Publications by authors named "Mark Howison"

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T-shaped alignments integrating HIV-1 near full-length genome and partial pol sequences can improve phylogenetic inference of transmission clusters.
August Guang, Casey W Dunn, Vlad Novitsky, Mark Howison, Rami Kantor

PLoS Comput Biol· November 2025

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Integrating Partner Services and Molecular Epidemiology Data to Enhance HIV Transmission Disruption in Rhode Island.
Aditya S Khanna, Vladimir Novitsky, August Guang, Mark Howison, Fizza S Gillani

Open Forum Infect Dis· July 2025

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Dynamics of clustering rates in the Rhode Island HIV-1 epidemic.
Vlad Novitsky, Jon Steingrimsson, August Guang, Casey W Dunn, Mark Howison

AIDS· February 2025

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Acquired Human Immunodeficiency Virus Type 1 Drug Resistance in Rhode Island, USA, 2004-2021.
Su Aung, Vlad Novitsky, Jon Steingrimsson, Fizza S Gillani, Mark Howison

J Infect Dis· December 2024

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Prospective Evaluation of Routine Statewide Integration of Molecular Epidemiology and Contact Tracing to Disrupt Human Immunodeficiency Virus Transmission.
Rami Kantor, Jon Steingrimsson, John Fulton, Vladimir Novitsky, Mark Howison

Open Forum Infect Dis· October 2024

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Occupational models from 42 million unstructured job postings.
Nile Dixon, Marcelle Goggins, Ethan Ho, Mark Howison, Joe Long

Patterns (N Y)· July 2023

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Added Value of Next Generation Sequencing in Characterizing the Evolution of HIV-1 Drug Resistance in Kenyan Youth.
Vlad Novitsky, Winstone Nyandiko, Rachel Vreeman, Allison K DeLong, Mark Howison

Viruses· June 2023

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Not all clusters are equal: dynamics of molecular HIV-1 clusters in a statewide Rhode Island epidemic.
Vlad Novitsky, Jon Steingrimsson, Mark Howison, Casey W Dunn, Fizza S Gillani

AIDS· March 2023

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An Automated Bioinformatics Pipeline Informing Near-Real-Time Public Health Responses to New HIV Diagnoses in a Statewide HIV Epidemic.
Mark Howison, Fizza S Gillani, Vlad Novitsky, Jon A Steingrimsson, John Fulton

Viruses· March 2023

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SARS-CoV-2 Variants in Rhode Island; May 2022 Update.
Manjot Singh, Vladimir Novitsky, Kristin Carpenter-Azevedo, Mark Howison, Richard C Huard

R I Med J (2013)· August 2022

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Beyond HIV outbreaks: protocol, rationale and implementation of a prospective study quantifying the benefit of incorporating viral sequence clustering analysis into routine public health interventions.
Jon A Steingrimsson, John Fulton, Mark Howison, Vlad Novitsky, Fizza S Gillani

BMJ Open· April 2022

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Comparative transmissibility of SARS-CoV-2 variants Delta and Alpha in New England, USA.
Rebecca Earnest, Rockib Uddin, Nicholas Matluk, Nicholas Renzette, Sarah E Turbett, Mark Howison

Cell Rep Med· April 2022

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Evolution of Gene Expression across Species and Specialized Zooids in Siphonophora.
Catriona Munro, Felipe Zapata, Mark Howison, Stefan Siebert, Casey W Dunn

Mol Biol Evol· February 2022

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Incorporating Within-Host Diversity in Phylogenetic Analyses for Detecting Clusters of New HIV Diagnoses.
August Guang, Mark Howison, Lauren Ledingham, Matthew D'Antuono, Philip A Chan

Front Microbiol· February 2022

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Statewide Longitudinal Trends in Transmitted HIV-1 Drug Resistance in Rhode Island, USA.
Vlad Novitsky, Jon Steingrimsson, Fizza S Gillani, Mark Howison, Su Aung

Open Forum Infect Dis· January 2022

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HIV Drug Resistance and Transmission Networks Among a Justice-Involved Population at the Time of Community Reentry in Washington, D.C.
Curt G Beckwith, Sugi Min, Akarsh Manne, Vladimir Novitsky, Mark Howison

AIDS Res Hum Retroviruses· December 2021

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Longitudinal typing of molecular HIV clusters in a statewide epidemic.
Vlad Novitsky, Jon Steingrimsson, Mark Howison, Casey Dunn, Fizza S Gillani

AIDS· September 2021

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SARS-CoV-2 Variants in Rhode Island.
Rami Kantor, Vladimir Novitsky, Kristin Carpenter-Azevedo, Mark Howison, Akarsh Manne

R I Med J (2013)· September 2021

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Revising transcriptome assemblies with phylogenetic information.
August Guang, Mark Howison, Felipe Zapata, Charles Lawrence, Casey W Dunn

PLoS One· April 2021

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Empirical comparison of analytical approaches for identifying molecular HIV-1 clusters.
Vlad Novitsky, Jon A Steingrimsson, Mark Howison, Fizza S Gillani, Yuanning Li

Sci Rep· October 2020

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Challenges in evaluating the use of viral sequence data to identify HIV transmission networks for public health.
Rami Kantor, John P Fulton, Jon Steingrimsson, Vladimir Novitsky, Mark Howison

Stat Commun Infect Dis· September 2020

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Multi-Laboratory Comparison of Next-Generation to Sanger-Based Sequencing for HIV-1 Drug Resistance Genotyping.
Neil T Parkin, Santiago Avila-Rios, David F Bibby, Chanson J Brumme, Susan H Eshleman, Mark Howison

Viruses· June 2020

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Predicting high-risk opioid prescriptions before they are given.
Justine S Hastings, Mark Howison, Sarah E Inman

Proc Natl Acad Sci U S A· January 2020

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Performance comparison of next generation sequencing analysis pipelines for HIV-1 drug resistance testing.
Emma R Lee, Neil Parkin, Cheryl Jennings, Chanson J Brumme, Eric Enns, Mark Howison

Sci Rep· January 2020

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Measurement error and variant-calling in deep Illumina sequencing of HIV.
Mark Howison, Mia Coetzer, Rami Kantor

Bioinformatics· June 2019

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