Evidence map›Paper›PMID 23994080›Full record

ArticleJournal of virological methods2013

Inferring viral population structures using heteroduplex mobility and DNA sequence analyses.

Raj Shankarappa, James I Mullins

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of virological methods, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact, top 95% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed, 2 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

2 authors at 1 institution in 1 country.

Raj ShankarappaDepartment of Microbiology, University of Washington School of Medicine, Seattle, WA 98195-8070, United States.
James I Mullins
University of Washington · US

Funding

Viral Determinants of HIV-1 Transmission in African HeterosexualsP01AI057005 · NIAID · UNIVERSITY OF WASHINGTON · PI COREY, LAWRENCE · 2003 to 2014
$20.5M
Occurrence and Outcome of Dual HIV-1 InfectionR37AI047734 · NIAID · UNIVERSITY OF WASHINGTON · PI MULLINS, JAMES IVAN · 2005 to 2014
$5.9M
OCCURRENCE AND OUTCOME OF DUAL HIV-1 INFECTIONR01AI047734 · NIAID · UNIVERSITY OF WASHINGTON · PI MULLINS, JAMES IVAN · 2000 to 2004
$2.4M
NIAID NIH HHS P01 AI057005NIAID NIH HHS R01 AI047734NIAID NIH HHS R37 AI047734NIAID NIH HHS R37AI047734
6 · The paper itself

Abstract

Heteroduplex mobility (HMA) and tracking assays (HTA) are used to assess genetic relationships between DNA molecules. While distinguishing relationships between clonal or nearly clonal molecules is relatively straightforward, inferring population structures is more complex. To address this issue, HIV-1 quasispecies with varying levels of diversity were studied using both HTA and DNA sequencing. Viral diversity estimates and the temporal features of virus evolution were found to be generally concordant between HTA and DNA sequencing. In addition, the distribution of pairwise differences and the rates of virus divergence were similar between the two methods. These findings support the use of HTA to characterize variant populations of DNA and strengthen previous inferences concerning the evolution of HIV-1 over the course of infection.

Indexed as

Genetic VariationHeteroduplex AnalysisHIV-1HIV InfectionsHumansSequence Analysis, DNAVirologyDNA sequencingHeteroduplex mobility assayHeteroduplex tracking assayHIV-1Viral diversityViral evolution

Identifiers

PMID23994080
PMCPMC3825756
OpenAlexW1976510870

What OpenQuestion holds

Textmetadata
LicenceTDM
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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.