB, Pace CDW, Lackey KA, Gogel AC, Nguyen-Contant P, Kanagaiah P, Fitzgerald T, Ferri R, Young B, Rosen-Carole C, Diaz N, Meehan CL, Caffé B, Sangster MY, Topham D, McGuire MA, Seppo A, McGuire MK

mBio.. 2021 February 912 (1)Epub 02/09/2021.

Gaps in Serologic Immunity against Contemporary Swine-Origin Influenza A Viruses among Healthy Individuals in the United States.

Lorbach JN, Fitzgerald T, Nolan C, Nolting JM, Treanor JJ, Topham DJ, Bowman AS

Viruses.. 2021 January 1813 (1)Epub 01/18/2021.

CD49a Identifies Polyfunctional Memory CD8 T Cell Subsets that Persist in the Lungs After Influenza Infection.

Reilly EC, Sportiello M, Emo KL, Amitrano AM, Jha R, Kumar ABR, Laniewski NG, Yang H, Kim M, Topham DJ

Frontiers in immunology.. 2021 12 :728669. Epub 09/09/2021.

Analysis of Antigen-Specific Human Memory B Cell Populations Based on In Vitro Polyclonal Stimulation.

Nguyen-Contant P, Embong AK, Topham DJ, Sangster MY

Current protocols in immunology / edited by John E. Coligan ... [et

Leukocyte trafficking to the lungs and beyond: lessons from influenza for COVID-19.

Alon R, Sportiello M, Kozlovski S, Kumar A, Reilly EC, Zarbock A, Garbi N, Topham DJ

Nature reviews. Immunology.. 2020 November 19 Epub 11/19/2020.

Short term results of vaccination with adjuvanted recombinant varicella zoster glycoprotein E during initial BTK inhibitor therapy for CLL or lymphoplasmacytic lymphoma.

Zent CS, Brady MT, Delage C, Strawderman M, Laniewski N, Contant PN, Kanagaiah P, Sangster MY, Barr PM, Chu CC, Topham DJ, Friedberg JW

Leukemia.. 2020 October 30 Epub 10/30/2020.

S Protein-Reactive IgG and Memory B Cell Production after Human SARS-CoV-2 Infection Includes Broad Reactivity to the S2 Subunit.

Nguyen-Contant P, Embong AK, Kanagaiah P, Chaves FA, Yang H, Branche AR, Topham DJ, Sangster MY

mBio.. 2020 September 2511 (5)Epub 09/25/2020.

Array-based analysis of SARS-CoV-2, other coronaviruses, and influenza antibodies in convalescent COVID-19 patients.

Steiner DJ, Cognetti JS, Luta EP, Klose AM, Bucukovski J, Bryan MR, Schmuke JJ, Nguyen-Contant P, Sangster MY, Topham DJ, Miller BL

Biosensors & bioelectronics.. 2020 September 21169 :112643. Epub 09/21/2020.

COVID-19 and human milk: SARS-CoV-2, antibodies, and neutralizing capacity.

Pace RM, Williams JE, Järvinen KM, Belfort MB, Pace CD, Lackey KA, Gogel AC, Nguyen-Contant P, Kanagaiah P, Fitzgerald T, Ferri R, Young B, Rosen-Carole C, Diaz N, Meehan C, Caffe B, Sangster MY, Topham DJ, McGuire MA, Seppo A, McGuire MK

medRxiv : the preprint server for health sciences.. 2020 September 18 Epub 09/18/2020.

Temporal Dysbiosis of Infant Nasal Microbiota Relative to Respiratory Syncytial Virus Infection.

Grier A, Gill AL, Kessler HA, Corbett A, Bandyopadhyay S, Java J, Holden-Wiltse J, Falsey AR, Topham DJ, Mariani TJ, Caserta MT, Walsh EE, Gill SR

The Journal of infectious diseases.. 2020 September 14 Epub 09/14/2020.

Airway gene expression correlates of RSV disease severity and microbiome composition in infants.

Chu CY, Qiu X, McCall MN, Wang L, Corbett A, Holden-Wiltse J, Slaunwhite C, Grier A, Gill SR, Pryhuber GS, Falsey AR, Topham DJ, Caserta MT, Walsh EE, Mariani TJ

The Journal of infectious diseases.. 2020 September 14 Epub 09/14/2020.

Middle-aged individuals may be in a perpetual state of H3N2 influenza virus susceptibility.

Gouma S, Kim K, Weirick ME, Gumina ME, Branche A, Topham DJ, Martin ET, Monto AS, Cobey S, Hensley SE

Nature communications.. 2020 September 1111 (1):4566. Epub 09/11/2020.

Recombinant HA-based vaccine outperforms split and subunit vaccines in elicitation of influenza-specific CD4 T cells and CD4 T cell-dependent antibody responses in humans.

Richards KA, Moritzky S, Shannon I, Fitzgerald T, Yang H, Branche A, Topham DJ, Treanor JJ, Nayak J, Sant AJ

NPJ vaccines.. 2020 August 265 (1):77. Epub 08/26/2020.

Unbiased analysis of peripheral blood mononuclear cells reveals CD4 T cell response to RSV matrix protein.

Thakar J, Qian Y, Benoodt L, Roumanes D, Qiu X, Laniewski N, Chu C, Slaunwhite C, Wang L, Mandava A, Chang I, Falsey AR, Caserta MT, Mariani TJ, Scheuermann RH, Walsh EE, Topham DJ

Vaccine: X.. 2020 August 75 :100065. Epub 04/21/2020.

In situ neutrophil efferocytosis shapes T cell immunity to influenza infection.

Lim K, Kim TH, Trzeciak A, Amitrano AM, Reilly EC, Prizant H, Fowell DJ, Topham DJ, Kim M

Nature immunology.. 2020 August 3 Epub 08/03/2020.

Androgen receptor signaling in the lungs mitigates inflammation and improves the outcome of influenza in mice.

Vom Steeg LG, Dhakal S, Woletsadik YA, Park HS, Mulka KR, Reilly EC, Topham DJ, Klein SL

PLoS pathogens.. 2020 July 916 (7):e1008506. Epub 07/09/2020.

Eight practices for data management to enable team data science.

McDavid A, Corbett AM, Dutra JL, Straw AG, Topham DJ, Pryhuber GS, Caserta MT, Gill SR, Scheible KM, Holden-Wiltse J

Journal of clinical and translational science.. 2020 June 235 (1):e14. Epub 06/23/2020.

Implementing sequence-based antigenic distance calculation into immunological shape space model.

Anderson CS, Sangster MY, Yang H, Mariani TJ, Chaudhury S, Topham DJ

BMC bioinformatics.. 2020 June 1921 (1):256. Epub 06/19/2020.

T integrins CD103 and CD49a differentially support adherence and motility after resolution of influenza virus infection.

Reilly EC, Lambert Emo K, Buckley PM, Reilly NS, Smith I, Chaves FA, Yang H, Oakes PW, Topham DJ

Proceedings of the National Academy of Sciences of the United States of America.. 2020 June 2117 (22):12306-12314. Epub 05/21/2020.

Discordant rearrangement of primary and anamnestic CD8+ T cell responses to influenza A viral epitopes upon exposure to bacterial superantigens: Implications for prophylactic vaccination, heterosubtypic immunity and superinfections.

Meilleur CE, Memarnejadian A, Shivji AN, Benoit JM, Tuffs SW, Mele TS, Singh B, Dikeakos JD, Topham DJ, Mu HH, Bennink JR, McCormick JK, Haeryfar SMM

PLoS pathogens.. 2020 May 16 (5):e1008393. Epub 05/20/2020.

Influenza response planning for the centers of excellence for influenza research and surveillance: Science preparedness for enhancing global health security.

Moore KA, Ostrowsky JT, Mehr AJ, Osterholm MT,

Influenza and other respiratory viruses.. 2020 April 19 Epub 04/19/2020.

Serendipity: Reflections on Being Mentored by Dr. Peter Doherty.

Topham DJ

Viral immunology.. 2020 April 33 (3):137-142. Epub 1900 01 01.

Characterizing Emerging Canine H3 Influenza Viruses.

Martinez-Sobrido L, Blanco-Lobo P, Rodriguez L, Fitzgerald T, Zhang H, Nguyen P, Anderson CS, Holden-Wiltse J, Bandyopadhyay S, Nogales A, DeDiego ML, Wasik BR, Miller BL, Henry C, Wilson PC, Sangster MY, Treanor JJ, Topham DJ, Byrd-Leotis L, Steinhauer DA, Cummings RD, Luczo JM, Tompkins SM, Sakamoto K, Jones CA, Steel J, Lowen AC, Danzy S, Tao H, Fink AL, Klein SL, Wohlgemuth N, Fenstermacher KJ, El Najjar F, Pekosz A, Sauer L, Lewis MK, Shaw-Saliba K, Rothman RE, Liu ZY, Chen KF, Parrish CR, Voorhees IEH, Kawaoka Y, Neumann G, Chiba S, Fan S, Hatta M, Kong H, Zhong G, Wang G, Uccellini MB, García-Sastre A, Perez DR, Ferreri LM, Herfst S, Richard M, Fouchier R, Burke D, Pattinson D, Smith DJ, Meliopoulos V, Freiden P, Livingston B, Sharp B, Cherry S, Dib JC, Yang G, Russell CJ, Barman S, Webby RJ, Krauss S, Danner A, Woodard K, Peiris M, Perera RAPM, Chan MCW, Govorkova EA, Marathe BM, Pascua PNQ, Smith G, Li YT, Thomas PG, Schultz-Cherry S

PLoS pathogens.. 2020 April 16 (4):e1008409. Epub 04/14/2020.

A Live Attenuated Influenza Vaccine Elicits Enhanced Heterologous Protection When the Internal Genes of the Vaccine Are Matched to Those of the Challenge Virus.

Smith A, Rodriguez L, El Ghouayel M, Nogales A, Chamberlain JM, Sortino K, Reilly E, Feng C, Topham DJ, Martínez-Sobrido L, Dewhurst S

Journal of virology.. 2020 January 3194 (4)Epub 01/31/2020.

Recombinant HA-based vaccine outperforms split and subunit vaccines in elicitation of influenza-specific CD4 T cells and CD4 T cell-dependent antibody responses in humans.

Richards KA, Moritzky S, Shannon I, Fitzgerald T, Yang H, Branche A, Topham DJ, Treanor JJ, Nayak J, Sant AJ

NPJ vaccines.. 2020 5 :77. Epub 08/26/2020.

Inhibiting Protein Kinase D Promotes Airway Epithelial Barrier Integrity in Mouse Models of Influenza A Virus Infection.

Veazey JM, Eliseeva SI, Hillman SE, Stiles K, Smyth TR, Morrissey CE, Tillotson EJ, Topham DJ, Chapman TJ, Georas SN

Frontiers in immunology.. 2020 11 :580401. Epub 12/14/2020.

Immunity to Influenza Infection in Humans.

Topham DJ, DeDiego ML, Nogales A, Sangster MY, Sant A

Cold Spring Harbor perspectives in medicine.. 2019 December 30 Epub 12/30/2019.

Novel Functions of IFI44L as a Feedback Regulator of Host Antiviral Responses.

DeDiego ML, Martinez-Sobrido L, Topham DJ

Journal of virology.. 2019 November 193 (21)Epub 10/15/2019.

Monoclonal Antibody Responses after Recombinant Hemagglutinin Vaccine versus Subunit Inactivated Influenza Virus Vaccine: a Comparative Study.

Henry C, Palm AE, Utset HA, Huang M, Ho IY, Zheng NY, Fitzgerald T, Neu KE, Chen YQ, Krammer F, Treanor JJ, Sant AJ, Topham DJ, Wilson PC

Journal of virology.. 2019 November 193 (21)Epub 10/15/2019.

Measuring the Severity of Respiratory Illness in the First 2 Years of Life in Preterm and Term Infants.

Caserta MT, Yang H, Bandyopadhyay S, Qiu X, Gill SR, Java J, McDavid A, Falsey AR, Topham DJ, Holden-Wiltse J, Scheible K, Pryhuber G

The Journal of pediatrics.. 2019 November 214 :12-19.e3. Epub 07/31/2019.

Formation and Maintenance of Tissue Resident Memory CD8+ T Cells after Viral Infection.

Topham DJ, Reilly EC, Emo KL, Sportiello M

Pathogens.. 2019 October 188 (4)Epub 10/18/2019.

Comparative Study of the Temperature Sensitive, Cold Adapted and Attenuated Mutations Present in the Master Donor Viruses of the Two Commercial Human Live Attenuated Influenza Vaccines.

Rodriguez L, Blanco-Lobo P, Reilly EC, Maehigashi T, Nogales A, Smith A, Topham DJ, Dewhurst S, Kim B, Martínez-Sobrido L

Viruses.. 2019 October 1011 (10)Epub 10/10/2019.

Comparison of human H3N2 antibody responses elicited by egg-based, cell-based, and recombinant protein-based influenza vaccines during the 2017-2018 season.

Gouma S, Zost SJ, Parkhouse K, Branche A, Topham DJ, Cobey S, Hensley SE

Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.. 2019 October 9 Epub 10/09/2019.

Role of Memory B Cells in Hemagglutinin-Specific Antibody Production Following Human Influenza A Virus Infection.

Sangster MY, Nguyen PQT, Topham DJ

Pathogens.. 2019 September 288 (4)Epub 09/28/2019.

Microbiome-Transcriptome Interactions Related to Severity of Respiratory Syncytial Virus Infection.

Sonawane AR, Tian L, Chu CY, Qiu X, Wang L, Holden-Wiltse J, Grier A, Gill SR, Caserta MT, Falsey AR, Topham DJ, Walsh EE, Mariani TJ, Weiss ST, Silverman EK, Glass K, Liu YY

Scientific reports.. 2019 September 259 (1):13824. Epub 09/25/2019.

Programming of Distinct Chemokine-Dependent and -Independent Search Strategies for Th1 and Th2 Cells Optimizes Function at Inflamed Sites.

Gaylo-Moynihan A, Prizant H, Popovic M, Fernandes NRJ, Anderson CS, Chiou KK, Bell H, Schrock DC, Schumacher J, Capece T, Walling BL, Topham DJ, Miller J, Smrcka AV, Kim M, Hughson A, Fowell DJ

Immunity.. 2019 August 2051 (2):298-309.e6. Epub 08/06/2019.

Aims, Study Design, and Enrollment Results From the Assessing Predictors of Infant Respiratory Syncytial Virus Effects and Severity Study.

Walsh EE, Mariani TJ, Chu C, Grier A, Gill SR, Qiu X, Wang L, Holden-Wiltse J, Corbett A, Thakar J, Benoodt L, McCall MN, Topham DJ, Falsey AR, Caserta MT

JMIR research protocols.. 2019 June 68 (6):e12907. Epub 06/06/2019.

Broad Hemagglutinin-Specific Memory B Cell Expansion by Seasonal Influenza Virus Infection Reflects Early-Life Imprinting and Adaptation to the Infecting Virus.

Tesini BL, Kanagaiah P, Wang J, Hahn M, Halliley JL, Chaves FA, Nguyen PQT, Nogales A, DeDiego ML, Anderson CS, Ellebedy AH, Strohmeier S, Krammer F, Yang H, Bandyopadhyay S, Ahmed R, Treanor JJ, Martinez-Sobrido L, Golding H, Khurana S, Zand MS, Topham DJ, Sangster MY

Journal of virology.. 2019 April 1593 (8)Epub 04/03/2019.

Highly efficient hypothesis testing methods for regression-type tests with correlated observations and heterogeneous variance structure.

Zhang Y, Bandyopadhyay G, Topham DJ, Falsey AR, Qiu X

BMC bioinformatics.. 2019 April 1520 (1):185. Epub 04/15/2019.

Influenza Virus Vaccination Elicits Poorly Adapted B Cell Responses in Elderly Individuals.

Henry C, Zheng NY, Huang M, Cabanov A, Rojas KT, Kaur K, Andrews SF, Palm AE, Chen YQ, Li Y, Hoskova K, Utset HA, Vieira MC, Wrammert J, Ahmed R, Holden-Wiltse J, Topham DJ, Treanor JJ, Ertl HC, Schmader KE, Cobey S, Krammer F, Hensley SE, Greenberg H, He XS, Wilson PC

Cell host & microbe.. 2019 March 1325 (3):357-366.e6. Epub 02/19/2019.

Modulation of Innate Immune Responses by the Influenza A NS1 and PA-X Proteins.

Nogales A, Martinez-Sobrido L, Topham DJ, DeDiego ML

Viruses.. 2018 December 1210 (12)Epub 12/12/2018.

Neonatal gut and respiratory microbiota: coordinated development through time and space.

Grier A, McDavid A, Wang B, Qiu X, Java J, Bandyopadhyay S, Yang H, Holden-Wiltse J, Kessler HA, Gill AL, Huyck H, Falsey AR, Topham DJ, Scheible KM, Caserta MT, Pryhuber GS, Gill SR

Microbiome.. 2018 October 266 (1):193. Epub 10/26/2018.

Directed selection of amino acid changes in the influenza hemagglutinin and neuraminidase affecting protein antigenicity.

DeDiego ML, Chiem K, Topham DJ

Vaccine.. 2018 October 1536 (43):6383-6392. Epub 09/14/2018.

Functional Evolution of the 2009 Pandemic H1N1 Influenza Virus NS1 and PA in Humans.

Nogales A, Martinez-Sobrido L, Chiem K, Topham DJ, DeDiego ML

Journal of virology.. 2018 October 192 (19)Epub 09/12/2018.

Crowd on a Chip: Label-Free Human Monoclonal Antibody Arrays for Serotyping Influenza.

Zhang H, Henry C, Anderson CS, Nogales A, DeDiego ML, Bucukovski J, Martinez-Sobrido L, Wilson PC, Topham DJ, Miller BL

Analytical chemistry.. 2018 August 790 (15):9583-9590. Epub 07/20/2018.

Pandemic influenza vaccines: what they have taught us about B cell immunology.

Topham DJ, Nguyen P, Sangster MY

Current opinion in immunology.. 2018 August 53 :203-208. Epub 06/26/2018.

Effect of prior vaccination on carriage rates of Streptococcus pneumoniae in older adults: A longitudinal surveillance study.

Branche AR, Yang H, Java J, Wiltse-Holden J, Topham DJ, Peasley M, Frost MR, Nahm MH, Falsey AR

Vaccine.. 2018 July 536 (29):4304-4310. Epub 06/02/2018.

T-Cell Responses in Adults During Natural Respiratory Syncytial Virus Infection.

Roumanes D, Falsey AR, Quataert S, Secor-Socha S, Lee FE, Yang H, Bandyopadhyay S, Holden-Wiltse J, Topham DJ, Walsh EE

The Journal of infectious diseases.. 2018 July 2218 (3):418-428. Epub 1900 01 01.

CD4 T Cell Epitope Specificity and Cytokine Potential Are Preserved as Cells Transition from the Lung Vasculature to Lung Tissue following Influenza Virus Infection.

DiPiazza A, Laniewski N, Rattan A, Topham DJ, Miller J, Sant AJ

Journal of virology.. 2018 July 192 (13)Epub 06/13/2018.

Virus-Specific Antibody, Viral Load, and Disease Severity in Respiratory Syncytial Virus Infection.

Walsh EE, Wang L, Falsey AR, Qiu X, Corbett A, Holden-Wiltse J, Mariani TJ, Topham DJ, Caserta MT

The Journal of infectious diseases.. 2018 June 20218 (2):208-217. Epub 1900 01 01.

Influenza Infection in Humans Induces Broadly Cross-Reactive and Protective Neuraminidase-Reactive Antibodies.

Chen YQ, Wohlbold TJ, Zheng NY, Huang M, Huang Y, Neu KE, Lee J, Wan H, Rojas KT, Kirkpatrick E, Henry C, Palm AE, Stamper CT, Lan LY, Topham DJ, Treanor J, Wrammert J, Ahmed R, Eichelberger MC, Georgiou G, Krammer F, Wilson PC

Cell.. 2018 April 5173 (2):417-429.e10. Epub 1900 01 01.

Publisher Correction: Natural and directed antigenic drift of the H1 influenza virus hemagglutinin stalk domain.

Anderson CS, Ortega S, Chaves FA, Clark AM, Yang H, Topham DJ, DeDiego ML

Scientific reports.. 2018 March 68 (1):4265. Epub 03/06/2018.

T cell developmental arrest in former premature infants increases risk of respiratory morbidity later in infancy.

Scheible KM, Emo J, Laniewski N, Baran AM, Peterson DR, Holden-Wiltse J, Bandyopadhyay S, Straw AG, Huyck H, Ashton JM, Tripi KS, Arul K, Werner E, Scalise T, Maffett D, Caserta M, Ryan RM, Reynolds AM, Ren CL, Topham DJ, Mariani TJ, Pryhuber GS

JCI insight.. 2018 February 223 (4)Epub 02/22/2018.

Antigenic cartography of H1N1 influenza viruses using sequence-based antigenic distance calculation.

Anderson CS, McCall PR, Stern HA, Yang H, Topham DJ

BMC bioinformatics.. 2018 February 1219 (1):51. Epub 02/12/2018.

Publisher Correction: Natural and directed antigenic drift of the H1 influenza virus hemagglutinin stalk domain.

Anderson CS, Ortega S, Chaves FA, Clark AM, Yang H, Topham DJ, DeDiego ML

Scientific reports.. 2018 January 58 (1):276. Epub 01/05/2018.

Maximum Likelihood Estimation of Titer via a Power Family of Four-Parameter Logistic Model.

Yang H, Holden-Wiltse J, Topham DJ, Treanor J

Journal of biopharmaceutical statistics.. 2018 28 (3):492-500. Epub 09/05/2017.

Tissue-Resident Memory CD8 T Cells: From Phenotype to Function.

Topham DJ, Reilly EC

Frontiers in immunology.. 2018 9 :515. Epub 03/26/2018.

Broad cross-reactive IgG responses elicited by adjuvanted vaccination with recombinant influenza hemagglutinin (rHA) in ferrets and mice.

Wang J, Hilchey SP, DeDiego M, Perry S, Hyrien O, Nogales A, Garigen J, Amanat F, Huertas N, Krammer F, Martinez-Sobrido L, Topham DJ, Treanor JJ, Sangster MY, Zand MS

PloS one.. 2018 13 (4):e0193680. Epub 04/11/2018.

The K186E Amino Acid Substitution in the Canine Influenza Virus H3N8 NS1 Protein Restores Its Ability To Inhibit Host Gene Expression.

Nogales A, Chauché C, DeDiego ML, Topham DJ, Parrish CR, Murcia PR, Martínez-Sobrido L

Journal of virology.. 2017 November 1591 (22)Epub 10/27/2017.

Association of Dynamic Changes in the CD4 T-Cell Transcriptome With Disease Severity During Primary Respiratory Syncytial Virus Infection in Young Infants.

Mariani TJ, Qiu X, Chu CY, Wang L, Thakar J, Holden-Wiltse J, Corbett A, Topham DJ, Falsey AR, Caserta MT, Walsh EE

The Journal of infectious diseases.. 2017 November 15216 (8):1027-1037. Epub 1900 01 01.

A novel intracellular pool of LFA-1 is critical for asymmetric CD8 T cell activation and differentiation.

Capece T, Walling BL, Lim K, Kim KD, Bae S, Chung HL, Topham DJ, Kim M

The Journal of cell biology.. 2017 November 6216 (11):3817-3829. Epub 09/27/2017.

Natural and directed antigenic drift of the H1 influenza virus hemagglutinin stalk domain.

Anderson CS, Ortega S, Chaves FA, Clark AM, Yang H, Topham DJ, DeDiego ML

Scientific reports.. 2017 November 67 (1):14614. Epub 11/06/2017.

Interplay of PA-X and NS1 Proteins in Replication and Pathogenesis of a Temperature-Sensitive 2009 Pandemic H1N1 Influenza A Virus.

Nogales A, Rodriguez L, DeDiego ML, Topham DJ, Martínez-Sobrido L

Journal of virology.. 2017 September 191 (17)Epub 08/10/2017.

Functional Evolution of Influenza Virus NS1 Protein in Currently Circulating Human 2009 Pandemic H1N1 Viruses.

Clark AM, Nogales A, Martinez-Sobrido L, Topham DJ, DeDiego ML

Journal of virology.. 2017 September 191 (17)Epub 08/10/2017.

Transcriptomic Biomarkers to Discriminate Bacterial from Nonbacterial Infection in Adults Hospitalized with Respiratory Illness.

Bhattacharya S, Rosenberg AF, Peterson DR, Grzesik K, Baran AM, Ashton JM, Gill SR, Corbett AM, Holden-Wiltse J, Topham DJ, Walsh EE, Mariani TJ, Falsey AR

Scientific reports.. 2017 July 267 (1):6548. Epub 07/26/2017.

FUNNEL-GSEA: FUNctioNal ELastic-net regression in time-course gene set enrichment analysis.

Zhang Y, Topham DJ, Thakar J, Qiu X

Bioinformatics.. 2017 July 133 (13):1944-1952. Epub 1900 01 01.

B-Cell Responses to Intramuscular Administration of a Bivalent Virus-Like Particle Human Norovirus Vaccine.

Ramani S, Neill FH, Ferreira J, Treanor JJ, Frey SE, Topham DJ, Goodwin RR, Borkowski A, Baehner F, Mendelman PM, Estes MK, Atmar RL

Clinical and vaccine immunology : CVI.. 2017 May 24 (5)Epub 05/05/2017.

A live-attenuated influenza vaccine for H3N2 canine influenza virus.

Rodriguez L, Nogales A, Reilly EC, Topham DJ, Murcia PR, Parrish CR, Martinez Sobrido L

Virology.. 2017 April 504 :96-106. Epub 02/03/2017.

NS1 Protein Amino Acid Changes D189N and V194I Affect Interferon Responses, Thermosensitivity, and Virulence of Circulating H3N2 Human Influenza A Viruses.

Nogales A, Martinez-Sobrido L, Topham DJ, DeDiego ML

Journal of virology.. 2017 March 191 (5)Epub 02/14/2017.

Development of a Global Respiratory Severity Score for Respiratory Syncytial Virus Infection in Infants.

Caserta MT, Qiu X, Tesini B, Wang L, Murphy A, Corbett A, Falsey AR, Holden-Wiltse J, Walsh EE

The Journal of infectious diseases.. 2017 March 1215 (5):750-756. Epub 1900 01 01.

Temperature-Sensitive Live-Attenuated Canine Influenza Virus H3N8 Vaccine.

Nogales A, Rodriguez L, Chauché C, Huang K, Reilly EC, Topham DJ, Murcia PR, Parrish CR, Martínez-Sobrido L

Journal of virology.. 2017 February 1591 (4)Epub 01/31/2017.

Antigenicity of the 2015-2016 seasonal H1N1 human influenza virus HA and NA proteins.

Clark AM, DeDiego ML, Anderson CS, Wang J, Yang H, Nogales A, Martinez-Sobrido L, Zand MS, Sangster MY, Topham DJ

PloS one.. 2017 12 (11):e0188267. Epub 11/16/2017.

NS1 Protein Mutation I64T Affects Interferon Responses and Virulence of Circulating H3N2 Human Influenza A Viruses.

DeDiego ML, Nogales A, Lambert-Emo K, Martinez-Sobrido L, Topham DJ

Journal of virology.. 2016 November 190 (21):9693-9711. Epub 10/14/2016.

Live Imaging of Influenza Infection of the Trachea Reveals Dynamic Regulation of CD8+ T Cell Motility by Antigen.

Lambert Emo K, Hyun YM, Reilly E, Barilla C, Gerber S, Fowell D, Kim M, Topham DJ

PLoS pathogens.. 2016 September 12 (9):e1005881. Epub 09/19/2016.

Rearrangement of Influenza Virus Spliced Segments for the Development of Live-Attenuated Vaccines.

Nogales A, DeDiego ML, Topham DJ, Martínez-Sobrido L

Journal of virology.. 2016 July 1590 (14):6291-6302. Epub 06/24/2016.

Both Neutralizing and Non-Neutralizing Human H7N9 Influenza Vaccine-Induced Monoclonal Antibodies Confer Protection.

Henry Dunand CJ, Leon PE, Huang M, Choi A, Chromikova V, Ho IY, Tan GS, Cruz J, Hirsh A, Zheng NY, Mullarkey CE, Ennis FA, Terajima M, Treanor JJ, Topham DJ, Subbarao K, Palese P, Krammer F, Wilson PC

Cell host & microbe.. 2016 June 819 (6):800-13. Epub 1900 01 01.

Directed selection of influenza virus produces antigenic variants that match circulating human virus isolates and escape from vaccine-mediated immune protection.

DeDiego ML, Anderson CS, Yang H, Holden-Wiltse J, Fitzgerald T, Treanor JJ, Topham DJ

Immunology.. 2016 June 148 (2):160-73. Epub 03/30/2016.

An improved method for estimating antibody titers in microneutralization assay using green fluorescent protein.

Yang H, Baker SF, González ME, Topham DJ, Martínez-Sobrido L, Zand M, Holden-Wiltse J, Wu H

Journal of biopharmaceutical statistics.. 2016 26 (3):409-20. Epub 05/26/2015.

Boolean Modeling of Cellular and Molecular Pathways Involved in Influenza Infection.

Anderson CS, DeDiego ML, Topham DJ, Thakar J

Computational and mathematical methods in medicine.. 2016 2016 :7686081. Epub 02/14/2016.

Novel Sequence-Based Mapping of Recently Emerging H5NX Influenza Viruses Reveals Pandemic Vaccine Candidates.

Anderson CS, DeDiego ML, Thakar J, Topham DJ

PloS one.. 2016 11 (8):e0160510. Epub 08/05/2016.

Developmentally determined reduction in CD31 during gestation is associated with CD8+ T cell effector differentiation in preterm infants.

Scheible KM, Emo J, Yang H, Holden-Wiltse J, Straw A, Huyck H, Misra S, Topham DJ, Ryan RM, Reynolds AM, Mariani TJ, Pryhuber GS

Clinical immunology : the official journal of the Clinical Immunology Society.. 2015 December 161 (2):65-74. Epub 07/29/2015.

Visualization of integrin Mac-1 in vivo.

Lim K, Hyun YM, Lambert-Emo K, Topham DJ, Kim M

Journal of immunological methods.. 2015 November 426 :120-7. Epub 09/02/2015.

High-Affinity H7 Head and Stalk Domain-Specific Antibody Responses to an Inactivated Influenza H7N7 Vaccine After Priming With Live Attenuated Influenza Vaccine.

Halliley JL, Khurana S, Krammer F, Fitzgerald T, Coyle EM, Chung KY, Baker SF, Yang H, Martínez-Sobrido L, Treanor JJ, Subbarao K, Golding H, Topham DJ, Sangster MY

The Journal of infectious diseases.. 2015 October 15212 (8):1270-8. Epub 04/02/2015.

Neutrophil trails guide influenza-specific CD8? T cells in the airways.

Lim K, Hyun YM, Lambert-Emo K, Capece T, Bae S, Miller R, Topham DJ, Kim M

Science.. 2015 September 4349 (6252):aaa4352. Epub 1900 01 01.

Activation of the aryl hydrocarbon receptor during development enhances the pulmonary CD4+ T-cell response to viral infection.

Boule LA, Winans B, Lambert K, Vorderstrasse BA, Topham DJ, Pavelka MS, Lawrence BP

American journal of physiology. Lung cellular and molecular physiology.. 2015 August 1309 (3):L305-13. Epub 06/12/2015.

Competitive detection of influenza neutralizing antibodies using a novel bivalent fluorescence-based microneutralization assay (BiFMA).

Baker SF, Nogales A, Santiago FW, Topham DJ, Martínez-Sobrido L

Vaccine.. 2015 July 933 (30):3562-70. Epub 06/01/2015.

Diversifying Selection Analysis Predicts Antigenic Evolution of 2009 Pandemic H1N1 Influenza A Virus in Humans.

Lee AJ, Das SR, Wang W, Fitzgerald T, Pickett BE, Aevermann BD, Topham DJ, Falsey AR, Scheuermann RH

Journal of virology.. 2015 May 89 (10):5427-40. Epub 03/04/2015.

Assessing microstructures of the cornea with Gabor-domain optical coherence microscopy: pathway for corneal physiology and diseases.

Tankam P, He Z, Chu YJ, Won J, Canavesi C, Lepine T, Hindman HB, Topham DJ, Gain P, Thuret G, Rolland JP

Optics letters.. 2015 March 1540 (6):1113-6. Epub 1900 01 01.

Robust mucosal-homing antibody-secreting B cell responses induced by intramuscular administration of adjuvanted bivalent human norovirus-like particle vaccine.

Sundararajan A, Sangster MY, Frey S, Atmar RL, Chen WH, Ferreira J, Bargatze R, Mendelman PM, Treanor JJ, Topham DJ

Vaccine.. 2015 January 1533 (4):568-76. Epub 11/22/2014.

The specialized proresolving mediator 17-HDHA enhances the antibody-mediated immune response against influenza virus: a new class of adjuvant?

Ramon S, Baker SF, Sahler JM, Kim N, Feldsott EA, Serhan CN, Martínez-Sobrido L, Topham DJ, Phipps RP

The Journal of immunology : official journal of the American Association of Immunologists.. 2014 December 15193 (12):6031-40. Epub 11/12/2014.

Live attenuated H7N7 influenza vaccine primes for a vigorous antibody response to inactivated H7N7 influenza vaccine.

Babu TM, Levine M, Fitzgerald T, Luke C, Sangster MY, Jin H, Topham D, Katz J, Treanor J, Subbarao K

Vaccine.. 2014 November 2832 (50):6798-804. Epub 10/16/2014.

Induction of CD8 T cell heterologous protection by a single dose of single-cycle infectious influenza virus.

Guo H, Baker S, Martínez-Sobrido L, Topham DJ

Journal of virology.. 2014 October 88 (20):12006-16. Epub 08/06/2014.

Influenza A virus attenuation by codon deoptimization of the NS gene for vaccine development.

Nogales A, Baker SF, Ortiz-Riaño E, Dewhurst S, Topham DJ, Martínez-Sobrido L

Journal of virology.. 2014 September 88 (18):10525-40. Epub 06/25/2014.

Influenza A and B virus intertypic reassortment through compatible viral packaging signals.

Baker SF, Nogales A, Finch C, Tuffy KM, Domm W, Perez DR, Topham DJ, Martínez-Sobrido L

Journal of virology.. 2014 September 88 (18):10778-91. Epub 07/09/2014.

Modeling the dynamics and migratory pathways of virus-specific antibody-secreting cell populations in primary influenza infection.

Miao H, Sangster MY, Livingstone AM, Hilchey SP, Zhang L, Topham DJ, Mosmann TR, Holden-Wiltse J, Perelson AS, Wu H, Zand MS

PloS one.. 2014 9 (8):e104781. Epub 08/29/2014.

The use of self-adjuvanting nanofiber vaccines to elicit high-affinity B cell responses to peptide antigens without inflammation.

Chen J, Pompano RR, Santiago FW, Maillat L, Sciammas R, Sun T, Han H, Topham DJ, Chong AS, Collier JH

Biomaterials.. 2013 November 34 (34):8776-85. Epub 08/13/2013.

Inflammation-induced interstitial migration of effector CD4? T cells is dependent on integrin ?V.

Overstreet MG, Gaylo A, Angermann BR, Hughson A, Hyun YM, Lambert K, Acharya M, Billroth-Maclurg AC, Rosenberg AF, Topham DJ, Yagita H, Kim M, Lacy-Hulbert A, Meier-Schellersheim M, Fowell DJ

Nature immunology.. 2013 September 14 (9):949-58. Epub 08/11/2013.

Gain-of-function experiments on H7N9.

Fouchier RA, Kawaoka Y, Cardona C, Compans RW, García-Sastre A, Govorkova EA, Guan Y, Herfst S, Orenstein WA, Peiris JS, Perez DR, Richt JA, Russell C, Schultz-Cherry SL, Smith DJ, Steel J, Tompkins SM, Topham DJ, Treanor JJ, Tripp RA, Webby RJ, Webster RG

Science.. 2013 August 9341 (6146):612-3. Epub 1900 01 01.

Avian flu: Gain-of-function experiments on H7N9.

Fouchier RA, Kawaoka Y, Cardona C, Compans RW, Fouchier RA, García-Sastre A, Govorkova EA, Guan Y, Herfst S, Kawaoka Y, Orenstein WA, Peiris JS, Perez DR, Richt JA, Russell C, Schultz-Cherry SL, Smith DJ, Steel J, Tompkins SM, Topham DJ, Treanor JJ, Tripp RA, Webby RJ, Webster RG

Nature.. 2013 August 8500 (7461):150-1. Epub 1900 01 01.

Protection against lethal influenza with a viral mimic.

Baker SF, Guo H, Albrecht RA, García-Sastre A, Topham DJ, Martínez-Sobrido L

Journal of virology.. 2013 August 87 (15):8591-605. Epub 05/29/2013.

B cell response and hemagglutinin stalk-reactive antibody production in different age cohorts following 2009 H1N1 influenza virus vaccination.

Sangster MY, Baer J, Santiago FW, Fitzgerald T, Ilyushina NA, Sundararajan A, Henn AD, Krammer F, Yang H, Luke CJ, Zand MS, Wright PF, Treanor JJ, Topham DJ, Subbarao K

Clinical and vaccine immunology : CVI.. 2013 June 20 (6):867-76. Epub 04/10/2013.

Heterovariant cross-reactive B-cell responses induced by the 2009 pandemic influenza virus A subtype H1N1 vaccine.

He XS, Sasaki S, Baer J, Khurana S, Golding H, Treanor JJ, Topham DJ, Sangster MY, Jin H, Dekker CL, Subbarao K, Greenberg HB

The Journal of infectious diseases.. 2013 January 15207 (2):288-96. Epub 10/29/2012.

Statistical estimation & inference of cell counts from ELISPOT limiting dilution assays.

Yang H, Topham DJ, Holden-Wiltse J, Wu H

Journal of biopharmaceutical statistics.. 2013 23 (4):921-36. Epub 1900 01 01.

Stability of T cell phenotype and functional assays following heparinized umbilical cord blood collection.

Scheible K, Secor-Socha S, Wightman T, Wang H, Mariani TJ, Topham DJ, Pryhuber G, Quataert S

Cytometry. Part A : the journal of the International Society for Analytical Cytology.. 2012 November 81 (11):937-49. Epub 10/01/2012.

Pre-existing virus-specific CD8(+) T-cells provide protection against pneumovirus-induced disease in mice.

van Helden MJ, van Kooten PJ, Bekker CP, Gröne A, Topham DJ, Easton AJ, Boog CJ, Busch DH, Zaiss DM, Sijts AJ

Vaccine.. 2012 October 530 (45):6382-8. Epub 08/29/2012.

The bone marrow functions as the central site of proliferation for long-lived NK cells.

van Helden MJ, de Graaf N, Boog CJ, Topham DJ, Zaiss DM, Sijts AJ

The Journal of immunology : official journal of the American Association of Immunologists.. 2012 September 1189 (5):2333-7. Epub 07/20/2012.

Platelets present antigen in the context of MHC class I.

Chapman LM, Aggrey AA, Field DJ, Srivastava K, Ture S, Yui K, Topham DJ, Baldwin WM, Morrell CN

The Journal of immunology : official journal of the American Association of Immunologists.. 2012 July 15189 (2):916-23. Epub 06/15/2012.

Ki-67 expression reveals strong, transient influenza specific CD4 T cell responses after adult vaccination.

Li X, Miao H, Henn A, Topham DJ, Wu H, Zand MS, Mosmann TR

Vaccine.. 2012 June 2930 (31):4581-4. Epub 04/30/2012.

Host differences in influenza-specific CD4 T cell and B cell responses are modulated by viral strain and route of immunization.

Sundararajan A, Huan L, Richards KA, Marcelin G, Alam S, Joo H, Yang H, Webby RJ, Topham DJ, Sant AJ, Sangster MY

PloS one.. 2012 7 (3):e34377. Epub 03/23/2012.

Modeling of influenza-specific CD8+ T cells during the primary response indicates that the spleen is a major source of effectors.

Wu H, Kumar A, Miao H, Holden-Wiltse J, Mosmann TR, Livingstone AM, Belz GT, Perelson AS, Zand MS, Topham DJ

The Journal of immunology : official journal of the American Association of Immunologists.. 2011 November 1187 (9):4474-82. Epub 09/23/2011.

PA28 and the proteasome immunosubunits play a central and independent role in the production of MHC class I-binding peptides in vivo.

de Graaf N, van Helden MJ, Textoris-Taube K, Chiba T, Topham DJ, Kloetzel PM, Zaiss DM, Sijts AJ

European journal of immunology.. 2011 April 41 (4):926-35. Epub 03/01/2011.

CD8+ T cell immunity to 2009 pandemic and seasonal H1N1 influenza viruses.

Scheible K, Zhang G, Baer J, Azadniv M, Lambert K, Pryhuber G, Treanor JJ, Topham DJ

Vaccine.. 2011 March 329 (11):2159-68. Epub 01/04/2011.

CD4+ T cell effects on CD8+ T cell location defined using bioluminescence.

Azadniv M, Bowers WJ, Topham DJ, Crispe IN

PloS one.. 2011 January 206 (1):e16222. Epub 01/20/2011.

Label-free, arrayed sensing of immune response to influenza antigens.

Mace CR, Topham DJ, Mosmann TR, Quataert SA, Treanor JJ, Miller BL

Talanta.. 2011 January 1583 (3):1000-5. Epub 11/10/2010.

T cell-mediated protection against lethal 2009 pandemic H1N1 influenza virus infection in a mouse model.

Guo H, Santiago F, Lambert K, Takimoto T, Topham DJ

Journal of virology.. 2011 January 85 (1):448-55. Epub 10/27/2010.

Rapid reactivation of extralymphoid CD4 T cells during secondary infection.

Chapman TJ, Lambert K, Topham DJ

PloS one.. 2011 6 (5):e20493. Epub 05/27/2011.

Cutting edge: CD4 T cells generated from encounter with seasonal influenza viruses and vaccines have broad protein specificity and can directly recognize naturally generated epitopes derived from the live pandemic H1N1 virus.

Richards KA, Topham D, Chaves FA, Sant AJ

The Journal of immunology : official journal of the American Association of Immunologists.. 2010 November 1185 (9):4998-5002. Epub 10/01/2010.

Quantifying the early immune response and adaptive immune response kinetics in mice infected with influenza A virus.

Miao H, Hollenbaugh JA, Zand MS, Holden-Wiltse J, Mosmann TR, Perelson AS, Wu H, Topham DJ

Journal of virology.. 2010 July 84 (13):6687-98. Epub 04/21/2010.

Mixed Lineage Kinase 3 deficiency delays viral clearance in the lung and is associated with diminished influenza-induced cytopathic effect in infected cells.

Desmet EA, Hollenbaugh JA, Sime PJ, Wright TW, Topham DJ, Sant AJ, Takimoto T, Dewhurst S, Maggirwar SB

Virology.. 2010 May 10400 (2):224-32. Epub 02/25/2010.

Identification of a unique population of tissue-memory CD4+ T cells in the airways after influenza infection that is dependent on the integrin VLA-1.

Chapman TJ, Topham DJ

The Journal of immunology : official journal of the American Association of Immunologists.. 2010 April 1184 (7):3841-9. Epub 03/03/2010.

Chronic inhibition of cyclooxygenase-2 attenuates antibody responses against vaccinia infection.

Bernard MP, Bancos S, Chapman TJ, Ryan EP, Treanor JJ, Rose RC, Topham DJ, Phipps RP

Vaccine.. 2010 February 328 (5):1363-72. Epub 11/24/2009.

B cell responses to H5 influenza HA in human subjects vaccinated with a drifted variant.

Baer J, Santiago F, Yang H, Wu H, Jeanne-Holden-Wiltse , Treanor J, Topham DJ

Vaccine.. 2010 January 2228 (4):907-15. Epub 11/21/2009.

Simulation and prediction of the adaptive immune response to influenza A virus infection.

Lee HY, Topham DJ, Park SY, Hollenbaugh J, Treanor J, Mosmann TR, Jin X, Ward B, Miao H, Holden-Wiltse J, Perelson AS, Zand M, Wu H

Journal of virology.. 2009 July 83 (14):7151-65. Epub 05/13/2009.

Recombinant human activated protein C inhibits integrin-mediated neutrophil migration.

Elphick GF, Sarangi PP, Hyun YM, Hollenbaugh JA, Ayala A, Biffl WL, Chung HL, Rezaie AR, McGrath JL, Topham DJ, Reichner JS, Kim M

Blood.. 2009 April 23113 (17):4078-85. Epub 02/24/2009.

The TLR9 ligand CpG promotes the acquisition of Plasmodium falciparum-specific memory B cells in malaria-naive individuals.

Crompton PD, Mircetic M, Weiss G, Baughman A, Huang CY, Topham DJ, Treanor JJ, Sanz I, Lee FE, Durbin AP, Miura K, Narum DL, Ellis RD, Malkin E, Mullen GE, Miller LH, Martin LB, Pierce SK

The Journal of immunology : official journal of the American Association of Immunologists.. 2009 March 1182 (5):3318-26. Epub 1900 01 01.

Endogenous 4-1BB ligand plays a critical role in protection from influenza-induced disease.

Lin GH, Sedgmen BJ, Moraes TJ, Snell LM, Topham DJ, Watts TH

The Journal of immunology : official journal of the American Association of Immunologists.. 2009 January 15182 (2):934-47. Epub 1900 01 01.

Frequencies of human influenza-specific antibody secreting cells or plasmablasts post vaccination from fresh and frozen peripheral blood mononuclear cells.

Kyu SY, Kobie J, Yang H, Zand MS, Topham DJ, Quataert SA, Sanz I, Lee FE

Journal of immunological methods.. 2009 January 1340 (1):42-7. Epub 11/06/2008.

Ibuprofen and other widely used non-steroidal anti-inflammatory drugs inhibit antibody production in human cells.

Bancos S, Bernard MP, Topham DJ, Phipps RP

Cellular immunology.. 2009 258 (1):18-28. Epub 04/05/2009.

Kupffer cell heterogeneity: functional properties of bone marrow derived and sessile hepatic macrophages.

Klein I, Cornejo JC, Polakos NK, John B, Wuensch SA, Topham DJ, Pierce RH, Crispe IN

Blood.. 2007 December 1110 (12):4077-85. Epub 08/09/2007.

Memory CD8+ T cells require CD28 costimulation.

Borowski AB, Boesteanu AC, Mueller YM, Carafides C, Topham DJ, Altman JD, Jennings SR, Katsikis PD

The Journal of immunology : official journal of the American Association of Immunologists.. 2007 November 15179 (10):6494-503. Epub 1900 01 01.

The alpha1beta1 integrin and TNF receptor II protect airway CD8+ effector T cells from apoptosis during influenza infection.

Richter MV, Topham DJ

The Journal of immunology : official journal of the American Association of Immunologists.. 2007 October 15179 (8):5054-63. Epub 1900 01 01.

Early intrahepatic accumulation of CD8+ T cells provides a source of effectors for nonhepatic immune responses.

Polakos NK, Klein I, Richter MV, Zaiss DM, Giannandrea M, Crispe IN, Topham DJ

The Journal of immunology : official journal of the American Association of Immunologists.. 2007 July 1179 (1):201-10. Epub 1900 01 01.

Direct ex vivo analyses of HLA-DR1 transgenic mice reveal an exceptionally broad pattern of immunodominance in the primary HLA-DR1-restricted CD4 T-cell response to influenza virus hemagglutinin.

Richards KA, Chaves FA, Krafcik FR, Topham DJ, Lazarski CA, Sant AJ

Journal of virology.. 2007 July 81 (14):7608-19. Epub 05/16/2007.

Collagen distribution and expression of collagen-binding alpha1beta1 (VLA-1) and alpha2beta1 (VLA-2) integrins on CD4 and CD8 T cells during influenza infection.

Richter M, Ray SJ, Chapman TJ, Austin SJ, Rebhahn J, Mosmann TR, Gardner H, Kotelianski V, deFougerolles AR, Topham DJ

The Journal of immunology : official journal of the American Association of Immunologists.. 2007 April 1178 (7):4506-16. Epub 1900 01 01.

Immune responses to vaccinia and influenza elicited during primary versus recent or distant secondary smallpox vaccination of adults.

Treanor J, Wu H, Liang H, Topham DJ

Vaccine.. 2006 November 1724 (47-48):6913-23. Epub 06/21/2006.

Generation of T cell help through a MHC class I-restricted TCR.

Kessels HW, Schepers K, van den Boom MD, Topham DJ, Schumacher TN

The Journal of immunology : official journal of the American Association of Immunologists.. 2006 July 15177 (2):976-82. Epub 1900 01 01.

Kupffer cell-dependent hepatitis occurs during influenza infection.

Polakos NK, Cornejo JC, Murray DA, Wright KO, Treanor JJ, Crispe IN, Topham DJ, Pierce RH

The American journal of pathology.. 2006 April 168 (4):1169-78; quiz 1404-5. Epub 1900 01 01.

Lymphoid and extralymphoid CD4 T cells that orchestrate the antiviral immune response.

Topham DJ, Chapman TJ, Richter M

Expert review of clinical immunology.. 2006 March 2 (2):267-76. Epub 1900 01 01.

Protein vaccines induce uncommitted IL-2-secreting human and mouse CD4 T cells, whereas infections induce more IFN-gamma-secreting cells.

Divekar AA, Zaiss DM, Lee FE, Liu D, Topham DJ, Sijts AJ, Mosmann TR

The Journal of immunology : official journal of the American Association of Immunologists.. 2006 February 1176 (3):1465-73. Epub 1900 01 01.

Optical detection of single nanoparticles and viruses.

Ignatovich F.V.; Topham D.; and Novotny L.

Journal of Selected Topics in Quantum Electronics, Special Issue on Nanophotonics. 2006; 12(6): 1292-1300.

Antigen-specific and non-specific CD4+ T cell recruitment and proliferation during influenza infection.

Chapman TJ, Castrucci MR, Padrick RC, Bradley LM, Topham DJ

Virology.. 2005 September 30340 (2):296-306. Epub 1900 01 01.

Susceptibility to allergic lung disease regulated by recall responses of dual-receptor memory T cells.

Aronica MA, Swaidani S, Zhang YH, Mitchell D, Mora AL, McCarthy S, O'Neal J, Topham D, Sheller JR, Boothby M

The Journal of allergy and clinical immunology.. 2004 December 114 (6):1441-8. Epub 1900 01 01.

The collagen binding alpha1beta1 integrin VLA-1 regulates CD8 T cell-mediated immune protection against heterologous influenza infection.

Ray SJ, Franki SN, Pierce RH, Dimitrova S, Koteliansky V, Sprague AG, Doherty PC, de Fougerolles AR, Topham DJ

Immunity.. 2004 February 20 (2):167-79. Epub 1900 01 01.

An early CD4+ T cell-dependent immunoglobulin A response to influenza infection in the absence of key cognate T-B interactions.

Sangster MY, Riberdy JM, Gonzalez M, Topham DJ, Baumgarth N, Doherty PC

The Journal of experimental medicine.. 2003 October 6198 (7):1011-21. Epub 09/29/2003.

Contrasting urban and rural lifestyles of memory CD8+ T cells.

Topham DJ, Crispe IN

Immunity.. 2003 May 18 (5):584-6. Epub 1900 01 01.

The role of antigen in the localization of naive, acutely activated, and memory CD8(+) T cells to the lung during influenza pneumonia.

Topham DJ, Castrucci MR, Wingo FS, Belz GT, Doherty PC

The Journal of immunology : official journal of the American Association of Immunologists.. 2001 December 15167 (12):6983-90. Epub 1900 01 01.

Perforin and Fas in murine gammaherpesvirus-specific CD8(+) T cell control and morbidity.

Topham DJ, Cardin RC, Christensen JP, Brooks JW, Belz GT, Doherty PC

The Journal of general virology.. 2001 August 82 (Pt 8):1971-1981. Epub 1900 01 01.

Analysis of the virus-specific and nonspecific B cell response to a persistent B-lymphotropic gammaherpesvirus.

Sangster MY, Topham DJ, D'Costa S, Cardin RD, Marion TN, Myers LK, Doherty PC

The Journal of immunology : official journal of the American Association of Immunologists.. 2000 February 15164 (4):1820-8. Epub 1900 01 01.

SOCS1 deficiency causes a lymphocyte-dependent perinatal lethality.

Marine JC, Topham DJ, McKay C, Wang D, Parganas E, Stravopodis D, Yoshimura A, Ihle JN

Cell.. 1999 September 398 (5):609-16. Epub 1900 01 01.

SOCS3 is essential in the regulation of fetal liver erythropoiesis.

Marine JC, McKay C, Wang D, Topham DJ, Parganas E, Nakajima H, Pendeville H, Yasukawa H, Sasaki A, Yoshimura A, Ihle JN

Cell.. 1999 September 398 (5):617-27. Epub 1900 01 01.

Stat5 activation is uniquely associated with cytokine signaling in peripheral T cells.

Moriggl R, Sexl V, Piekorz R, Topham D, Ihle JN

Immunity.. 1999 August 11 (2):225-30. Epub 1900 01 01.

Stat5 is required for IL-2-induced cell cycle progression of peripheral T cells.

Moriggl R, Topham DJ, Teglund S, Sexl V, McKay C, Wang D, Hoffmeyer A, van Deursen J, Sangster MY, Bunting KD, Grosveld GC, Ihle JN

Immunity.. 1999 February 10 (2):249-59. Epub 1900 01 01.

Differential roles of cytokine signaling during T-cell development.

Moriggl R, Marine JC, Topham DJ, Teglund S, Sexl V, McKay C, Piekorz R, Wang D, Parganas E, Yoshimura A, Ihle JN

Cold Spring Harbor symposia on quantitative biology.. 1999 64 :389-95. Epub 1900 01 01.

Longitudinal analysis of the acute Sendai virus-specific CD4+ T cell response and memory.

Topham DJ, Doherty PC

The Journal of immunology : official journal of the American Association of Immunologists.. 1998 November 1161 (9):4530-5. Epub 1900 01 01.

Thymic lymphoproliferative disease after successful correction of CD40 ligand deficiency by gene transfer in mice.

Brown MP, Topham DJ, Sangster MY, Zhao J, Flynn KJ, Surman SL, Woodland DL, Doherty PC, Farr AG, Pattengale PK, Brenner MK

Nature medicine.. 1998 November 4 (11):1253-60. Epub 1900 01 01.

Jak2 is essential for signaling through a variety of cytokine receptors.

Parganas E, Wang D, Stravopodis D, Topham DJ, Marine JC, Teglund S, Vanin EF, Bodner S, Colamonici OR, van Deursen JM, Grosveld G, Ihle JN

Cell.. 1998 May 193 (3):385-95. Epub 1900 01 01.

Clearance of an influenza A virus by CD4+ T cells is inefficient in the absence of B cells.

Topham DJ, Doherty PC

Journal of virology.. 1998 January 72 (1):882-5. Epub 1900 01 01.

CD8+ T cells clear influenza virus by perforin or Fas-dependent processes.

Topham DJ, Tripp RA, Doherty PC

The Journal of immunology : official journal of the American Association of Immunologists.. 1997 December 1159 (11):5197-200. Epub 1900 01 01.

Consequences of viral infections for lymphocyte compartmentalization and homeostasis.

Doherty PC, Hamilton-Easton AM, Topham DJ, Riberdy J, Brooks JW, Cardin RD

Seminars in immunology.. 1997 December 9 (6):365-73. Epub 1900 01 01.

Effector CD4+ and CD8+ T-cell mechanisms in the control of respiratory virus infections.

Doherty PC, Topham DJ, Tripp RA, Cardin RD, Brooks JW, Stevenson PG

Immunological reviews.. 1997 October 159 :105-17. Epub 1900 01 01.

Bone marrow can function as a lymphoid organ during a primary immune response under conditions of disrupted lymphocyte trafficking.

Tripp RA, Topham DJ, Watson SR, Doherty PC

The Journal of immunology : official journal of the American Association of Immunologists.. 1997 April 15158 (8):3716-20. Epub 1900 01 01.

Quantitative analysis of the influenza virus-specific CD4+ T cell memory in the absence of B cells and Ig.

Topham DJ, Tripp RA, Hamilton-Easton AM, Sarawar SR, Doherty PC

The Journal of immunology : official journal of the American Association of Immunologists.. 1996 October 1157 (7):2947-52. Epub 1900 01 01.

Vaccination with peptides from MHC class II beta chain hypervariable region causes allele-specific suppression of EAE.

Bright JJ, Topham DJ, Nag B, Lodge PA, Sriram S

Journal of neuroimmunology.. 1996 July 67 (2):119-24. Epub 1900 01 01.

Establishment and persistence of virus-specific CD4+ and CD8+ T cell memory.

Doherty PC, Topham DJ, Tripp RA

Immunological reviews.. 1996 April 150 :23-44. Epub 1900 01 01.

Immune CD4+ T cells promote the clearance of influenza virus from major histocompatibility complex class II -/- respiratory epithelium.

Topham DJ, Tripp RA, Sarawar SR, Sangster MY, Doherty PC

Journal of virology.. 1996 February 70 (2):1288-91. Epub 1900 01 01.

TGF-beta 2 decreases migration of lymphocytes in vitro and homing of cells into the central nervous system in vivo.

Fabry Z, Topham DJ, Fee D, Herlein J, Carlino JA, Hart MN, Sriram S

The Journal of immunology : official journal of the American Association of Immunologists.. 1995 July 1155 (1):325-32. Epub 1900 01 01.

Prevalence and activation phenotype of Sendai virus-specific CD4+ T cells.

Ewing C, Topham DJ, Doherty PC

Virology.. 1995 June 20210 (1):179-85. Epub 1900 01 01.

A synthetic peptide from the third hypervariable region of major histocompatibility complex class II beta chain as a vaccine for treatment of experimental autoimmune encephalomyelitis.

Topham DJ, Nag B, Arimilli S, Sriram S

Proceedings of the National Academy of Sciences of the United States of America.. 1994 August 1691 (17):8005-9. Epub 1900 01 01.

In vivo administration of TNF-alpha prevents EMC-M virus induced viral encephalitis.

Sriram S, Topham DJ, Carroll L, Shenoy M, Adesina A, Craighead JE

International immunology.. 1991 July 3 (7):641-5. Epub 1900 01 01.

Indirect role of T cells in development of polioencephalitis and encephalomyelitis induced by encephalomyocarditis virus.

Topham DJ, Adesina A, Shenoy M, Craighead JE, Sriram S

Journal of virology.. 1991 June 65 (6):3238-45. Epub 1900 01 01.

Treatment of encephalomyocarditis virus-induced central nervous system demyelination with monoclonal anti-T-cell antibodies.

Sriram S, Topham DJ, Huang SK, Rodriguez M

Journal of virology.. 1989 October 63 (10):4242-8. Epub 1900 01 01.

Haplotype-specific suppression of experimental allergic encephalomyelitis with anti-IA antibodies.

Sriram S, Topham DJ, Carroll L

The Journal of immunology : official journal of the American Association of Immunologists.. 1987 September 1139 (5):1485-9. Epub 1900 01 01.

Books

Effector Memory T cell Subsets in the Extralymphatic Tissue (2009)

Chapter: The Role of VLA-1 in Maintaining Virus-specific T cells in Peripheral Non-lymphoid Tissues

Authors: David J. Topham, Timothy R. Chapman, Martin Richter, and Joseph A. Hollenbaugh

Publisher: Research Signpost, Kerala, India 2009