Discover Community Create You

Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

Comparison of population and 454 "deep" sequence analysis for HIV type 1 tropism versus the original trofile assay in non-B subtypes.

AIDS research and human retroviruses - 1 Jun 2013

Lee Guinevere Q, Harrigan P Richard, Dong Winnie, Poon Art F Y, Heera Jayvant, Demarest James, Rinehart Alex, Chapman Doug, Valdez Hernan, Portsmouth Simon

Abstract excerpt

HIV-1 tropism can be predicted using V3 genotypic algorithms. The performance of these prediction algorithms for non-B subtypes is poorly characterized. Here, we use these genotypic algorithms to predict viral tropism of HIV-1 subtype A, B, C, and D to find apparent sensitivity, specificity, and concordance against a recombinant phenotypic assay, the original Trofile assay. This is a substudy of an...

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to Algorithms
Share to Genotype

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Share to HIV Envelope Protein gp120

Share to Peptide Fragments

Share to Sensitivity and Specificity

Share to Sequence Analysis, DNA

Share to Viral Tropism

Source

Open in PubMed Open full text

Identifiers

PMID: 23350534
DOI: 10.1089/aid.2012.0338
PMCID: PMC3653393

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-07.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

Related research

Semantic proximity does not establish scientific evidence.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

Comparison of population and 454 "deep" sequence analysis for HIV type 1 tropism versus the original trofile assay in non-B subtypes.PMID 23350534Read ↗

Improved Detection of CXCR4-Using HIV by V3 Genotyping: Application of Population-Based and “Deep” Sequencing to Plasma RNA and Proviral DNASemantic proximity Read ↗

Comparative determination of HIV-1 co-receptor tropism by Enhanced Sensitivity Trofile, gp120 V3-loop RNA and DNA genotyping.Semantic proximity Read ↗

Comparison of genotypic and phenotypic HIV type 1 tropism assay: results from the screening samples of Cenicriviroc Study 202, a randomized phase II trial in treatment-naive subjects.Semantic proximity Read ↗

Population-based V3 genotypic tropism assay: a retrospective analysis using screening samples from the A4001029 and MOTIVATE studies.Semantic proximity Read ↗

Concordance of HIV type 1 tropism phenotype to predictions using web-based analysis of V3 sequences: composite algorithms may be needed to properly assess viral tropism.Semantic proximity Read ↗

Performance of commonly used genotypic assays and comparison with phenotypic assays of HIV-1 coreceptor tropism in acutely HIV-1-infected patients.Semantic proximity Read ↗

HIV-V3Augur: A Novel Machine Learning Model for Predicting HIV-1 Tropism in Sub-Subtype A6 and CRF63_02A6, Predominant Variants in Russia and Countries of the Former Soviet Union.Semantic proximity Read ↗

Genotypic tropism testing by massively parallel sequencing: qualitative and quantitative analysis.Semantic proximity Read ↗

Performance of genotypic algorithms for predicting HIV-1 tropism measured against the enhanced-sensitivity Trofile coreceptor tropism assay.Semantic proximity Read ↗

Prediction of HIV type 1 subtype C tropism by genotypic algorithms built from subtype B viruses.Semantic proximity Read ↗

Genotypic prediction of HIV-1 subtype D tropism.Semantic proximity Read ↗

Evaluation of eight different bioinformatics tools to predict viral tropism in different human immunodeficiency virus type 1 subtypes.Semantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.