Literature DB >> 30422907

Prediction of HIV Transmission Cluster Growth With Statewide Surveillance Data.

Rachael M Billock1, Kimberly A Powers1, Dana K Pasquale1, Erika Samoff2, Victoria L Mobley2, William C Miller3, Joseph J Eron4, Ann M Dennis4.   

Abstract

BACKGROUND: Prediction of HIV transmission cluster growth may help guide public health action. We developed a predictive model for cluster growth in North Carolina (NC) using routine HIV surveillance data.
METHODS: We identified putative transmission clusters with ≥2 members through pairwise genetic distances ≤1.5% from HIV-1 pol sequences sampled November 2010-December 2017 in NC. Clusters established by a baseline of January 2015 with any sequences sampled within 2 years before baseline were assessed for growth (new diagnoses) over 18 months. We developed a predictive model for cluster growth incorporating demographic, clinical, temporal, and contact tracing characteristics of baseline cluster members. We internally and temporally externally validated the final model in the periods January 2015-June 2016 and July 2016-December 2017.
RESULTS: Cluster growth was predicted by larger baseline cluster size, shorter time between diagnosis and HIV care entry, younger age, shorter time since the most recent HIV diagnosis, higher proportion with no named contacts, and higher proportion with HIV viremia. The model showed areas under the receiver-operating characteristic curves of 0.82 and 0.83 in the internal and temporal external validation samples.
CONCLUSIONS: The predictive model developed and validated here is a novel means of identifying HIV transmission clusters that may benefit from targeted HIV control resources.

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Year:  2019        PMID: 30422907      PMCID: PMC6692892          DOI: 10.1097/QAI.0000000000001905

Source DB:  PubMed          Journal:  J Acquir Immune Defic Syndr        ISSN: 1525-4135            Impact factor:   3.731


  19 in total

1.  Longitudinal phylogenetic surveillance identifies distinct patterns of cluster dynamics.

Authors:  Manon Ragonnet-Cronin; Marianna Ofner-Agostini; Harriet Merks; Richard Pilon; Michael Rekart; Chris P Archibald; Paul A Sandstrom; James I Brooks
Journal:  J Acquir Immune Defic Syndr       Date:  2010-09       Impact factor: 3.731

2.  Transmission clustering drives the onward spread of the HIV epidemic among men who have sex with men in Quebec.

Authors:  Bluma G Brenner; Michel Roger; David Stephens; Daniela Moisi; Isabelle Hardy; Jonathan Weinberg; Reuven Turgel; Hugues Charest; James Koopman; Mark A Wainberg
Journal:  J Infect Dis       Date:  2011-10-01       Impact factor: 5.226

3.  Prediction models need appropriate internal, internal-external, and external validation.

Authors:  Ewout W Steyerberg; Frank E Harrell
Journal:  J Clin Epidemiol       Date:  2015-04-18       Impact factor: 6.437

4.  Identifying Transmission Clusters with Cluster Picker and HIV-TRACE.

Authors:  Rebecca Rose; Susanna L Lamers; James J Dollar; Mary K Grabowski; Emma B Hodcroft; Manon Ragonnet-Cronin; Joel O Wertheim; Andrew D Redd; Danielle German; Oliver Laeyendecker
Journal:  AIDS Res Hum Retroviruses       Date:  2016-12-13       Impact factor: 2.205

5.  Previously undiagnosed HIV infections identified through cluster investigation, North Carolina, 2002-2007.

Authors:  Natalie J M Dailey Garnes; Zack S Moore; Betsy L Cadwell; Aaron T Fleischauer; Peter Leone
Journal:  AIDS Behav       Date:  2015-04

6.  Measuring the HIV Care Continuum Using Public Health Surveillance Data in the United States.

Authors:  Catherine R Lesko; Lynne A Sampson; William C Miller; Jacquelyn Clymore; Peter A Leone; Heidi Swygard; Kimberly A Powers
Journal:  J Acquir Immune Defic Syndr       Date:  2015-12-15       Impact factor: 3.731

7.  Integration of Contact Tracing and Phylogenetics in an Investigation of Acute HIV Infection.

Authors:  Ann M Dennis; Dana K Pasquale; Rachael Billock; Steve Beagle; Victoria Mobley; Anna Cope; JoAnn Kuruc; Joseph Sebastian; Charles Walworth; Peter A Leone
Journal:  Sex Transm Dis       Date:  2018-04       Impact factor: 2.830

Review 8.  The application of HIV molecular epidemiology to public health.

Authors:  D Paraskevis; G K Nikolopoulos; G Magiorkinis; I Hodges-Mameletzis; A Hatzakis
Journal:  Infect Genet Evol       Date:  2016-06-14       Impact factor: 3.342

9.  The global transmission network of HIV-1.

Authors:  Joel O Wertheim; Andrew J Leigh Brown; N Lance Hepler; Sanjay R Mehta; Douglas D Richman; Davey M Smith; Sergei L Kosakovsky Pond
Journal:  J Infect Dis       Date:  2013-10-22       Impact factor: 5.226

10.  Automated analysis of phylogenetic clusters.

Authors:  Manon Ragonnet-Cronin; Emma Hodcroft; Stéphane Hué; Esther Fearnhill; Valerie Delpech; Andrew J Leigh Brown; Samantha Lycett
Journal:  BMC Bioinformatics       Date:  2013-11-06       Impact factor: 3.169

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  13 in total

1.  HIV Outbreak Control With Effective Access to Care and Harm Reduction in North Carolina, 2017-2018.

Authors:  Erika Samoff; Victoria Mobley; Michelle Hudgins; Anna Barry Cope; Nicole Dzialowy Adams; Christina R Caputo; Ann M Dennis; Rachael M Billock; Christy A Crowley; Jacquelyn M Clymore; Evelyn Foust
Journal:  Am J Public Health       Date:  2020-01-16       Impact factor: 9.308

2.  A hybrid of long short-term memory neural network and autoregressive integrated moving average model in forecasting HIV incidence and morality of post-neonatal population in East Asia: global burden of diseases 2000-2019.

Authors:  Ying Chen; Jiawen He; Meihua Wang
Journal:  BMC Public Health       Date:  2022-10-19       Impact factor: 4.135

3.  Near Real-Time Identification of Recent Human Immunodeficiency Virus Transmissions, Transmitted Drug Resistance Mutations, and Transmission Networks by Multiplexed Primer ID-Next-Generation Sequencing in North Carolina.

Authors:  Shuntai Zhou; Sabrina Sizemore; Matt Moeser; Scott Zimmerman; Erika Samoff; Victoria Mobley; Simon Frost; Andy Cressman; Michael Clark; Tara Skelly; Hemant Kelkar; Umadevi Veluvolu; Corbin Jones; Joseph Eron; Myron Cohen; Julie A E Nelson; Ronald Swanstrom; Ann M Dennis
Journal:  J Infect Dis       Date:  2021-03-03       Impact factor: 5.226

4.  Intersection of Syphilis and Human Immunodeficiency Virus (HIV) Networks to Identify Opportunities to Enhance HIV Prevention.

Authors:  Ann M Dennis; Andrew Cressman; Dana Pasquale; Simon D W Frost; Elizabeth Kelly; Jalila Guy; Victoria Mobley; Erika Samoff; Christopher B Hurt; Candice Mcneil; Lisa Hightow-Weidman; Monique Carry; Matthew Hogben; Arlene C Seña
Journal:  Clin Infect Dis       Date:  2022-02-11       Impact factor: 9.079

5.  Factors Associated With Human Immunodeficiency Virus Infections Linked in Genetic Clusters But Disconnected in Partner Tracing.

Authors:  Dana K Pasquale; Irene A Doherty; William C Miller; Peter A Leone; Lynne A Sampson; Sue Lynn Ledford; Joseph Sebastian; Ann M Dennis
Journal:  Sex Transm Dis       Date:  2020-02       Impact factor: 3.868

6.  Longitudinal typing of molecular HIV clusters in a statewide epidemic.

Authors:  Vlad Novitsky; Jon Steingrimsson; Mark Howison; Casey Dunn; Fizza S Gillani; Akarsh Manne; Yuanning Li; Matthew Spence; Zoanne Parillo; John Fulton; Theodore Marak; Philip Chan; Thomas Bertrand; Utpala Bandy; Nicole Alexander-Scott; Joseph Hogan; Rami Kantor
Journal:  AIDS       Date:  2021-09-01       Impact factor: 4.632

7.  Forecasting HIV-1 Genetic Cluster Growth in Illinois,United States.

Authors:  Manon Ragonnet-Cronin; Christina Hayford; Richard D'Aquila; Fangchao Ma; Cheryl Ward; Nanette Benbow; Joel O Wertheim
Journal:  J Acquir Immune Defic Syndr       Date:  2022-01-01       Impact factor: 3.771

8.  Characterization of Molecular Cluster Detection and Evaluation of Cluster Investigation Criteria Using Machine Learning Methods and Statewide Surveillance Data in Washington State.

Authors:  Steven J Erly; Joshua T Herbeck; Roxanne P Kerani; Jennifer R Reuer
Journal:  Viruses       Date:  2020-01-26       Impact factor: 5.048

9.  HIV-1 Transmission linkages among persons with incident infection to inform public health surveillance.

Authors:  Ann M Dennis; Simon D W Frost; Kimberly Enders; Andrew E Cressman; Erik Volz; Nicole Adams; William C Miller; Myron S Cohen; Victoria Mobley; Erika Samoff; Joseph J Eron
Journal:  EClinicalMedicine       Date:  2021-06-17

10.  Public health in genetic spaces: a statistical framework to optimize cluster-based outbreak detection.

Authors:  Connor Chato; Marcia L Kalish; Art F Y Poon
Journal:  Virus Evol       Date:  2020-03-13
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