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Clustering of Activated CD8 T Cells Around Malaria-Infected Hepatocytes Is Rapid and Is Driven by Antigen-Specific Cells.

Kelemen RK, Rajakaruna H, Cockburn IA, Ganusov VV.

Front Immunol. 2019 Sep 20;10:2153. doi: 10.3389/fimmu.2019.02153. eCollection 2019.


Erratum for Hoft et al., "The Rate of CD4 T Cell Entry into the Lungs during Mycobacterium tuberculosis Infection Is Determined by Partial and Opposing Effects of Multiple Chemokine Receptors".

Hoft SG, Sallin MA, Kauffman KD, Sakai S, Ganusov VV, Barber DL.

Infect Immun. 2019 Aug 21;87(9). pii: e00491-19. doi: 10.1128/IAI.00491-19. Print 2019 Sep. No abstract available.


Estimating Residence Times of Lymphocytes in Ovine Lymph Nodes.

McDaniel MM, Ganusov VV.

Front Immunol. 2019 Jul 16;10:1492. doi: 10.3389/fimmu.2019.01492. eCollection 2019.


T follicular helper cells in human efferent lymph retain lymphoid characteristics.

Vella LA, Buggert M, Manne S, Herati RS, Sayin I, Kuri-Cervantes L, Bukh Brody I, O'Boyle KC, Kaprielian H, Giles JR, Nguyen S, Muselman A, Antel JP, Bar-Or A, Johnson ME, Canaday DH, Naji A, Ganusov VV, Laufer TM, Wells AD, Dori Y, Itkin MG, Betts MR, Wherry EJ.

J Clin Invest. 2019 Jul 2;129(8):3185-3200. doi: 10.1172/JCI125628. eCollection 2019 Jul 2.


The Rate of CD4 T Cell Entry into the Lungs during Mycobacterium tuberculosis Infection Is Determined by Partial and Opposing Effects of Multiple Chemokine Receptors.

Hoft SG, Sallin MA, Kauffman KD, Sakai S, Ganusov VV, Barber DL.

Infect Immun. 2019 May 21;87(6). pii: e00841-18. doi: 10.1128/IAI.00841-18. Print 2019 Jun. Erratum in: Infect Immun. 2019 Aug 21;87(9):.


Defining Kinetic Properties of HIV-Specific CD8⁺ T-Cell Responses in Acute Infection.

Yang Y, Ganusov VV.

Microorganisms. 2019 Mar 4;7(3). pii: E69. doi: 10.3390/microorganisms7030069.


Editorial: Integrative Computational Systems Biology Approaches in Immunology and Medicine.

Kaderali L, Theis F, Ganusov VV, Ciupe SM, Mehr R, Ribeiro RM, Hernandez-Vargas EA.

Front Microbiol. 2019 Jan 23;9:3338. doi: 10.3389/fmicb.2018.03338. eCollection 2018. No abstract available.


Cutting Edge: IL-1R1 Mediates Host Resistance to Mycobacterium tuberculosis by Trans-Protection of Infected Cells.

Bohrer AC, Tocheny C, Assmann M, Ganusov VV, Mayer-Barber KD.

J Immunol. 2018 Sep 15;201(6):1645-1650. doi: 10.4049/jimmunol.1800438. Epub 2018 Aug 1.


Tracking HIV-1 recombination to resolve its contribution to HIV-1 evolution in natural infection.

Song H, Giorgi EE, Ganusov VV, Cai F, Athreya G, Yoon H, Carja O, Hora B, Hraber P, Romero-Severson E, Jiang C, Li X, Wang S, Li H, Salazar-Gonzalez JF, Salazar MG, Goonetilleke N, Keele BF, Montefiori DC, Cohen MS, Shaw GM, Hahn BH, McMichael AJ, Haynes BF, Korber B, Bhattacharya T, Gao F.

Nat Commun. 2018 May 15;9(1):1928. doi: 10.1038/s41467-018-04217-5.


Kinetics of HIV-Specific CTL Responses Plays a Minimal Role in Determining HIV Escape Dynamics.

Yang Y, Ganusov VV.

Front Immunol. 2018 Feb 8;9:140. doi: 10.3389/fimmu.2018.00140. eCollection 2018.


Severe Tuberculosis in Humans Correlates Best with Neutrophil Abundance and Lymphocyte Deficiency and Does Not Correlate with Antigen-Specific CD4 T-Cell Response.

Panteleev AV, Nikitina IY, Burmistrova IA, Kosmiadi GA, Radaeva TV, Amansahedov RB, Sadikov PV, Serdyuk YV, Larionova EE, Bagdasarian TR, Chernousova LN, Ganusov VV, Lyadova IV.

Front Immunol. 2017 Aug 21;8:963. doi: 10.3389/fimmu.2017.00963. eCollection 2017.


Up-regulation of LFA-1 allows liver-resident memory T cells to patrol and remain in the hepatic sinusoids.

McNamara HA, Cai Y, Wagle MV, Sontani Y, Roots CM, Miosge LA, O'Connor JH, Sutton HJ, Ganusov VV, Heath WR, Bertolino P, Goodnow CG, Parish IA, Enders A, Cockburn IA.

Sci Immunol. 2017 Mar;2(9). pii: eaaj1996. doi: 10.1126/sciimmunol.aaj1996. Epub 2017 Mar 17.


Immunologic and Virologic Mechanisms for Partial Protection from Intravenous Challenge by an Integration-Defective SIV Vaccine.

Wang C, Jiang C, Gao N, Zhang K, Liu D, Wang W, Cong Z, Qin C, Ganusov VV, Ferrari G, LaBranche C, Montefiori DC, Kong W, Yu X, Gao F.

Viruses. 2017 Jun 2;9(6). pii: E135. doi: 10.3390/v9060135.


Strong Inference in Mathematical Modeling: A Method for Robust Science in the Twenty-First Century.

Ganusov VV.

Front Microbiol. 2016 Jul 22;7:1131. doi: 10.3389/fmicb.2016.01131. eCollection 2016.


Quantifying Limits on Replication, Death, and Quiescence of Mycobacterium tuberculosis in Mice.

McDaniel MM, Krishna N, Handagama WG, Eda S, Ganusov VV.

Front Microbiol. 2016 Jun 14;7:862. doi: 10.3389/fmicb.2016.00862. eCollection 2016.


CD4 T Cell-Derived IFN-γ Plays a Minimal Role in Control of Pulmonary Mycobacterium tuberculosis Infection and Must Be Actively Repressed by PD-1 to Prevent Lethal Disease.

Sakai S, Kauffman KD, Sallin MA, Sharpe AH, Young HA, Ganusov VV, Barber DL.

PLoS Pathog. 2016 May 31;12(5):e1005667. doi: 10.1371/journal.ppat.1005667. eCollection 2016 May.


Broad CTL Response in Early HIV Infection Drives Multiple Concurrent CTL Escapes.

Leviyang S, Ganusov VV.

PLoS Comput Biol. 2015 Oct 27;11(10):e1004492. doi: 10.1371/journal.pcbi.1004492. eCollection 2015 Oct.


Simple mathematical models do not accurately predict early SIV dynamics.

Noecker C, Schaefer K, Zaccheo K, Yang Y, Day J, Ganusov VV.

Viruses. 2015 Mar 13;7(3):1189-217. doi: 10.3390/v7031189.


Mathematical modeling provides kinetic details of the human immune response to vaccination.

Le D, Miller JD, Ganusov VV.

Front Cell Infect Microbiol. 2015 Jan 9;4:177. doi: 10.3389/fcimb.2014.00177. eCollection 2014.


Plasmodium suppresses expansion of T cell responses to heterologous infections.

White CE, Villarino NF, Sloan SS, Ganusov VV, Schmidt NW.

J Immunol. 2015 Jan 15;194(2):697-708. doi: 10.4049/jimmunol.1401745. Epub 2014 Dec 10.


Classification of T cell movement tracks allows for prediction of cell function.

Kelemen RK, He GF, Woo HL, Lane T, Rempe C, Wang J, Cockburn IA, Amino R, Ganusov VV, Berry MW.

Int J Comput Biol Drug Des. 2014;7(2-3):113-29. doi: 10.1504/IJCBDD.2014.061655. Epub 2014 May 28.


Mathematical modeling reveals kinetics of lymphocyte recirculation in the whole organism.

Ganusov VV, Auerbach J.

PLoS Comput Biol. 2014 May 15;10(5):e1003586. doi: 10.1371/journal.pcbi.1003586. eCollection 2014 May.


Cellular and population plasticity of helper CD4(+) T cell responses.

Magombedze G, Reddy PB, Eda S, Ganusov VV.

Front Physiol. 2013 Aug 16;4:206. doi: 10.3389/fphys.2013.00206. eCollection 2013.


In vivo imaging of CD8+ T cell-mediated elimination of malaria liver stages.

Cockburn IA, Amino R, Kelemen RK, Kuo SC, Tse SW, Radtke A, Mac-Daniel L, Ganusov VV, Zavala F, Ménard R.

Proc Natl Acad Sci U S A. 2013 May 28;110(22):9090-5. doi: 10.1073/pnas.1303858110. Epub 2013 May 14.


Mathematical modeling of escape of HIV from cytotoxic T lymphocyte responses.

Ganusov VV, Neher RA, Perelson AS.

J Stat Mech. 2013 Jan 1;2013:P01010.


Vertical T cell immunodominance and epitope entropy determine HIV-1 escape.

Liu MK, Hawkins N, Ritchie AJ, Ganusov VV, Whale V, Brackenridge S, Li H, Pavlicek JW, Cai F, Rose-Abrahams M, Treurnicht F, Hraber P, Riou C, Gray C, Ferrari G, Tanner R, Ping LH, Anderson JA, Swanstrom R; CHAVI Core B, Cohen M, Karim SS, Haynes B, Borrow P, Perelson AS, Shaw GM, Hahn BH, Williamson C, Korber BT, Gao F, Self S, McMichael A, Goonetilleke N.

J Clin Invest. 2013 Jan;123(1):380-93. doi: 10.1172/JCI65330. Epub 2012 Dec 10.


A mechanistic model for bromodeoxyuridine dilution naturally explains labelling data of self-renewing T cell populations.

Ganusov VV, De Boer RJ.

J R Soc Interface. 2013 Jan 6;10(78):20120617. doi: 10.1098/rsif.2012.0617. Epub 2012 Nov 8. Erratum in: J R Soc Interface. 2013 May 6;10(82):20130100.


Mtb-specific CD27low CD4 T cells as markers of lung tissue destruction during pulmonary tuberculosis in humans.

Nikitina IY, Kondratuk NA, Kosmiadi GA, Amansahedov RB, Vasilyeva IA, Ganusov VV, Lyadova IV.

PLoS One. 2012;7(8):e43733. doi: 10.1371/journal.pone.0043733. Epub 2012 Aug 24.


Evolution of viral life-cycle in response to cytotoxic T lymphocyte-mediated immunity.

Louzoun Y, Ganusov VV.

J Theor Biol. 2012 Oct 7;310:3-13. doi: 10.1016/j.jtbi.2012.06.020. Epub 2012 Jun 23.


Early low-titer neutralizing antibodies impede HIV-1 replication and select for virus escape.

Bar KJ, Tsao CY, Iyer SS, Decker JM, Yang Y, Bonsignori M, Chen X, Hwang KK, Montefiori DC, Liao HX, Hraber P, Fischer W, Li H, Wang S, Sterrett S, Keele BF, Ganusov VV, Perelson AS, Korber BT, Georgiev I, McLellan JS, Pavlicek JW, Gao F, Haynes BF, Hahn BH, Kwong PD, Shaw GM.

PLoS Pathog. 2012;8(5):e1002721. doi: 10.1371/journal.ppat.1002721. Epub 2012 May 31.


Distinct kinetics of Gag-specific CD4+ and CD8+ T cell responses during acute HIV-1 infection.

Riou C, Ganusov VV, Campion S, Mlotshwa M, Liu MK, Whale VE, Goonetilleke N, Borrow P, Ferrari G, Betts MR, Haynes BF, McMichael AJ, Gray CM.

J Immunol. 2012 Mar 1;188(5):2198-206. doi: 10.4049/jimmunol.1102813. Epub 2012 Jan 27.


Fitness costs and diversity of the cytotoxic T lymphocyte (CTL) response determine the rate of CTL escape during acute and chronic phases of HIV infection.

Ganusov VV, Goonetilleke N, Liu MK, Ferrari G, Shaw GM, McMichael AJ, Borrow P, Korber BT, Perelson AS.

J Virol. 2011 Oct;85(20):10518-28. doi: 10.1128/JVI.00655-11. Epub 2011 Aug 10.


Killing of targets by CD8 T cells in the mouse spleen follows the law of mass action.

Ganusov VV, Barber DL, De Boer RJ.

PLoS One. 2011 Jan 24;6(1):e15959. doi: 10.1371/journal.pone.0015959.


Stochastic models of lymphocyte proliferation and death.

Zilman A, Ganusov VV, Perelson AS.

PLoS One. 2010 Sep 30;5(9). pii: e12775. doi: 10.1371/journal.pone.0012775. Review.


Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing.

Fischer W, Ganusov VV, Giorgi EE, Hraber PT, Keele BF, Leitner T, Han CS, Gleasner CD, Green L, Lo CC, Nag A, Wallstrom TC, Wang S, McMichael AJ, Haynes BF, Hahn BH, Perelson AS, Borrow P, Shaw GM, Bhattacharya T, Korber BT.

PLoS One. 2010 Aug 20;5(8):e12303. doi: 10.1371/journal.pone.0012303.


Persistence of viral infection despite similar killing efficacy of antiviral CD8(+) T cells during acute and chronic phases of infection.

Ganusov VV, Lukacher AE, Byers AM.

Virology. 2010 Sep 15;405(1):193-200. doi: 10.1016/j.virol.2010.05.029. Epub 2010 Jun 26.


In mice, tuberculosis progression is associated with intensive inflammatory response and the accumulation of Gr-1 cells in the lungs.

Lyadova IV, Tsiganov EN, Kapina MA, Shepelkova GS, Sosunov VV, Radaeva TV, Majorov KB, Shmitova NS, van den Ham HJ, Ganusov VV, De Boer RJ, Racine R, Winslow GM.

PLoS One. 2010 May 4;5(5):e10469. doi: 10.1371/journal.pone.0010469.


Explicit kinetic heterogeneity: mathematical models for interpretation of deuterium labeling of heterogeneous cell populations.

Ganusov VV, Borghans JA, De Boer RJ.

PLoS Comput Biol. 2010 Feb 5;6(2):e1000666. doi: 10.1371/journal.pcbi.1000666.


The first T cell response to transmitted/founder virus contributes to the control of acute viremia in HIV-1 infection.

Goonetilleke N, Liu MK, Salazar-Gonzalez JF, Ferrari G, Giorgi E, Ganusov VV, Keele BF, Learn GH, Turnbull EL, Salazar MG, Weinhold KJ, Moore S; CHAVI Clinical Core B, Letvin N, Haynes BF, Cohen MS, Hraber P, Bhattacharya T, Borrow P, Perelson AS, Hahn BH, Shaw GM, Korber BT, McMichael AJ.

J Exp Med. 2009 Jun 8;206(6):1253-72. doi: 10.1084/jem.20090365. Epub 2009 Jun 1.


Lymphocyte kinetics in health and disease.

Asquith B, Borghans JA, Ganusov VV, Macallan DC.

Trends Immunol. 2009 Apr;30(4):182-9. doi: 10.1016/ Epub 2009 Mar 13. Review. Erratum in: Trends Immunol. 2009 Oct;30(10):467.


Estimating in vivo death rates of targets due to CD8 T-cell-mediated killing.

Ganusov VV, De Boer RJ.

J Virol. 2008 Dec;82(23):11749-57. doi: 10.1128/JVI.01128-08. Epub 2008 Sep 24.


Do most lymphocytes in humans really reside in the gut?

Ganusov VV, De Boer RJ.

Trends Immunol. 2007 Dec;28(12):514-8. Epub 2007 Oct 26. Review.


Dynamics of CD8+ T cell responses during acute and chronic lymphocytic choriomeningitis virus infection.

Althaus CL, Ganusov VV, De Boer RJ.

J Immunol. 2007 Sep 1;179(5):2944-51.


Estimating lymphocyte division and death rates from CFSE data.

De Boer RJ, Ganusov VV, Milutinović D, Hodgkin PD, Perelson AS.

Bull Math Biol. 2006 Jul;68(5):1011-31. Epub 2006 May 16.


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