Tracking HIV-1 recombination to resolve its contribution to HIV-1 evolution in natural infection. (Q54210802)

26 May 2018

title

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

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26 May 2018

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9

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Beatrice H. Hahn

Beatrice H Hahn

22

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Jesus F Salazar-Gonzalez

Jesus F Salazar-Gonzalez

15

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Myron S. Cohen

20

Myron S Cohen

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26 May 2018

25

Bette Korber

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19

David C Montefiori

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24

Barton F Haynes

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18

Brandon F Keele

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21

George M Shaw

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PMCID

5954121

Andrew James McMichael

23

Andrew J McMichael

1 reference

26 May 2018

Vitaly Ganusov

3

Vitaly V Ganusov

1 reference

26 May 2018

Fangping Cai

4

Fangping Cai

1 reference

26 May 2018

Bhavna Hora

8

Bhavna Hora

1 reference

26 May 2018

Nilu Goonetilleke

17

Nilu Goonetilleke

1 reference

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1

Hongshuo Song

1 reference

26 May 2018

6

Hyejin Yoon

1 reference

26 May 2018

Elena E Giorgi

2

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Gayathri Athreya

5

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Oana Carja

7

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Ethan Romero-Severson

10

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26 May 2018

Chunlai Jiang

11

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26 May 2018

Xiaojun Li

12

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26 May 2018

Shuyi Wang

13

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26 May 2018

Hui Li

14

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26 May 2018

Maria G Salazar

16

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Tanmoy Bhattacharya

26

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26 May 2018

Feng Gao

27

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26 May 2018

language of work or name

English

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publication date

15 May 2018

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26 May 2018

published in

Nature Communications

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26 May 2018

volume

9

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26 May 2018

page(s)

1928

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issue

1

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Creative Commons Attribution 4.0 International

copyright license

start time

15 May 2018

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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exact match

https://scigraph.springernature.com/pub.10.1038/s41467-018-04217-5

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cites work

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26 May 2018

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Transmission of Multiple HIV-1 Subtype C Transmitted/founder Viruses into the Same Recipients Was not Determined by Modest Phenotypic Differences

26 May 2018

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26 May 2018

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Analysis of HIV-1 intersubtype recombination breakpoints suggests region with high pairing probability may be a more fundamental factor than sequence similarity affecting HIV-1 recombination

26 May 2018

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26 May 2018

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26 May 2018

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26 May 2018

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26 May 2018

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Human Non-neutralizing HIV-1 Envelope Monoclonal Antibodies Limit the Number of Founder Viruses during SHIV Mucosal Infection in Rhesus Macaques

26 May 2018

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26 May 2018

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26 May 2018

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26 May 2018

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26 May 2018

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26 May 2018

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26 May 2018

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Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus

26 May 2018

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Multiple pathways of escape from HIV broadly cross-neutralizing V2-dependent antibodies

26 May 2018

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26 May 2018

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

26 May 2018

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Clinical, virologic, and immunologic correlates of HIV-1 intraclade B dual infection among men who have sex with men.

26 May 2018

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Mechanisms and factors that influence high frequency retroviral recombination

26 May 2018

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Recombination-mediated changes in coreceptor usage confer an augmented pathogenic phenotype in a nonhuman primate model of HIV-1-induced AIDS.

26 May 2018

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Why do RNA viruses recombine?

26 May 2018

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Intercompartmental recombination of HIV-1 contributes to env intrahost diversity and modulates viral tropism and sensitivity to entry inhibitors

26 May 2018

1 reference

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Estimate of effective recombination rate and average selection coefficient for HIV in chronic infection

26 May 2018

1 reference

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Estimating time since infection in early homogeneous HIV-1 samples using a poisson model

26 May 2018

1 reference

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Accurately measuring recombination between closely related HIV-1 genomes

26 May 2018

1 reference

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The role of recombination in the emergence of a complex and dynamic HIV epidemic

26 May 2018

1 reference

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Recombination rate and selection strength in HIV intra-patient evolution

26 May 2018

1 reference

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An evolutionary model-based algorithm for accurate phylogenetic breakpoint mapping and subtype prediction in HIV-1

26 May 2018

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Genetic identity, biological phenotype, and evolutionary pathways of transmitted/founder viruses in acute and early HIV-1 infection

26 May 2018

1 reference

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Identifying the important HIV-1 recombination breakpoints.

26 May 2018

1 reference

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26 May 2018

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26 May 2018

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26 May 2018

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Contribution of Recombination to the Evolution of Human Immunodeficiency Viruses Expressing Resistance to Antiretroviral Treatment

26 May 2018

1 reference

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Sequence determinants of breakpoint location during HIV-1 intersubtype recombination.

26 May 2018

1 reference

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Extensive recombination among human immunodeficiency virus type 1 quasispecies makes an important contribution to viral diversity in individual patients

26 May 2018

1 reference

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Application of phylogenetic networks in evolutionary studies

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Pervasive genomic recombination of HIV-1 in vivo

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Recombination Analysis Tool (RAT): a program for the high-throughput detection of recombination

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Unselected mutations in the human immunodeficiency virus type 1 genome are mostly nonsynonymous and often deleterious

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

APE: Analyses of Phylogenetics and Evolution in R language

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Dynamics of HIV viremia and antibody seroconversion in plasma donors: implications for diagnosis and staging of primary HIV infection

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Human immunodeficiency virus type 1 genetic recombination is more frequent than that of Moloney murine leukemia virus despite similar template switching rates

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Human immunodeficiency virus type 1 recombination: rate, fidelity, and putative hot spots

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Selection for human immunodeficiency virus type 1 recombinants in a patient with rapid progression to AIDS.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Modelling viral and immune system dynamics

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

The effect of recombination on the accuracy of phylogeny estimation.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Evaluation of methods for detecting recombination from DNA sequences: computer simulations

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Rapid production and clearance of HIV-1 and hepatitis C virus assessed by large volume plasma apheresis

26 May 2018

1 reference

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Recombination leads to the rapid emergence of HIV-1 dually resistant mutants under selective drug pressure.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

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

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

A computer program designed to screen rapidly for HIV type 1 intersubtype recombinant sequences

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Identification of human immunodeficiency virus type 1 envelope genes recombinant between subtypes B and F in two epidemiologically linked individuals from Brazil.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Lower in vivo mutation rate of human immunodeficiency virus type 1 than that predicted from the fidelity of purified reverse transcriptase

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Discontinuous sequence change of human immunodeficiency virus (HIV) type 1 env sequences in plasma viral and lymphocyte-associated proviral populations in vivo: implications for models of HIV pathogenesis.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Recommendations for enterovirus diagnostics and characterisation within and beyond Europe.

26 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Molecular surveillance of norovirus, 2005-16: an epidemiological analysis of data collected from the NoroNet network.

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Molecular characterization of hepatitis B virus in Bangladesh reveals a highly recombinant population

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Recco: recombination analysis using cost optimization.

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Comments on the detection of reciprocal recombination or gene conversion.

13 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5954121

Detecting hypermutations in viral sequences with an emphasis on G --> A hypermutation

13 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FS41467-018-04217-5

inferred from DOI database lookup

7 January 2021

based on heuristic

Identifiers

DOI

10.1038/S41467-018-04217-5

1 reference

26 May 2018

0 references

1 reference

26 May 2018

PubMed ID

29765018

1 reference

26 May 2018