메뉴 건너뛰기




Volumn 2, Issue 4, 2015, Pages

Designing and interpreting limiting dilution assays: General principles and applications to the latent reservoir for human immunodeficiency virus-1

Author keywords

Dilution assay; HIV; Latent reservoir; Maximum likelihood statistics; Viral outgrowth

Indexed keywords

ASSAY; CD4 LYMPHOCYTE COUNT; DISEASE CARRIER; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1 INFECTION; LATENT VIRUS INFECTION; LIMIT OF DETECTION; LIMIT OF QUANTITATION; LIMITING DILUTION ASSAY; MAXIMUM LIKELIHOOD METHOD; MEDICAL RESEARCH; NONHUMAN; PRIORITY JOURNAL; REVIEW; STATISTICAL SIGNIFICANCE; VIRUS LATENCY; VIRUS REPLICATION;

EID: 85014373238     PISSN: None     EISSN: 23288957     Source Type: Journal    
DOI: 10.1093/ofid/ofv123     Document Type: Review
Times cited : (108)

References (35)
  • 1
    • 14444273439 scopus 로고    scopus 로고
    • Identification of a reservoir for HIV-1 in patients on highly active antiretroviral therapy
    • Finzi D, HermankovaM, Pierson T, et al. Identification of a reservoir for HIV-1 in patients on highly active antiretroviral therapy. Science 1997; 278:1295-300.
    • (1997) Science , vol.278 , pp. 1295-1300
    • Finzi, D.1    Hermankova, M.2    Pierson, T.3
  • 2
    • 0038579210 scopus 로고    scopus 로고
    • Long-term follow-up studies confirm the stability of the latent reservoir for HIV-1 in resting CD4+ T cells
    • Siliciano JD, Kajdas J, Finzi D, et al. Long-term follow-up studies confirm the stability of the latent reservoir for HIV-1 in resting CD4+ T cells. Nat Med 2003; 9:727-8.
    • (2003) Nat Med , vol.9 , pp. 727-728
    • Siliciano, J.D.1    Kajdas, J.2    Finzi, D.3
  • 3
    • 84886769508 scopus 로고    scopus 로고
    • Replication-competent noninduced proviruses in the latent reservoir increase barrier to HIV-1 cure
    • Ho Y-C, Shan L, Hosmane NN, et al. Replication-competent noninduced proviruses in the latent reservoir increase barrier to HIV-1 cure. Cell 2013; 155:540-51.
    • (2013) Cell , vol.155 , pp. 540-551
    • Ho, Y.-C.1    Shan, L.2    Hosmane, N.N.3
  • 4
    • 84873472629 scopus 로고    scopus 로고
    • Comparative analysis of measures of viral reservoirs in HIV-1 eradication studies
    • Eriksson S, Graf EH, Dahl V, et al. Comparative analysis of measures of viral reservoirs in HIV-1 eradication studies. PLoS Pathog 2013; 9: e1003174.
    • (2013) PLoS Pathog , vol.9
    • Eriksson, S.1    Graf, E.H.2    Dahl, V.3
  • 5
    • 84922249841 scopus 로고    scopus 로고
    • HIV-1 integration landscape during latent and active infection
    • Cohn LB, Silva IT, Oliveira TY, et al. HIV-1 integration landscape during latent and active infection. Cell 2015; 160:420-32.
    • (2015) Cell , vol.160 , pp. 420-432
    • Cohn, L.B.1    Silva, I.T.2    Oliveira, T.Y.3
  • 7
    • 0001735517 scopus 로고
    • On the mathematical foundations of theoretical statistics
    • Fisher RA. On the mathematical foundations of theoretical statistics. Phil Trans R Soc A 1922; 222:309-68.
    • (1922) Phil Trans R Soc A , vol.222 , pp. 309-368
    • Fisher, R.A.1
  • 8
    • 60549090253 scopus 로고    scopus 로고
    • Long-term control of HIV by CCR5 Delta32/Delta32 stem-cell transplantation
    • Hütter G, Nowak D, Mossner M, et al. Long-term control of HIV by CCR5 Delta32/Delta32 stem-cell transplantation. N Engl J Med 2009; 360:692-8.
    • (2009) N Engl J Med , vol.360 , pp. 692-698
    • Hütter, G.1    Nowak, D.2    Mossner, M.3
  • 9
    • 84864203255 scopus 로고    scopus 로고
    • Administration of vorinostat disrupts HIV-1 latency in patients on antiretroviral therapy
    • Archin NM, Liberty AL, Kashuba AD, et al. Administration of vorinostat disrupts HIV-1 latency in patients on antiretroviral therapy. Nature 2012; 487:482-5.
    • (2012) Nature , vol.487 , pp. 482-485
    • Archin, N.M.1    Liberty, A.L.2    Kashuba, A.D.3
  • 10
    • 84877278315 scopus 로고    scopus 로고
    • Long-term reduction in peripheral blood HIV type 1 reservoirs following reduced-intensity conditioning allogeneic stem cell transplantation
    • Henrich TJ, Hu Z, Li JZ, et al. Long-term reduction in peripheral blood HIV type 1 reservoirs following reduced-intensity conditioning allogeneic stem cell transplantation. J Infect Dis 2013; 207:1694-702.
    • (2013) J Infect Dis , vol.207 , pp. 1694-1702
    • Henrich, T.J.1    Hu, Z.2    Li, J.Z.3
  • 11
    • 84887028999 scopus 로고    scopus 로고
    • Absence of detectable HIV-1 viremia after treatment cessation in an infant
    • Persaud D, Gay H, Ziemniak C, et al. Absence of detectable HIV-1 viremia after treatment cessation in an infant. N Engl J Med 2013; 369:1828-35.
    • (2013) N Engl J Med , vol.369 , pp. 1828-1835
    • Persaud, D.1    Gay, H.2    Ziemniak, C.3
  • 12
    • 84878503062 scopus 로고    scopus 로고
    • Challenges in detecting HIV persistence during potentially curative interventions: a study of the Berlin patient
    • Yukl SA, Boritz E, Busch M, et al. Challenges in detecting HIV persistence during potentially curative interventions: a study of the Berlin patient. PLoS Pathog 2013; 9:e1003347.
    • (2013) PLoS Pathog , vol.9
    • Yukl, S.A.1    Boritz, E.2    Busch, M.3
  • 13
    • 84898423894 scopus 로고    scopus 로고
    • New ex vivo approaches distinguish effective and ineffective single agents for reversing HIV-1 latency in vivo
    • Bullen CK, Laird GM, Durand CM, et al. New ex vivo approaches distinguish effective and ineffective single agents for reversing HIV-1 latency in vivo. Nat Med 2014; 20:425-9.
    • (2014) Nat Med , vol.20 , pp. 425-429
    • Bullen, C.K.1    Laird, G.M.2    Durand, C.M.3
  • 14
    • 84923064466 scopus 로고    scopus 로고
    • Viremic relapse after HIV-1 remission in a perinatally infected child
    • Luzuriaga K, Gay H, Ziemniak C, et al. Viremic relapse after HIV-1 remission in a perinatally infected child. N Engl J Med 2015; 372:786-8.
    • (2015) N Engl J Med , vol.372 , pp. 786-788
    • Luzuriaga, K.1    Gay, H.2    Ziemniak, C.3
  • 15
    • 84878482232 scopus 로고    scopus 로고
    • Rapid quantification of the latent reservoir for HIV-1 using a viral outgrowth assay
    • Laird GM, Eisele EE, Rabi SA, et al. Rapid quantification of the latent reservoir for HIV-1 using a viral outgrowth assay. PLoS Pathog 2013; 9: e1003398.
    • (2013) PLoS Pathog , vol.9
    • Laird, G.M.1    Eisele, E.E.2    Rabi, S.A.3
  • 16
    • 84893710050 scopus 로고    scopus 로고
    • Human memory T cells: generation, compartmentalization and homeostasis
    • Farber DL, Yudanin NA, Restifo NP. Human memory T cells: generation, compartmentalization and homeostasis. Nat Rev Immunol 2014; 14:24-35.
    • (2014) Nat Rev Immunol , vol.14 , pp. 24-35
    • Farber, D.L.1    Yudanin, N.A.2    Restifo, N.P.3
  • 17
    • 0020067009 scopus 로고
    • The evaluation of limiting dilution assays
    • de St Groth F. The evaluation of limiting dilution assays. J Immunol Methods 1982; 49:R11-23.
    • (1982) J Immunol Methods , vol.49 , pp. R11-R23
    • de St Groth, F.1
  • 18
    • 0032417679 scopus 로고    scopus 로고
    • Implementable Bayesian designs for limiting dilution assays
    • Mehrabi Y, Matthews JN. Implementable Bayesian designs for limiting dilution assays. Biometrics 1998; 54:1398-406.
    • (1998) Biometrics , vol.54 , pp. 1398-1406
    • Mehrabi, Y.1    Matthews, J.N.2
  • 19
    • 24944518559 scopus 로고    scopus 로고
    • Enhanced culture assay for detection and quantitation of latently infected, resting CD4+ T-cells carrying replication-competent virus in HIV-1-infected individuals
    • Siliciano JD, Siliciano RF. Enhanced culture assay for detection and quantitation of latently infected, resting CD4+ T-cells carrying replication-competent virus in HIV-1-infected individuals. Methods Mol Biol 2005; 304:3-15.
    • (2005) Methods Mol Biol , vol.304 , pp. 3-15
    • Siliciano, J.D.1    Siliciano, R.F.2
  • 20
    • 67650444760 scopus 로고    scopus 로고
    • ELDA: extreme limiting dilution analysis for comparing depleted and enriched populations in stem cell and other assays
    • Hu Y, Smyth GK. ELDA: extreme limiting dilution analysis for comparing depleted and enriched populations in stem cell and other assays. J Immunol Methods 2009; 347:70-8.
    • (2009) J Immunol Methods , vol.347 , pp. 70-78
    • Hu, Y.1    Smyth, G.K.2
  • 21
    • 84893761231 scopus 로고    scopus 로고
    • HIV-1 persistence in CD4(+) T cells with stem cell-like properties
    • Buzón MJ, Sun H, Li C, et al. HIV-1 persistence in CD4(+) T cells with stem cell-like properties. Nat Med 2014; 20:139-42.
    • (2014) Nat Med , vol.20 , pp. 139-142
    • Buzón, M.J.1    Sun, H.2    Li, C.3
  • 22
    • 84907240033 scopus 로고    scopus 로고
    • Predicting the outcomes of treatment to eradicate the latent reservoir for HIV-1
    • Hill AL, Rosenbloom DIS, Fu F, et al. Predicting the outcomes of treatment to eradicate the latent reservoir for HIV-1. Proc Natl Acad Sci U S A 2014; 111:13475-80.
    • (2014) Proc Natl Acad Sci U S A , vol.111 , pp. 13475-13480
    • Hill, A.L.1    Rosenbloom, D.I.S.2    Fu, F.3
  • 23
    • 85014367760 scopus 로고    scopus 로고
    • A novel assay that precisely measures the size of the latent HIV reservoir reveals that ART-naïve individuals harbour a large pool of latently infected CD4+ T cells
    • Melbourne, Australia
    • Chomont N. A novel assay that precisely measures the size of the latent HIV reservoir reveals that ART-naïve individuals harbour a large pool of latently infected CD4+ T cells. In: IAS Towards a Cure Symposium; 2014; Melbourne, Australia.
    • (2014) In:IAS Towards a Cure Symposium
    • Chomont, N.1
  • 24
    • 77949530887 scopus 로고    scopus 로고
    • Cellular levels of HIV unspliced RNA from patients on combination antiretroviral therapy with undetectable plasma viremia predict the therapy outcome
    • Pasternak AO, Jurriaans S, Bakker M, et al. Cellular levels of HIV unspliced RNA from patients on combination antiretroviral therapy with undetectable plasma viremia predict the therapy outcome. PLoS One 2009; 4:e8490.
    • (2009) PLoS One , vol.4
    • Pasternak, A.O.1    Jurriaans, S.2    Bakker, M.3
  • 25
    • 49049107011 scopus 로고    scopus 로고
    • Highly sensitive methods based on seminested real-time reverse transcription-PCR for quantitation of human immunodeficiency virus type 1 unspliced and multiply spliced RNA and proviral DNA
    • Pasternak AO, Adema KW, Bakker M, et al. Highly sensitive methods based on seminested real-time reverse transcription-PCR for quantitation of human immunodeficiency virus type 1 unspliced and multiply spliced RNA and proviral DNA. J Clin Microbiol 2008; 46:2206-11.
    • (2008) J Clin Microbiol , vol.46 , pp. 2206-2211
    • Pasternak, A.O.1    Adema, K.W.2    Bakker, M.3
  • 26
    • 33746631821 scopus 로고    scopus 로고
    • Nuclear retention of multiply spliced HIV-1 RNA in resting CD4+ T cells
    • Lassen KG, Ramyar KX, Bailey JR, et al. Nuclear retention of multiply spliced HIV-1 RNA in resting CD4+ T cells. PLoS Pathog 2006; 2:e68.
    • (2006) PLoS Pathog , vol.2
    • Lassen, K.G.1    Ramyar, K.X.2    Bailey, J.R.3
  • 27
    • 72949108077 scopus 로고    scopus 로고
    • Pairing computation with experimentation: a powerful coupling for understanding T cell signalling
    • Chakraborty AK, Das J. Pairing computation with experimentation: a powerful coupling for understanding T cell signalling. Nat Rev Immunol 2010; 10:59-71.
    • (2010) Nat Rev Immunol , vol.10 , pp. 59-71
    • Chakraborty, A.K.1    Das, J.2
  • 28
    • 22744441386 scopus 로고    scopus 로고
    • Stochastic gene expression in a lentiviral positive-feedback loop: HIV-1 Tat fluctuations drive phenotypic diversity
    • Weinberger LS, Burnett JC, Toettcher JE, et al. Stochastic gene expression in a lentiviral positive-feedback loop: HIV-1 Tat fluctuations drive phenotypic diversity. Cell 2005; 122:169-82.
    • (2005) Cell , vol.122 , pp. 169-182
    • Weinberger, L.S.1    Burnett, J.C.2    Toettcher, J.E.3
  • 29
    • 68049129695 scopus 로고    scopus 로고
    • Stochastic gene expression as a molecular switch for viral latency
    • Singh A, Weinberger LS. Stochastic gene expression as a molecular switch for viral latency. Curr Opin Microbiol 2009; 12:460-6.
    • (2009) Curr Opin Microbiol , vol.12 , pp. 460-466
    • Singh, A.1    Weinberger, L.S.2
  • 31
    • 84928986546 scopus 로고    scopus 로고
    • Ex vivo analysis identifies effective HIV-1 latency-reversing drug combinations
    • Laird GM, Bullen CK, Rosenbloom DIS, et al. Ex vivo analysis identifies effective HIV-1 latency-reversing drug combinations. J Clin Invest 2015; 125:1901-12.
    • (2015) J Clin Invest , vol.125 , pp. 1901-1912
    • Laird, G.M.1    Bullen, C.K.2    Rosenbloom, D.I.S.3
  • 32
    • 0008685471 scopus 로고
    • The ratio of physical particles per infectious unit observed for poliomyelitis viruses
    • Schwerdt CE, Fogh J. The ratio of physical particles per infectious unit observed for poliomyelitis viruses. Virology 1957; 4:41-52.
    • (1957) Virology , vol.4 , pp. 41-52
    • Schwerdt, C.E.1    Fogh, J.2
  • 33
    • 84916671985 scopus 로고
    • Statistical studies of the nature of the infectious unit of vaccine virus
    • Parker RF. Statistical studies of the nature of the infectious unit of vaccine virus. J Exp Med 1938; 67:725-38.
    • (1938) J Exp Med , vol.67 , pp. 725-738
    • Parker, R.F.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.