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Mining for pairs: shared clinic visit dates identify steady HIV-positive partnerships


Marzel, A; Shilaih, Mohaned; Turk, T; Campbell, Nottania K; Yang, Wan-Lin; Böni, J; Yerly, S; Klimkait, T; Aubert, V; Furrer, H; Calmy, A; Battegay, M; Cavassini, M; Bernasconi, E; Schmid, P; Metzner, K J; Gunthard, H F; Kouyos, R D; Swiss HIV Cohort Study (2017). Mining for pairs: shared clinic visit dates identify steady HIV-positive partnerships. HIV Medicine, 18(9):667-676.

Abstract

OBJECTIVES: Here we examined the hypothesis that some stable HIV-infected partnerships can be found in cohort studies, as the patients frequently attend the clinic visits together.
METHODS: Using mathematical approximations and shuffling to derive the probabilities of sharing a given number of visits by chance, we identified and validated couples that may represent either transmission pairs or serosorting couples in a stable relationship.
RESULTS: We analysed 434 432 visits for 16 139 Swiss HIV Cohort Study patients from 1990 to 2014. For 89 pairs, the number of shared visits exceeded the number expected. Of these, 33 transmission pairs were confirmed on the basis of three criteria: an extensive phylogenetic tree, a self-reported steady HIV-positive partnership, and risk group affiliation. Notably, 12 of the validated transmission pairs (36%; 12 of 33) were of a mixed ethnicity with a large median age gap [17.5 years; interquartile range (IQR) 11.8-22 years] and these patients harboured HIV-1 of predominantly non-B subtypes, suggesting imported infections.
CONCLUSIONS: In the context of the surge in research interest in HIV transmission pairs, this simple method widens the horizons of research on within-pair quasi-species exchange, transmitted drug resistance and viral recombination at the biological level and targeted prevention at the public health level.

Abstract

OBJECTIVES: Here we examined the hypothesis that some stable HIV-infected partnerships can be found in cohort studies, as the patients frequently attend the clinic visits together.
METHODS: Using mathematical approximations and shuffling to derive the probabilities of sharing a given number of visits by chance, we identified and validated couples that may represent either transmission pairs or serosorting couples in a stable relationship.
RESULTS: We analysed 434 432 visits for 16 139 Swiss HIV Cohort Study patients from 1990 to 2014. For 89 pairs, the number of shared visits exceeded the number expected. Of these, 33 transmission pairs were confirmed on the basis of three criteria: an extensive phylogenetic tree, a self-reported steady HIV-positive partnership, and risk group affiliation. Notably, 12 of the validated transmission pairs (36%; 12 of 33) were of a mixed ethnicity with a large median age gap [17.5 years; interquartile range (IQR) 11.8-22 years] and these patients harboured HIV-1 of predominantly non-B subtypes, suggesting imported infections.
CONCLUSIONS: In the context of the surge in research interest in HIV transmission pairs, this simple method widens the horizons of research on within-pair quasi-species exchange, transmitted drug resistance and viral recombination at the biological level and targeted prevention at the public health level.

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Additional indexing

Item Type:Journal Article, refereed, original work
Communities & Collections:04 Faculty of Medicine > Institute of Medical Virology
04 Faculty of Medicine > University Children's Hospital Zurich > Medical Clinic
04 Faculty of Medicine > University Hospital Zurich > Clinic for Infectious Diseases
Dewey Decimal Classification:610 Medicine & health
Uncontrolled Keywords:HIV , cohort studies, data mining, epidemiology, phylogeny, transmission
Language:English
Date:4 April 2017
Deposited On:04 Aug 2017 15:16
Last Modified:19 Aug 2018 09:46
Publisher:Wiley-Blackwell Publishing, Inc.
ISSN:1464-2662
OA Status:Closed
Free access at:Publisher DOI. An embargo period may apply.
Publisher DOI:https://doi.org/10.1111/hiv.12507
PubMed ID:28378387
Project Information:
  • : FunderSNSF
  • : Grant ID324730_130865
  • : Project TitleHIV-1 Transmission in Switzerland: Long term-molecular epidemiology and biological properties of transmitted viruses
  • : FunderFP7
  • : Grant ID265280
  • : Project TitleKULTURISK - Knowledge-based approach to develop a cULTUre of Risk prevention
  • : FunderFP7
  • : Grant ID213569
  • : Project TitleCESAR - CO2 Enhanced Separation and Recovery
  • : FunderFP7
  • : Grant ID212470
  • : Project TitleHYCYCLES - Materials and components for Hydrogen production by sulphur based thermochemical cycles
  • : FunderFP7
  • : Grant ID256830
  • : Project TitleHITECO - New solar collector concept for high temperature operation in CSP applications
  • : FunderFP7
  • : Grant ID223131
  • : Project TitleCHAIN - Collaborative HIV and Anti-HIV Drug Resistance Network

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