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The fitness landscape of HIV-1 gag: advanced modeling approaches and validation of model predictions by in vitro testing

автор

Thumbi Ndung'u

1969 -

John P Barton

Andrew L. Ferguson

Bruce D. Walker

Jaclyn K Mann

Saleha Omarjee

Arup Chakraborty

1961 -

опубликовано в: PLOS Computational Biology

дата публикации: 2014-08-07

Cites articles 33

Дата

Заголовок

Авторы

2013-12-04

Spin models inferred from patient-derived viral sequence data faithfully describe HIV fitness landscapes

Andrew L. Ferguson, John P Barton, Mehran Kardar, Karthik Shekhar
2013-03-01

Translating HIV sequences into quantitative fitness landscapes predicts viral vulnerabilities for rational immunogen design

Thumbi Ndung'u, Andrew L. Ferguson, Bruce D. Walker, Jaclyn K Mann, Saleha Omarjee
2012-01-11

Impact of HLA-B*81-associated mutations in HIV-1 Gag on viral replication capacity

Mark A. Brockman, Thumbi Ndung'u, Zabrina L Brumme
2011-08-01

Immune-mediated attenuation of HIV-1

Mark A. Brockman, Zabrina L Brumme
2011-12-06

Direct-coupling analysis of residue coevolution captures native contacts across many protein families

Chris Sander, Debora Marks, Bryan Lunt, Faruck Morcos, Andrea Pagnani, Martin Weigt, Riccardo Zecchina, Terence Hwa, José Onuchic
2011-06-20

Coordinate linkage of HIV evolution reveals regions of immunological vulnerability

Mary Carrington, Bruce D. Walker, Florencia Pereyra, Marcus Altfeld, Todd M Allen, Karthik Shekhar, Toshiyuki Miura, Darrell J Irvine
2011-06-02

Are Biological Systems Poised at Criticality?

William Bialek
2011-03-02

Adaptive cluster expansion for inferring boltzmann machines with noisy data.
2010-10-01

Induction of immunity to human immunodeficiency virus type-1 by vaccination

Julie McElrath, Barton Haynes
2010-08-11

Gag-protease-mediated replication capacity in HIV-1 subtype C chronic infection: associations with HLA type and clinical parameters

Mark A. Brockman, Thumbi Ndung'u, Karen Bishop, Chanson J Brumme, Zabrina L Brumme, Elena Losina, Bruce D. Walker, Zenele Mncube, Mary van der Stok, David Heckerman, Philip J. R. Goulder, Bingxia Wang, Fundisiwe Chonco, Toshiyuki Miura, Jaclyn K Wright
2009-12-11

The immune response during acute HIV-1 infection: clues for vaccine development

Barton Haynes, Andrew James McMichael, Georgia D. Tomaras, Persephone Borrow
2009-08-21

Protein sectors: evolutionary units of three-dimensional structure

Stanislas Leibler
2009-08-19

HLA-associated immune escape pathways in HIV-1 subtype B Gag, Pol and Nef proteins

Mark A. Brockman, Luke Swenson, Chanson J Brumme, Zabrina L Brumme, Christian Brander, Bruce D. Walker, David Heckerman, Simon A. Mallal, Pamela C Rosato, Richard H Haubrich, Sharon A Riddler, Jennifer Sela, Nicole Frahm, Richard Harrigan, Dennison Chan, Tao Cheng, Sharon Szeto
2009-05-19

Ising model for neural data: model quality and approximate methods for extracting functional connectivity

Yasser Roudi, John A. Hertz
2009-04

Variable fitness impact of HIV-1 escape mutations to cytotoxic T lymphocyte (CTL) response

Sylvie Le Gall, Julie McElrath, James Mullins, Ryan M Troyer, Denis M Tebit
2009-11-17

Statistical physics of pairwise probability models

John A. Hertz, Эрик Аурелл
2008-12-30

Identification of direct residue contacts in protein-protein interaction by message passing

Martin Weigt, Terence Hwa
2008-08-01

An HIV vaccine--challenges and prospects

Энтони Фаучи
2008-05-01

Toward an AIDS vaccine

Bruce D. Walker, Dennis R. Burton
2008-04-21

Transmission of HIV-1 Gag immune escape mutations is associated with reduced viral load in linked recipients

Philippa C Matthews, Jianming Tang, Andrew Prendergast, Jonathan Carlson, Philip J. R. Goulder
2008-05-01

Susan Allen: confronting HIV in Africa. Interview by Hema Bashyam
2008-05-05

Crippling HIV one mutation at a time

Marcus Altfeld
2007-08-29

Escape and compensation from early HLA-B57-mediated cytotoxic T-lymphocyte pressure on human immunodeficiency virus type 1 Gag alter capsid interactions with cyclophilin A.

Mark A. Brockman, Bruce D. Walker, Todd M Allen, Paul A Goepfert, Ivna Desouza, Arne Schneidewind, Toshiyuki Miura, Cynthia A Derdeyn, Matthew P Lahaie
2006-11-30

Using the principle of entropy maximization to infer genetic interaction networks from gene expression patterns

Amos Maritan, Marek Cieplak, Jayanth R Banavar, Фёдорова, Нина Всеволодовна
2005-06-24

The application of statistical physics to evolutionary biology
2002-06-27

Random matrix approach to cross correlations in financial data

H. Eugene Stanley
2001-01-01

Evolutionary and immunological implications of contemporary HIV-1 variation

Bette Korber
2001-07-19

Evolution of digital organisms at high mutation rates leads to survival of the flattest

Charles Ofria, Christoph Adami, Claus O. Wilke
1999-02-01

Control of viremia in simian immunodeficiency virus infection by CD8+ lymphocytes

Joern E Schmitz, Norman L. Letvin, Michelle A Lifton
1994-07

Temporal association of cellular immune responses with the initial control of viremia in primary human immunodeficiency virus type 1 syndrome
1986-10-01

Spin glasses: Experimental facts, theoretical concepts, and open questions

Курт Биндер, Allan Peter Young
1982-01-01

The Potts model

Статья - wd:Q34015177

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