Spin models inferred from patient-derived viral sequence data faithfully describe HIV fitness landscapes (Q30746334)

13 October 2017

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

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13 October 2017

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3

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13 October 2017

4

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13 October 2017

5

Mehran Kardar

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13 October 2017

1

Karthik Shekhar

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13 October 2017

Claire F Ruberman

2

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13 October 2017

Arup K Chakraborty

series ordinal

6

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13 October 2017

language of work or name

English

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publication date

4 December 2013

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13 October 2017

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13 October 2017

88

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13 October 2017

6

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13 October 2017

062705

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

13 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Exploring the complexity of the HIV-1 fitness landscape

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Whole genome deep sequencing of HIV-1 reveals the impact of early minor variants upon immune recognition during acute infection

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Coordinate linkage of HIV evolution reveals regions of immunological vulnerability

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Quasispecies theory for finite populations

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Dynamics of immune escape during HIV/SIV infection

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

20 June 2018

Toward an AIDS vaccine

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Design and pre-clinical evaluation of a universal HIV-1 vaccine

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Escape from the dominant HLA-B27-restricted cytotoxic T-lymphocyte response in Gag is associated with a dramatic reduction in human immunodeficiency virus type 1 replication

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Stochastic or deterministic: what is the effective population size of HIV-1?

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Exact solution of the Eigen model with general fitness functions and degradation rates

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Quantifying influenza vaccine efficacy and antigenic distance.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Quasispecies theory in the context of population genetics

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

The application of statistical physics to evolutionary biology

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Evidence for Positive Epistasis in HIV-1

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

HIV and SIV CTL escape: implications for vaccine design

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Diversity considerations in HIV-1 vaccine selection

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Linkage disequilibrium test implies a large effective population number for HIV in vivo

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Structural biology of HIV.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

HIV-1 dynamics in vivo: virion clearance rate, infected cell life-span, and viral generation time

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Selforganization of matter and the evolution of biological macromolecules

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5260469

Information Theory and Statistical Mechanics

20 June 2018

1 reference

https://api.crossref.org/works/10.1103/PHYSREVE.88.062705

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1103/PHYSREVE.88.062705

A finite population model of molecular evolution: theory and computation

21 January 2018

1 reference

https://api.crossref.org/works/10.1103/PHYSREVE.88.062705

Equation of State Calculations by Fast Computing Machines

21 January 2018

1 reference

https://api.crossref.org/works/10.1103/PHYSREVE.88.062705

Surface ordering and finite-size effects in liquid-crystal films

21 January 2018

1 reference

https://api.crossref.org/works/10.1103/PHYSREVE.88.062705

Physical theory of the competition that allows HIV to escape from the immune system

21 January 2018

1 reference

12 December 2020

Error thresholds for molecular quasispecies as phase transitions: From simple landscapes to spin-glass models.

1 reference

12 December 2020

Sequence space localization in the immune system response to vaccination and disease

1 reference

12 December 2020

Population dynamics in a spin-glass model of chemical evolution

1 reference

12 December 2020

10.1103/PHYSREVE.88.062705

Identifiers

DOI

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13 October 2017

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0 references

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13 October 2017

PubMed publication ID

24483484

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