Reliable reconstruction of HIV-1 whole genome haplotypes reveals clonal interference and genetic hitchhiking among immune escape variants. (Q42208022)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

title

Reliable reconstruction of HIV-1 whole genome haplotypes reveals clonal interference and genetic hitchhiking among immune escape variants (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

evasion of host immune response

21 March 2020

main subject

1 reference

inferred from title

whole genome sequencing

1 reference

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

Rob J. De Boer

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

author name string

Aridaman Pandit

series ordinal

1

1 reference

18 October 2017

Rob J de Boer

series ordinal

2

1 reference

18 October 2017

4 July 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

volume

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

page(s)

56

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

describes a project that uses

21 March 2020

Cytoscape

object named as

Cytoscape

2 references

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

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Multiple independent lineages of HIV-1 persist in breast milk and plasma

26 October 2017

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Cytoscape 2.8: new features for data integration and network visualization

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Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing

26 October 2017

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Error correction of next-generation sequencing data and reliable estimation of HIV quasispecies

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26 October 2017

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26 October 2017

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26 October 2017

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Estimating Costs and Benefits of CTL Escape Mutations in SIV/HIV Infection

26 October 2017

1 reference

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26 October 2017

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Not so different after all: a comparison of methods for detecting amino acid sites under selection

26 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=4227095

Unifying the epidemiological and evolutionary dynamics of pathogens

26 October 2017

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A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood

26 October 2017

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

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

HIV-1 sequence variation: drift, shift, and attenuation

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

Estimating relative fitness in viral competition experiments.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

Viral dynamics of acute HIV-1 infection

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

Clonal interference and the evolution of RNA viruses.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

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

26 October 2017

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26 October 2017

1 reference

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Identification and characterization of conserved and variable regions in the envelope gene of HTLV-III/LAV, the retrovirus of AIDS.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

Evolution of human immunodeficiency virus type 1 nucleotide sequence diversity among close contacts

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

The dynamics of HIV-1 adaptation in early infection.

26 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

Is the quasispecies concept relevant to RNA viruses?

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

HIV-1 viral escape in infancy followed by emergence of a variant-specific CTL response.

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227095

Deep sequencing of a genetically heterogeneous sample: local haplotype reconstruction and read error correction

17 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24996694

12 December 2020

inferred from PubMed ID database lookup

Diminishing Returns from Mutation Supply Rate in Asexual Populations

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24996694

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1186/1742-4690-11-56

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

1 reference

Dimensions Publication ID

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json

21 March 2020

PubMed publication ID

24996694

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24996694%20AND%20SRC:MED&resulttype=core&format=json