-
1
-
-
79955389756
-
HIV-1 neutralization breadth develops incrementally over 4 years and is associated with CD4+ T cell decline and high viral load during acute infection
-
Gray, E.S. et al. HIV-1 neutralization breadth develops incrementally over 4 years and is associated with CD4+ T cell decline and high viral load during acute infection. J. Virol. 85, 4828-4840 (2011).
-
(2011)
J. Virol.
, vol.85
, pp. 4828-4840
-
-
Gray, E.S.1
-
2
-
-
84892365659
-
Prevalence of broadly neutralizing antibody responses during chronic HIV-1 infection
-
Hraber, P. et al. Prevalence of broadly neutralizing antibody responses during chronic HIV-1 infection. AIDS 28, 163-169 (2014).
-
(2014)
AIDS
, vol.28
, pp. 163-169
-
-
Hraber, P.1
-
3
-
-
70349298392
-
Breadth of neutralizing antibody response to human immunodeficiency virus type 1 is affected by factors early in infection but does not influence disease progression
-
Piantadosi, A. et al. Breadth of neutralizing antibody response to human immunodeficiency virus type 1 is affected by factors early in infection but does not influence disease progression. J. Virol. 83, 10269-10274 (2009).
-
(2009)
J. Virol.
, vol.83
, pp. 10269-10274
-
-
Piantadosi, A.1
-
4
-
-
58149487645
-
Factors associated with the development of cross-reactive neutralizing antibodies during human immunodeficiency virus type 1 infection
-
Sather, D.N. et al. Factors associated with the development of cross-reactive neutralizing antibodies during human immunodeficiency virus type 1 infection. J. Virol. 83, 757-769 (2009).
-
(2009)
J. Virol.
, vol.83
, pp. 757-769
-
-
Sather, D.N.1
-
5
-
-
84857084577
-
Longitudinal analysis of early HIV-1-specific neutralizing activity in an elite neutralizer and in five patients who developed cross-reactive neutralizing activity
-
Euler, Z. et al. Longitudinal analysis of early HIV-1-specific neutralizing activity in an elite neutralizer and in five patients who developed cross-reactive neutralizing activity. J. Virol. 86, 2045-2055 (2012).
-
(2012)
J. Virol.
, vol.86
, pp. 2045-2055
-
-
Euler, Z.1
-
6
-
-
77958115264
-
A limited number of antibody specificities mediate broad and potent serum neutralization in selected HIV-1 infected individuals
-
Walker, L.M. et al. A limited number of antibody specificities mediate broad and potent serum neutralization in selected HIV-1 infected individuals. PLoS Pathog. 6, e1001028 (2010).
-
(2010)
PLoS Pathog.
, vol.6
, pp. e1001028
-
-
Walker, L.M.1
-
7
-
-
84899991983
-
Developmental pathway for potent V1V2-directed HIV-neutralizing antibodies
-
Doria-Rose, N.A. et al. Developmental pathway for potent V1V2-directed HIV-neutralizing antibodies. Nature 509, 55-62 (2014).
-
(2014)
Nature
, vol.509
, pp. 55-62
-
-
Doria-Rose, N.A.1
-
8
-
-
84876797103
-
Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus
-
Liao, H.X. et al. Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus. Nature 496, 469-476 (2013).
-
(2013)
Nature
, vol.496
, pp. 469-476
-
-
Liao, H.X.1
-
9
-
-
84879302728
-
HIV-1 neutralizing antibodies: Understanding nature's pathways
-
Mascola, J.R., & Haynes, B.F. HIV-1 neutralizing antibodies: understanding nature's pathways. Immunol. Rev. 254, 225-244 (2013).
-
(2013)
Immunol. Rev.
, vol.254
, pp. 225-244
-
-
Mascola, J.R.1
Haynes, B.F.2
-
10
-
-
84905369598
-
Cooperation of B cell lineages in induction of HIV-1-broadly neutralizing antibodies
-
Gao, F. et al. Cooperation of B cell lineages in induction of HIV-1-broadly neutralizing antibodies. Cell 158, 481-491 (2014).
-
(2014)
Cell
, vol.158
, pp. 481-491
-
-
Gao, F.1
-
11
-
-
84887270287
-
Viral escape from HIV-1 neutralizing antibodies drives increased plasma neutralization breadth through sequential recognition of multiple epitopes and immunotypes
-
Wibmer, C.K. et al. Viral escape from HIV-1 neutralizing antibodies drives increased plasma neutralization breadth through sequential recognition of multiple epitopes and immunotypes. PLoS Pathog. 9, e1003738 (2013).
-
(2013)
PLoS Pathog.
, vol.9
, pp. e1003738
-
-
Wibmer, C.K.1
-
12
-
-
84869155712
-
Evolution of an HIV glycan-dependent broadly neutralizing antibody epitope through immune escape
-
Moore, P.L. et al. Evolution of an HIV glycan-dependent broadly neutralizing antibody epitope through immune escape. Nat. Med. 18, 1688-1692 (2012).
-
(2012)
Nat. Med.
, vol.18
, pp. 1688-1692
-
-
Moore, P.L.1
-
13
-
-
84876333290
-
Multiple pathways of escape from HIV broadly cross-neutralizing V2-dependent antibodies
-
Moore, P.L. et al. Multiple pathways of escape from HIV broadly cross-neutralizing V2-dependent antibodies. J. Virol. 87, 4882-4894 (2013).
-
(2013)
J. Virol.
, vol.87
, pp. 4882-4894
-
-
Moore, P.L.1
-
14
-
-
84946582581
-
A new member of the V1V2-directed CAP256-VRC26 lineage that shows increased breadth and exceptional potency
-
in the press
-
Doria-Rose, N.A. et al. A new member of the V1V2-directed CAP256-VRC26 lineage that shows increased breadth and exceptional potency. J. Virol. (in the press).
-
J. Virol.
-
-
Doria-Rose, N.A.1
-
15
-
-
84883796903
-
Antibodies in HIV-1 vaccine development and therapy
-
Klein, F. et al. Antibodies in HIV-1 vaccine development and therapy. Science 341, 1199-1204 (2013).
-
(2013)
Science
, vol.341
, pp. 1199-1204
-
-
Klein, F.1
-
16
-
-
84883187027
-
Broadly neutralizing antibodies and the search for an HIV-1 vaccine: The end of the beginning
-
Kwong, P.D., Mascola, J.R., & Nabel, G.J. Broadly neutralizing antibodies and the search for an HIV-1 vaccine: the end of the beginning. Nat. Rev. Immunol. 13, 693-701 (2013).
-
(2013)
Nat. Rev. Immunol.
, vol.13
, pp. 693-701
-
-
Kwong, P.D.1
Mascola, J.R.2
Nabel, G.J.3
-
17
-
-
84917705974
-
Recombinant HIV envelope trimer selects for quaternary-dependent antibodies targeting the trimer apex
-
Sok, D. et al. Recombinant HIV envelope trimer selects for quaternary-dependent antibodies targeting the trimer apex. Proc. Natl. Acad. Sci. USA 111, 17624-17629 (2014).
-
(2014)
Proc. Natl. Acad. Sci. USA
, vol.111
, pp. 17624-17629
-
-
Sok, D.1
-
18
-
-
80053132436
-
Broad neutralization coverage of HIV by multiple highly potent antibodies
-
Walker, L.M. et al. Broad neutralization coverage of HIV by multiple highly potent antibodies. Nature 477, 466-470 (2011).
-
(2011)
Nature
, vol.477
, pp. 466-470
-
-
Walker, L.M.1
-
19
-
-
63849131879
-
Broad diversity of neutralizing antibodies isolated from memory B cells in HIV-infected individuals
-
Scheid, J.F. et al. Broad diversity of neutralizing antibodies isolated from memory B cells in HIV-infected individuals. Nature 458, 636-640 (2009).
-
(2009)
Nature
, vol.458
, pp. 636-640
-
-
Scheid, J.F.1
-
20
-
-
80052531336
-
Memory B cell antibodies to HIV-1 gp140 cloned from individuals infected with clade A and B viruses
-
Mouquet, H. et al. Memory B cell antibodies to HIV-1 gp140 cloned from individuals infected with clade A and B viruses. PLoS ONE 6, e24078 (2011).
-
(2011)
PLoS ONE
, vol.6
, pp. e24078
-
-
Mouquet, H.1
-
21
-
-
84922225958
-
Rapid development of broadly influenza neutralizing antibodies through redundant mutations
-
Pappas, L. et al. Rapid development of broadly influenza neutralizing antibodies through redundant mutations. Nature 516, 418-422 (2014).
-
(2014)
Nature
, vol.516
, pp. 418-422
-
-
Pappas, L.1
-
22
-
-
70349887757
-
Broad and potent neutralizing antibodies from an African donor reveal a new HIV-1 vaccine target
-
Walker, L.M. et al. Broad and potent neutralizing antibodies from an African donor reveal a new HIV-1 vaccine target. Science 326, 285-289 (2009).
-
(2009)
Science
, vol.326
, pp. 285-289
-
-
Walker, L.M.1
-
23
-
-
84860706280
-
Human peripheral blood antibodies with long HCDR3s are established primarily at original recombination using a limited subset of germline genes
-
Briney, B.S., Willis, J.R., & Crowe, J.E. Jr. Human peripheral blood antibodies with long HCDR3s are established primarily at original recombination using a limited subset of germline genes. PLoS ONE 7, e36750 (2012).
-
(2012)
PLoS ONE
, vol.7
, pp. e36750
-
-
Briney, B.S.1
Willis, J.R.2
Crowe, J.E.3
-
24
-
-
0041689676
-
Predominant autoantibody production by early human B cell precursors
-
Wardemann, H. et al. Predominant autoantibody production by early human B cell precursors. Science 301, 1374-1377 (2003).
-
(2003)
Science
, vol.301
, pp. 1374-1377
-
-
Wardemann, H.1
-
25
-
-
84877609579
-
Rational HIV immunogen design to target specific germline B cell receptors
-
Jardine, J. et al. Rational HIV immunogen design to target specific germline B cell receptors. Science 340, 711-716 (2013).
-
(2013)
Science
, vol.340
, pp. 711-716
-
-
Jardine, J.1
-
26
-
-
84878626061
-
Engineering HIV envelope protein to activate germline B cell receptors of broadly neutralizing anti-CD4 binding site antibodies
-
McGuire, A.T. et al. Engineering HIV envelope protein to activate germline B cell receptors of broadly neutralizing anti-CD4 binding site antibodies. J. Exp. Med. 210, 655-663 (2013).
-
(2013)
J. Exp. Med.
, vol.210
, pp. 655-663
-
-
McGuire, A.T.1
-
27
-
-
44849132669
-
Establishing a cohort at high risk of HIV infection in South Africa: Challenges and experiences of the CAPRISA 002 acute infection study
-
van Loggerenberg, F. et al. Establishing a cohort at high risk of HIV infection in South Africa: challenges and experiences of the CAPRISA 002 acute infection study. PLoS ONE 3, e1954 (2008).
-
(2008)
PLoS ONE
, vol.3
, pp. e1954
-
-
Van Loggerenberg, F.1
-
28
-
-
84055200527
-
Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer ID
-
Jabara, C.B., Jones, C.D., Roach, J., Anderson, J.A., & Swanstrom, R. Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer ID. Proc. Natl. Acad. Sci. USA 108, 20166-20171 (2011).
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 20166-20171
-
-
Jabara, C.B.1
Jones, C.D.2
Roach, J.3
Anderson, J.A.4
Swanstrom, R.5
-
29
-
-
77955801615
-
Galaxy: A comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences
-
Goecks, J., Nekrutenko, A., Taylor, J., & Galaxy, T. Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol. 11, R86 (2010).
-
(2010)
Genome Biol.
, vol.11
, pp. R86
-
-
Goecks, J.1
Nekrutenko, A.2
Taylor, J.3
Galaxy, T.4
-
30
-
-
75949108066
-
Galaxy: A web-based genome analysis tool for experimentalists
-
19.10.1-19.10.21
-
Blankenberg, D. et al. Galaxy: a web-based genome analysis tool for experimentalists. Curr. Protoc. Mol. Biol. 89, 19.10.1-19.10.21 (2010).
-
(2010)
Curr. Protoc. Mol. Biol.
, vol.89
-
-
Blankenberg, D.1
-
31
-
-
25844449770
-
Galaxy: A platform for interactive large-scale genome analysis
-
Giardine, B. et al. Galaxy: a platform for interactive large-scale genome analysis. Genome Res. 15, 1451-1455 (2005).
-
(2005)
Genome Res.
, vol.15
, pp. 1451-1455
-
-
Giardine, B.1
-
32
-
-
77954489376
-
Manipulation of FASTQ data with Galaxy
-
Blankenberg, D. et al. Manipulation of FASTQ data with Galaxy. Bioinformatics 26, 1783-1785 (2010).
-
(2010)
Bioinformatics
, vol.26
, pp. 1783-1785
-
-
Blankenberg, D.1
-
33
-
-
84875619226
-
MAFFT multiple sequence alignment software version 7: Improvements in performance and usability
-
Katoh, K., & Standley, D.M. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol. Biol. Evol. 30, 772-780 (2013).
-
(2013)
Mol. Biol. Evol.
, vol.30
, pp. 772-780
-
-
Katoh, K.1
Standley, D.M.2
-
34
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
Edgar, R.C. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792-1797 (2004).
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
35
-
-
84905581165
-
RAMICS: Trainable, high-speed and biologically relevant alignment of high-Dhroughput sequencing reads to coding DNA
-
Wright, I.A., & Travers, S.A. RAMICS: trainable, high-speed and biologically relevant alignment of high-Dhroughput sequencing reads to coding DNA. Nucleic Acids Res. 42, e106 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. e106
-
-
Wright, I.A.1
Travers, S.A.2
-
36
-
-
34247493236
-
Matplotlib: A 2D graphics environment
-
Hunter, J.D. Matplotlib: A 2D graphics environment. Comput. Sci. Eng. 9, 90-95 (2007).
-
(2007)
Comput. Sci. Eng.
, vol.9
, pp. 90-95
-
-
Hunter, J.D.1
-
37
-
-
41949124934
-
Deciphering human immunodeficiency virus type 1 transmission and early envelope diversification by single-genome amplification and sequencing
-
Salazar-Gonzalez, J.F. et al. Deciphering human immunodeficiency virus type 1 transmission and early envelope diversification by single-genome amplification and sequencing. J. Virol. 82, 3952-3970 (2008).
-
(2008)
J. Virol.
, vol.82
, pp. 3952-3970
-
-
Salazar-Gonzalez, J.F.1
-
38
-
-
0030018993
-
Molecular cloning and analysis of functional envelope genes from human immunodeficiency virus type 1 sequence subtypes A through G the WHO and NIAID Networks for HIV Isolation and Characterization
-
Gao, F. et al. Molecular cloning and analysis of functional envelope genes from human immunodeficiency virus type 1 sequence subtypes A through G. The WHO and NIAID Networks for HIV Isolation and Characterization. J. Virol. 70, 1651-1667 (1996).
-
(1996)
J. Virol.
, vol.70
, pp. 1651-1667
-
-
Gao, F.1
-
39
-
-
75749131917
-
A rev1-vpu polymorphism unique to HIV-1 subtype A and C strains impairs envelope glycoprotein expression from rev-vpu-env cassettes and reduces virion infectivity in pseudotyping assays
-
Kraus, M.H. et al. A rev1-vpu polymorphism unique to HIV-1 subtype A and C strains impairs envelope glycoprotein expression from rev-vpu-env cassettes and reduces virion infectivity in pseudotyping assays. Virology 397, 346-357 (2010).
-
(2010)
Virology
, vol.397
, pp. 346-357
-
-
Kraus, M.H.1
-
40
-
-
0037456827
-
Antibody neutralization and escape by HIV-1
-
Wei, X. et al. Antibody neutralization and escape by HIV-1. Nature 422, 307-312 (2003).
-
(2003)
Nature
, vol.422
, pp. 307-312
-
-
Wei, X.1
-
41
-
-
0002051540
-
BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT
-
Hall, T.A. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl. Acids. Symp. Ser. 41, 95-98 (1999).
-
(1999)
Nucl. Acids. Symp. Ser.
, vol.41
, pp. 95-98
-
-
Hall, T.A.1
|