Conference Abstracts

A Gonzalez-Serna, LC Swenson, A Nohpal, B Watson, K Auyeung, JSG Montaner, PR Harrigan. Untimed Drug Levels and Resistance in Patients Experiencing Low-Level HIV Viremia. 22nd Conference on Retroviruses and Opportunistic Infections (CROI 2015). February 23-26, 2015.


S Land, G Vincini, LC Swenson, PR Harrigan. External Quality Assessment for HIV Coreceptor Tropism Testing. 20th International AIDS Conference (AIDS 2014). July 20-25, 2014. Melbourne, Australia.


PK Cheung, LC Swenson, CJ Brumme, L Barrios, PR Harrigan. Characterization of a Key Region of the gp120 V3 Loop that Confers Noncompetitive Resistance to Maraviroc. 23rd Annual Canadian Conference on HIV/AIDS Research (CAHR 2014). May 1-4, 2014. St. John’s, NL, Canada.


LC Swenson, W Dong, CKS Chui, C Woods, M Robbins, A Gonzalez-Serna, A Karakas, A Poon, CJ Brumme, PR Harrigan. Tropism Testing by MiSeq Is Comparable to 454-Based Methods but Exhibits Contamination Issues. 21st Conference on Retroviruses and Opportunistic Infections (CROI 2014). March 3-6, 2014. Boston, MA, USA.


A Gonzalez-Serna, CJ Brumme, W Dong, E Cai, A Poon, KD Huber, N Sluis-Cremer, EE Paxinos, LC Swenson, PR Harrigan. A Proposed HIV Reference Sample Characterized by Three Next-Generation Sequencing Platforms. 21st Conference on Retroviruses and Opportunistic Infections (CROI 2014). March 3-6, 2014. Boston, MA, USA



LC Swenson, A Gonzalez-Serna, J Min, CK Woods, JZ Li, PR Harrigan. HIV Drug Resistance Occurring During Low-Level Viremia Is Associated with Subsequent Virologic Failure. International Workshop on HIV & Hepatitis Virus Drug Resistance and Curative Strategies. June 4-8, 2013. Toronto, ON, Canada.


S Land, E Tu, L Swenson, A Kelleher, S Kaye, SL Pett, R Kaiser, D Silk, N Berthon-Jones, S Emery, PR Harrigan, for the MARCH Study Laboratory Group. Proviral DNA Testing of HIV Tropism in the Maraviroc Switch Collaborative Study (MARCH) – Results of a Three-Phase Quality Assurance (QA). International Workshop on HIV & Hepatitis Virus Drug Resistance and Curative Strategies. June 4-8, 2013. Toronto, ON, Canada.


LC Swenson, CJ Brumme, RM Kagan, PR Harrigan. Independent Replication Shows High Inter-Laboratory Concordance in Next-Generation Sequencing for HIV Minority Species Detection. 22nd Annual Canadian Conference on HIV/AIDS Research (CAHR 2013). April 11-14, 2013. Vancouver, BC, Canada.


A Gonzalez-Serna, J Min, C Woods, V Lima, JS Montaner, PR Harrigan, LC Swenson. Clinical Relevance of HIV Drug Resistance Testing at Low Viral Load. 22nd Annual Canadian Conference on HIV/AIDS Research (CAHR 2013). April 11-14, 2013. Vancouver, BC, Canada.


R Liang, T Mo, W Dong, G Lee, L Swenson, R McCloskey, C Woods, C Brumme, PR Harrigan, A Poon. Impact of Experimental Conditions on the Utility of "Primer ID" Tagging for Next-Generation HIV Sequencing. 22nd Annual Canadian Conference on HIV/AIDS Research (CAHR 2013). April 11-14, 2013. Vancouver, BC, Canada.


A Gonzalez-Serna, J Min, C Woods, J Li, PR Harrigan, LC Swenson. Low Level HIV Viremia and Drug Resistance. 20th Conference on Retroviruses and Opportunistic Infections (CROI 2013). March 3-6, 2013. Atlanta, GA, USA.


R Liang, T Mo, W Dong, G Lee, L Swenson, R McCloskey, C Woods, C Brumme, PR Harrigan, A Poon. Impact of Experimental Conditions on the Utility of "Primer ID" Tagging for Next-Generation HIV Sequencing. 20th Conference on Retroviruses and Opportunistic Infections (CROI 2013). March 3-6, 2013. Atlanta, GA, USA.



A Gonzalez-Serna, J Min, C Woods, JS Montaner, PR Harrigan, LC Swenson. Drug Resistance Testing at HIV-1 Low Level Viraemia Predicts Future Virological Outcomes. HIV DART.  December 4-7, 2012. San Diego, CA, USA.


E Tu, L Swenson, S Land, A Kelleher, S Kaye, SL Pett, R Kaiser, D Silk, N Berthon-Jones, S Emery, PR Harrigan for the MARCH Study Laboratory Group. Proviral DNA Testing of HIV Tropism in the Maraviroc Switch Collaborative Study (MARCH). Australasian HIV/AIDS Conference. October 17-19, 2012. Melbourne, Australia.


LC Swenson, W Dong, T Mo, JJ Taylor, L Barrios, C Woods, D Chan, PR Harrigan. Routine Deep Sequencing Using a 454 GS-Junior Instrument for HIV Tropism Determination in the Clinical Setting. 21st Annual Canadian Conference on HIV/AIDS Research (CAHR 2012). April 19-22, 2012. Montreal, QC, Canada.


LC Swenson, PR Harrigan, EM Bunnik, H Schuitemaker, AB van 't Wout. Deep V3 Sequencing Indicates Ongoing CXCR4 Evolution in the Period Following a Phenotypic Tropism Change. 19th Conference on Retroviruses and Opportunistic Infections (CROI 2012). March 5-8, 2012. Seattle, WA, USA.


S McLaughlin, P Hughes, S Hu, L Swenson, R Coombs, R Harrigan, L Frenkel. Optimization of a Novel Codon-Specific PCR-Based Assay to Detect CXCR4-Utilizing HIV-1 Subtype B Variants. 19th Conference on Retroviruses and Opportunistic Infections (CROI 2012). March 5-8, 2012. Seattle, WA, USA.



AFY Poon, L Swenson, D Edo-Matas, EM Bunnik, H Schuitemaker, AB van ‘t Wout, PR Harrigan. Timing the Emergence of Predicted CXCR4-Using HIV Variants within Patient Compartments by the Coalescent Analysis of V3 Deep Sequence Data. International HIV & Hepatitis Virus Drug Resistance Workshop and Curative Strategies. June 7-11, 2011. Los Cabos, Mexico.


LC Swenson, R McGovern, I James, J Demarest, D Chapman, S Ellery, J Heera, H Valdez, R Harrigan, A Poon. Genotypic Analysis of Cellular HIV V3 DNA to Predict Virologic Response to Maraviroc: Performance of Population-based and 454 Deep V3 Sequencing. 18th Conference on Retroviruses and Opportunistic Infections (CROI 2011). February 27 – March 3, 2011. Boston, MA, USA.


R Harrigan, C Sherlock, R Hogg, B Wynhoven, C Chui, LC Swenson, V Lima, J Montaner. What Should Be the Primary Virological Endpoint in Clinical Trials of ARV Efficacy? 18th Conference on Retroviruses and Opportunistic Infections (CROI 2011). February 27 – March 3, 2011. Boston, MA, USA.


J Heera, R Harrigan, M Lewis, D Chapman, P Biswas, L Swenson, S Portsmouth, H Valdez. Predicting MVC Responses According to Absolute Number vs Proportion of CXCR-4 Using Virus among Treatment-experienced Patients. 18th Conference on Retroviruses and Opportunistic Infections (CROI 2011). February 27 – March 3, 2011. Boston, MA, USA.



LC Swenson, D Knapp, PR Harrigan. Calibration and Accuracy of the Geno2pheno Co­receptor Algorithm for Predicting HIV Tropism for Single and Triplicate Measurements of V3 Genotype. 10th International Congress on Drug Therapy in HIV Infection. November 7-11, 2010. Glasgow, Scotland, UK.


C Brumme, W Dong, D Chan, T Mo, LC Swenson, C Woods, J Demarest, J Heera, H Valdez, PR Harrigan. Short-Term Biological Variation of HIV Tropism in the Absence of CCR5-Antagonists. 10th International Congress on Drug Therapy in HIV Infection. November 7-11, 2010. Glasgow, Scotland, UK.


D Chapman, P Biswas, M Lewis, C Craig, J Heera, S Ellery, L Swenson, PR Harrigan, H.Valdez. Influence of Amount and Percentage of CXCR4-Using Virus in Predicting Week 48 Responses to Maraviroc in Treatment-Naive Patients. 10th International Congress on Drug Therapy in HIV Infection. November 7-11, 2010 Glasgow, Scotland, UK.


D Chapman, H Valdez, M Lewis, I James, RA McGovern, LC Swenson, PR Harrigan, J Heera. Clinical, Virological, and Immunological Characteristics of Patients with Discordant Phenotypic and Genotypic (Ultra-Deep Sequencing) Tropism Test Results: Analysis of Tropism Calls in MOTIVATE and 1029. 50th Interscience Conference on Antimicrobial Agents and Chemotherapy (ICAAC 2010). September 12-15, 2010. Boston, MA, USA.


S Portsmouth, M Lewis, C Craig, D Chapman, LC Swenson, J Heera. Long-Term Outcome of Individuals Experiencing a Phenotypic Switch in HIV-1 Coreceptor Use in the MERIT Study. 50th Interscience Conference on Antimicrobial Agents and Chemotherapy (ICAAC 2010). September 12-15, 2010. Boston, MA, USA.


LC Swenson, CKS Chui, CJ Brumme, D Chan1, CK Woods, T Mo, W Dong, D Chapman, M Lewis, J Demarest, I James, S Portsmouth, J Heera, H Valdez, PR Harrigan. Genotypic Analysis of V3 in Patients Experiencing Virologic Failure on Maraviroc-containing Regimens and Correlation with Pre-treatment “Deep” Sequencing Results. International HIV & Hepatitis Virus Drug Resistance Workshop and Curative Strategies. June 8-12, 2010. Dubrovnik, Croatia.


S Portsmouth, M Lewis, C Craig, D Chapman, LC Swenson, J Heera. Long Term Outcome of Individuals Experiencing a Phenotypic Switch in HIV-1 Co-receptor Use in the MERIT Study. International HIV & Hepatitis Virus Drug Resistance Workshop and Curative Strategies. June 8-12, 2010. Dubrovnik, Croatia.


D Chapman, H Valdez, M Lewis, I James, RA McGovern, LC Swenson, PR Harrigan, J Heera. Clinical, Virological, and Immunological Characteristics of Patients with Discordant Phenotypic and Genotypic Co-receptor Tropism Test Results. International HIV & Hepatitis Virus Drug Resistance Workshop and Curative Strategies. June 8-12, 2010. Dubrovnik, Croatia.


GQ Lee, LC Swenson, JN Martin, SG Deeks, PR Harrigan. Discordance in Prevalence of Raltegravir-Resistant HIV in Plasma versus PBMC Samples. 19th Annual Canadian Conference on HIV/AIDS Research (CAHR 2010). May 13-16 2010. Saskatoon, SK, Canada.


LC Swenson, W Dong, T Mo, A Thielen, M Jensen, D Chapman, I James, J Heera, H Valdez, PR Harrigan. Large-Scale Application of “Deep” Sequencing Using 454 Technology to HIV Tropism Screening. 17th Conference on Retroviruses and Opportunistic Infections (CROI 2010). February 16-19, 2010. San Francisco, CA, USA.


A van 't Wout, L Swenson, W Dong, H Schuitemaker, PR Harrigan. Detection of Predicted CXCR4-Using HIV-1 Variants in Longitudinally Obtained Paired Plasma and PBMC Samples Using 454-Sequencing. 17th Conference on Retroviruses and Opportunistic Infections (CROI 2010). February 16-19, 2010. San Francisco, CA, USA.


Thielen A, Lengauer T, Harrigan PR, Swenson L, Dong W, McGovern RA, et al. Mutations within GP41 Are Correlated with Coreceptor Tropism but Do Not Substantially Improve Coreceptor Usage Prediction. 8th European HIV Drug Resistance Workshop. March 17-19 2010. Sorrento, Italy.


R Harrigan, L Swenson, R McGovern, G Lee, X Zhong, D Knapp. Clinical Update on HIV Drug Resistance to Entry Inhibitors. 8th European HIV Drug Resistance Workshop. March 17-19 2010. Sorrento, Italy.



LC Swenson, W Dong, T Mo, C Woods, X Zhong, A Thielen, M Jensen, J Heera, P Biswas, S Ellery, M Lewis, I James, D Chapman, H Valdez, PR Harrigan. "Deep" Sequencing to Identify Treatment-Experienced Patients Who Respond to Maraviroc (MVC). 12th European AIDS Conference. November 11-14, 2009. Cologne, Germany.


Swenson LC, McGovern RA, Dong W, Mo T, Lee GQ, Thielen A, et al. Optimization of Clinically Relevant Cutoffs for Determining HIV Co-Receptor Use by Population and Deep Sequencing Methods. Infectious Diseases Society of America 47th Annual Meeting (IDSA 2009). October 29 - November 1, 2009. Philadelphia, PA, USA.


LC Swenson, G Lee, T Mo, C Woods, PR Harrigan. “Deep” Sequencing to Quantify in vivo Viral Fitness after Transmission of Resistant HIV. 49th Interscience Conference on Antimicrobial Agents and Chemotherapy (ICAAC 2009). September 12-15, 2009. San Francisco, CA, USA.


L Swenson, R McGovern, W Dong, T Mo, G Lee, PR Harrigan. Phenotypic Screening for HIV Tropism versus Both Population-Based and “Deep” Sequencing. 49th Interscience Conference on Antimicrobial Agents and Chemotherapy (ICAAC 2009). September 12-15, 2009. San Francisco, CA, USA.


PR Harrigan, R McGovern, W Dong, L Swenson, A Thielen, M Jensen, T Mo, D Chapman, M Lewis, I James, J Heera, S Ellery, H Valdez. Screening for HIV Tropism Using Population-Based V3 Genotypic Analysis: A Retrospective Virological Outcome Analysis Using Stored Plasma Screening Samples from MOTIVATE-1. 5th International AIDS Society Conference on HIV Pathogenesis, Treatment & Prevention (IAS 2009). July 19-22, 2009. Cape Town, South Africa.


Z Brumme, P Rosato, J Sela, CJ Brumme, MA Brockman, M John, JM Carlson, B Baker, H Streeck, L Swenson, D Chan, M Markowitz, H Jessen, A Kelleher, J Rychert, E Rosenberg, TM Allen, M Altfeld, CT Berger, N Frahm, C Brander, PR Harrigan, S Mallal, D Heckerman, B Walker. HLA Class I-Driven Evolution in HIV-1 Integrase in the First Year of Infection. 5th International AIDS Society Conference on HIV Pathogenesis, Treatment & Prevention (IAS 2009). July 19-22, 2009. Cape Town, South Africa.


AB van 't Wout, LC Swenson, MRA Welkers, W Dong, H Schuitemaker, PR Harrigan. Detection of CXCR4-using HIV-1 Variants in Longitudinally Obtained Paired Plasma and PBMC Samples Using 454-Sequencing. 18th International HIV Drug Resistance Workshop. June 9-13, 2009. Fort Myers, FL, USA.


Z Brumme; P Rosato; J Sela; C Brumme; M Brockman; M John; J Carlson; H Streeck; L Swenson; D Chan; M Markowitz; H Jessen; A Kelleher; E Rosenberg; T Allen; M Altfeld; R Harrigan; S Mallal; D Heckerman; B Walker. HLA Class I-Driven Evolution in HIV-1 Integrase in the First Year of Infection. Keystone Symposia. March 22-29, 2009. Keystone, CO, USA.


LC Swenson, E Hudson, T Mo, C Woods, J Archer, D Robertson, JS Montaner, PR Harrigan. Measurement of Low-level Drug-Resistance Mutations Using Deep Sequencing Technology upon Restarting HAART. 16th Conference on Retroviruses and Opportunistic Infections (CROI 2009). February 8-11, 2009. Montreal, QC, Canada.


L Swenson, W Dong, T Mo, C Woods, A Thielen, M Jensen, C Glascock, JS Montaner, PR Harrigan. Quantification of HIV Tropism by "Deep" Sequencing Shows a Broad Distribution of Prevalence of X4 Variants in Clinical Samples that Is Associated with Virological Outcome. 16th Conference on Retroviruses and Opportunistic Infections (CROI 2009). February 8-11, 2009. Montreal, QC, Canada.


V Lima, O Eyawo, L Swenson, R Hogg, J Montaner, R Harrigan. Drug Resistance Monitoring Practices Are Strongly Associated with Mortality. 16th Conference on Retroviruses and Opportunistic Infections (CROI 2009). February 8-11, 2009. Montreal, QC, Canada.



ZL Brumme, M John, CJ Brumme, JM Carlson, R Haubrich, S Riddler, L Swenson, I Tao, S Szeto, D Chan, C Kadie, N Frahm, C Brander, B Walker, D Heckerman, PR Harrigan, S Mallal. Relationship between HLA Class I-Driven Evolution in Gag, Pol and Nef and Clinical Markers of HIV Disease: A Multi-Center Collaborative Study. AIDS Vaccine 2008 Conference. October 13-16, 2008. Cape Town, South Africa.


D Heckerman, CJ Brumme, M John, JM Carlson, R Haubrich, S Riddler, L Swenson, I Tao, S Szeto, D Chan, C Kadie, N Frahm, C Brander, B Walker, ZL Brumme, PR Harrigan, S Mallal. Relationship Between HLA Class 1-Driven Evolution in Gag, Pol, Nef, and Clinical Markers of HIV Disease: A Multi-Centre Collaborative Study. 15th International Workshop on HIV Dynamics and Evolution. April 27-30, 2008. Santa Fe, NM, USA.


PR Harrigan; J Carlson; L Swenson; B Wynhoven; R Hogg; D Heckerman; C Brumme; K Fernandes; Z Brumme. HIV Evolution after Therapy: Integration of HLA Class 1-Associated and Antiretroviral Drug Selection Pressures. Keystone Symposia. March 27 - April 1, 2008. Banff, AB, Canada.


D Heckerman, CJ Brumme, M John, JM Carlson, L Swenson, I Tao, S Szeto, C Kadie, N Frahm, C Brander, B Walker, ZL Brumme, PR Harrigan, S Mallal. Differential Impact of HLA Class I-Driven Evolution in Gag, Pol and Nef on HIV Disease Markers: A Multicenter, International Collaborative Study. Keystone Symposia. March 27 - April 1, 2008. Banff, AB, Canada.


JM Carlson, ZL Brumme, CJ Brumme, L Swenson, S Szeto, I Tao, C Kadie, B Walker, PR Harrigan, D Heckerman. Dense Networks of Correlated Substitutions Accompany Adaptations to HLA-Restricted CTL Epitopes. 15th Conference on Retroviruses and Opportunistic Infections (CROI 2008). February 3-6, 2008. Boston, MA, USA.