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Population genomics of intrapatient HIV-1 evolution
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1 reference
stated in
Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
title
Population genomics of intrapatient HIV-1 evolution
(English)
1 reference
stated in
Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
main subject
HIV
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genomics
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author
Fabio Zanini
series ordinal
1
1 reference
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Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
Richard A. Neher
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7
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Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
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2 March 2020
Jan Albert
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Jan Albert
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Europe PubMed Central
PMC publication ID
4718817
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
Göran Bratt
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Göran Bratt
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Europe PubMed Central
PMC publication ID
4718817
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retrieved
2 March 2020
author name string
Johanna Brodin
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2
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Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
Lina Thebo
series ordinal
3
1 reference
stated in
Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
Christa Lanz
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4
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Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
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2 March 2020
language of work or name
English
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publication date
11 December 2015
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Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
published in
eLife
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stated in
Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
volume
4
1 reference
stated in
Europe PubMed Central
PMC publication ID
4718817
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
describes a project that uses
NumPy
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Matplotlib
0 references
Biopython
0 references
SAMtools
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pandas
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30 September 2017
Dynamics of viral evolution and CTL responses in HIV-1 infection
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Early selection in Gag by protective HLA alleles contributes to reduced HIV-1 replication capacity that may be largely compensated for in chronic infection
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30 September 2017
Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing
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Dynamics of HIV-1 quasispecies during antiviral treatment dissected using ultra-deep pyrosequencing
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30 September 2017
Recombination rate and selection strength in HIV intra-patient evolution
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30 September 2017
The Sequence Alignment/Map format and SAMtools
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30 September 2017
Genetic identity, biological phenotype, and evolutionary pathways of transmitted/founder viruses in acute and early HIV-1 infection
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30 September 2017
The first T cell response to transmitted/founder virus contributes to the control of acute viremia in HIV-1 infection
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30 September 2017
Quantitative deep sequencing reveals dynamic HIV-1 escape and large population shifts during CCR5 antagonist therapy in vivo
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30 September 2017
FastTree: computing large minimum evolution trees with profiles instead of a distance matrix
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30 September 2017
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30 September 2017
Adaptation of HIV-1 to human leukocyte antigen class I
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30 September 2017
Selection of HIV variants with signature genotypic characteristics during heterosexual transmission
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30 September 2017
Human immunodeficiency virus type 1 population genetics and adaptation in newly infected individuals.
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30 September 2017
Transmission and long-term stability of compensated CD8 escape mutations
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30 September 2017
In vivo fitness cost of the M184V mutation in multidrug-resistant human immunodeficiency virus type 1 in the absence of lamivudine
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30 September 2017
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30 September 2017
Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection
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30 September 2017
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30 September 2017
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30 September 2017
HIV evolutionary dynamics within and among hosts
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30 September 2017
Rapid reversion of sequence polymorphisms dominates early human immunodeficiency virus type 1 evolution
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30 September 2017
Stochastic or deterministic: what is the effective population size of HIV-1?
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30 September 2017
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30 September 2017
Human immunodeficiency virus type 1 env evolves toward ancestral states upon transmission to a new host.
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30 September 2017
Selective escape from CD8+ T-cell responses represents a major driving force of human immunodeficiency virus type 1 (HIV-1) sequence diversity and reveals constraints on HIV-1 evolution
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30 September 2017
Human immunodeficiency virus mutations during the first month of infection are preferentially found in known cytotoxic T-lymphocyte epitopes
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30 September 2017
Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method
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30 September 2017
Evolution of human immunodeficiency virus under selection and weak recombination
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30 September 2017
Determinants of human immunodeficiency virus type 1 escape from the primary CD8+ cytotoxic T lymphocyte response
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
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30 September 2017
Dynamics of HIV viremia and antibody seroconversion in plasma donors: implications for diagnosis and staging of primary HIV infection
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30 September 2017
Microbial genetics: Evolution experiments with microorganisms: the dynamics and genetic bases of adaptation
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30 September 2017
Reliable prediction of T-cell epitopes using neural networks with novel sequence representations
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30 September 2017
Rapid evolution of the neutralizing antibody response to HIV type 1 infection
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30 September 2017
Evolution of lamivudine resistance in human immunodeficiency virus type 1-infected individuals: the relative roles of drift and selection
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30 September 2017
Consistent viral evolutionary changes associated with the progression of human immunodeficiency virus type 1 infection
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
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30 September 2017
Linkage disequilibrium test implies a large effective population number for HIV in vivo
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
retrieved
30 September 2017
Clonal interference and the evolution of RNA viruses.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
retrieved
30 September 2017
Stochastic processes strongly influence HIV-1 evolution during suboptimal protease-inhibitor therapy
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
retrieved
30 September 2017
Analysis of HIV-1 env gene sequences reveals evidence for a low effective number in the viral population
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
retrieved
30 September 2017
The hitch-hiking effect of a favourable gene
2 references
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
retrieved
30 September 2017
stated in
PubMed
reference URL
https://pubmed.ncbi.nlm.nih.gov/26652000
retrieved
12 December 2020
based on heuristic
inferred from PubMed ID database lookup
Clinical picture of primary HIV infection presenting as a glandular-fever-like illness
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
retrieved
30 September 2017
Integrating genealogical and dynamical modelling to infer escape and reversion rates in HIV epitopes.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
retrieved
21 September 2018
HIV evolution: CTL escape mutation and reversion after transmission
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4718817
retrieved
21 September 2018
Reversion of CTL escape–variant immunodeficiency viruses in vivo
1 reference
stated in
Crossref
reference URL
https://api.crossref.org/works/10.7554%2FELIFE.11282
retrieved
21 January 2018
Matplotlib: A 2D Graphics Environment
1 reference
stated in
Crossref
reference URL
https://api.crossref.org/works/10.7554%2FELIFE.11282
retrieved
21 January 2018
New insights into the evolutionary rate of HIV-1 at the within-host and epidemiological levels
1 reference
stated in
Crossref
reference URL
https://api.crossref.org/works/10.7554%2FELIFE.11282
retrieved
21 January 2018
The NumPy Array: A Structure for Efficient Numerical Computation
1 reference
stated in
Crossref
reference URL
https://api.crossref.org/works/10.7554%2FELIFE.11282
retrieved
21 January 2018
Identifiers
DOI
10.7554/ELIFE.11282
1 reference
stated in
Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
arXiv ID
1509.02483
1 reference
stated in
Unpaywall
Internet Archive ID
arxiv-1509.02483
0 references
PMC publication ID
4718817
1 reference
stated in
Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
PubMed publication ID
26652000
1 reference
stated in
Europe PubMed Central
PMC publication ID
4718817
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26652000%20AND%20SRC:MED&resulttype=core&format=json
retrieved
2 March 2020
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