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Andrea S. Foulkes - Publications

Affiliations: 
Public Health University of Massachusetts, Amherst, Amherst, MA 
Area:
Public Health, Statistics
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43 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Abdulhaqq SA, Martinez M, Kang G, Rodriguez IV, Nichols SM, Beaumont D, Joseph J, Azzoni L, Yin X, Wise M, Weiner D, Liu Q, Foulkes A, Münch J, Kirchhoff F, et al. Repeated semen exposure decreases cervicovaginal SIVmac251 infection in rhesus macaques. Nature Communications. 10: 3753. PMID 31434895 DOI: 10.1038/S41467-019-11814-5  0.389
2019 Ray EL, Qian J, Brecha R, Reilly MP, Foulkes AS. Stochastic imputation for integrated transcriptome association analysis of a longitudinally measured trait. Statistical Methods in Medical Research. 962280219852720. PMID 31172883 DOI: 10.1177/0962280219852720  0.357
2018 Qian J, Ray E, Brecha RL, Reilly MP, Foulkes AS. A likelihood-based approach to transcriptome association analysis. Statistics in Medicine. PMID 30515859 DOI: 10.1002/Sim.8040  0.362
2017 Qian J, Nunez S, Kim S, Reilly MP, Foulkes AS. A score test for genetic class-level association with nonlinear biomarker trajectories. Statistics in Medicine. PMID 28543585 DOI: 10.1002/Sim.7314  0.324
2016 Chen S, Nunez S, Reilly MP, Foulkes AS. Bayesian variable selection for post-analytic interrogation of susceptibility loci. Biometrics. PMID 27858978 DOI: 10.1111/Biom.12620  0.31
2016 Ballantyne RL, Zhang X, Nuñez S, Xue C, Zhao W, Reed E, Salaheen D, Foulkes AS, Li M, Reilly MP. Genome-wide interrogation reveals hundreds of long intergenic noncoding RNAs that associate with cardiometabolic traits. Human Molecular Genetics. PMID 27288454 DOI: 10.1093/Hmg/Ddw154  0.316
2015 Abdulhaqq SA, Zorrilla C, Kang G, Yin X, Tamayo V, Seaton KE, Joseph J, Garced S, Tomaras GD, Linn KA, Foulkes AS, Azzoni L, VerMilyea M, Coutifaris C, Kossenkov AV, et al. HIV-1-negative female sex workers sustain high cervical IFNɛ, low immune activation, and low expression of HIV-1-required host genes. Mucosal Immunology. PMID 26555708 DOI: 10.1038/Mi.2015.116  0.402
2015 Papasavvas E, Foulkes A, Yin X, Joseph J, Ross B, Azzoni L, Kostman JR, Mounzer K, Shull J, Montaner LJ. Plasmacytoid dendritic cell and functional HIV Gag p55-specific T cells before treatment interruption can inform set-point plasma HIV viral load after treatment interruption in chronically suppressed HIV-1(+) patients. Immunology. 145: 380-90. PMID 25684333 DOI: 10.1111/Imm.12452  0.416
2015 Matthews GJ, Foulkes AS. MixMAP: AnRPackage for Mixed Modeling of Meta-AnalysispValues in Genetic Association Studies Journal of Statistical Software. 66. DOI: 10.18637/Jss.V066.C03  0.328
2014 Abdulhaqq SA, Martinez MI, Kang G, Foulkes AS, Rodriguez IV, Nichols SM, Hunter M, Sariol CA, Ruiz LA, Ross BN, Yin X, Speicher DW, Haase AT, Marx PA, Li Q, et al. Serial cervicovaginal exposures with replication-deficient SIVsm induce higher dendritic cell (pDC) and CD4+ T-cell infiltrates not associated with prevention but a more severe SIVmac251 infection of rhesus macaques. Journal of Acquired Immune Deficiency Syndromes (1999). 65: 405-13. PMID 24226059 DOI: 10.1097/Qai.0000000000000047  0.304
2013 Azzoni L, Foulkes AS, Papasavvas E, Mexas AM, Lynn KM, Mounzer K, Tebas P, Jacobson JM, Frank I, O'Doherty U, Kostman J, Montaner LJ. Improved treatment for primary HIV infection by interferon-alfa therapy? Does HCV treatment in HIV/HCV coinfected patients help us to test this hypothesis? Reply to zur Wiesch and van Lunzen. The Journal of Infectious Diseases. 208: 363. PMID 23570845 DOI: 10.1093/Infdis/Jit160  0.332
2013 Foulkes AS, Matthews GJ, Das U, Ferguson JF, Lin R, Reilly MP. Mixed modeling of meta-analysis P-values (MixMAP) suggests multiple novel gene loci for low density lipoprotein cholesterol. Plos One. 8: e54812. PMID 23405096 DOI: 10.1371/Journal.Pone.0054812  0.349
2013 Azzoni L, Foulkes AS, Papasavvas E, Mexas AM, Lynn KM, Mounzer K, Tebas P, Jacobson JM, Frank I, Busch MP, Deeks SG, Carrington M, O'Doherty U, Kostman J, Montaner LJ. Pegylated Interferon alfa-2a monotherapy results in suppression of HIV type 1 replication and decreased cell-associated HIV DNA integration. The Journal of Infectious Diseases. 207: 213-22. PMID 23105144 DOI: 10.1093/Infdis/Jis663  0.368
2012 Mexas AM, Graf EH, Pace MJ, Yu JJ, Papasavvas E, Azzoni L, Busch MP, Di Mascio M, Foulkes AS, Migueles SA, Montaner LJ, O'Doherty U. Concurrent measures of total and integrated HIV DNA monitor reservoirs and ongoing replication in eradication trials. Aids (London, England). 26: 2295-306. PMID 23014521 DOI: 10.1097/Qad.0B013E32835A5C2F  0.367
2012 Azzoni L, Foulkes AS, Liu Y, Li X, Johnson M, Smith C, Kamarulzaman AB, Montaner J, Mounzer K, Saag M, Cahn P, Cesar C, Krolewiecki A, Sanne I, Montaner LJ. Prioritizing CD4 count monitoring in response to ART in resource-constrained settings: a retrospective application of prediction-based classification. Plos Medicine. 9: e1001207. PMID 22529752 DOI: 10.1371/Journal.Pmed.1001207  0.432
2012 Azzoni L, Foulkes AS, Firnhaber C, Yin X, Xiang ZQ, Li Y, Stevens W, Gross R, Ertl HC, Sanne I, Montaner LJ. Antiretroviral therapy interruptions result in loss of protective humoral immunity to neoantigens in HIV-infected individuals. Aids (London, England). 26: 1355-62. PMID 22516873 DOI: 10.1097/Qad.0B013E328354648E  0.385
2011 Au K, Lin R, Foulkes AS. Mixture modelling as an exploratory framework for genotype-trait associations. Journal of the Royal Statistical Society. Series C, Applied Statistics. 60: 355-375. PMID 22368304 DOI: 10.1111/J.1467-9876.2010.00750.X  0.356
2011 Eliot M, Ferguson J, Reilly MP, Foulkes AS. Ridge regression for longitudinal biomarker data. The International Journal of Biostatistics. 7: Article 37. PMID 22049265 DOI: 10.2202/1557-4679.1353  0.544
2011 Liu Y, Foulkes AS. Latent variable modeling paradigms for genotype-trait association studies. Biometrical Journal. Biometrische Zeitschrift. 53: 838-54. PMID 21887796 DOI: 10.1002/bimj.201000218  0.305
2011 Conradie F, Foulkes AS, Ive P, Yin X, Roussos K, Glencross DK, Lawrie D, Stevens W, Montaner LJ, Sanne I, Azzoni L. Natural killer cell activation distinguishes Mycobacterium tuberculosis-mediated immune reconstitution syndrome from chronic HIV and HIV/MTB coinfection. Journal of Acquired Immune Deficiency Syndromes (1999). 58: 309-18. PMID 21826013 DOI: 10.1097/Qai.0B013E31822E0D15  0.38
2011 Azzoni L, Foulkes AS, Firnhaber C, Yin X, Crowther NJ, Glencross D, Lawrie D, Stevens W, Papasavvas E, Sanne I, Montaner LJ. Metabolic and anthropometric parameters contribute to ART-mediated CD4+ T cell recovery in HIV-1-infected individuals: an observational study. Journal of the International Aids Society. 14: 37. PMID 21801351 DOI: 10.1186/1758-2652-14-37  0.385
2011 Foulkes AS, Au K. R statistical tools for gene discovery. Methods in Molecular Biology (Clifton, N.J.). 760: 73-90. PMID 21779991 DOI: 10.1007/978-1-61779-176-5_5  0.325
2011 Firnhaber C, Azzoni L, Foulkes AS, Gross R, Yin X, Van Amsterdam D, Schulze D, Glencross DK, Stevens W, Hunt G, Morris L, Fox L, Sanne I, Montaner LJ. Randomized trial of time-limited interruptions of protease inhibitor-based antiretroviral therapy (ART) vs. continuous therapy for HIV-1 infection. Plos One. 6: e21450. PMID 21738668 DOI: 10.1371/Journal.Pone.0021450  0.352
2010 Foulkes AS, Azzoni L, Li X, Johnson MA, Smith C, Mounzer K, Montaner LJ. Prediction based classification for longitudinal biomarkers. The Annals of Applied Statistics. 4: 1476-1497. PMID 21274424 DOI: 10.1214/10-Aoas326  0.502
2010 Azzoni L, Crowther NJ, Firnhaber C, Foulkes AS, Yin X, Glencross D, Gross R, Kaplan MD, Papasavvas E, Schulze D, Stevens W, van der Merwe T, Waisberg R, Sanne I, Montaner LJ. Association between HIV replication and serum leptin levels: an observational study of a cohort of HIV-1-infected South African women. Journal of the International Aids Society. 13: 33. PMID 20822522 DOI: 10.1186/1758-2652-13-33  0.384
2009 Eliot M, Azzoni L, Firnhaber C, Stevens W, Glencross DK, Sanne I, Montaner LJ, Foulkes AS. Tree-Based Methods for Discovery of Association between Flow Cytometry Data and Clinical Endpoints. Advances in Bioinformatics. 2009: 235320. PMID 20145719 DOI: 10.1155/2009/235320  0.566
2009 Li X, Thomas BN, Rich SM, Ecker D, Tumwine JK, Foulkes AS. Estimating and testing haplotype-trait associations in non-diploid populations. Journal of the Royal Statistical Society. Series C, Applied Statistics. 58: 663-678. PMID 20011038 DOI: 10.1111/J.1467-9876.2009.00673.X  0.464
2009 Mehta N, Trzmielina S, Nonyane BA, Eliot MN, Lin R, Foulkes AS, McNeal K, Ammann A, Eulalievyolo V, Sullivan JL, Luzuriaga K, Somasundaran M. Low-cost HIV-1 diagnosis and quantification in dried blood spots by real time PCR. Plos One. 4: e5819. PMID 19503790 DOI: 10.1371/Journal.Pone.0005819  0.559
2009 Giri MS, Nebozyhn M, Raymond A, Gekonge B, Hancock A, Creer S, Nicols C, Yousef M, Foulkes AS, Mounzer K, Shull J, Silvestri G, Kostman J, Collman RG, Showe L, et al. Circulating monocytes in HIV-1-infected viremic subjects exhibit an antiapoptosis gene signature and virus- and host-mediated apoptosis resistance. Journal of Immunology (Baltimore, Md. : 1950). 182: 4459-70. PMID 19299747 DOI: 10.4049/Jimmunol.0801450  0.4
2009 Papasavvas E, Foulkes A, Li X, Kostman JR, Mounzer KC, Montaner LJ. Evidence of a decrease in CD4 recovery once back on antiretroviral therapy after sequential > or =6 weeks antiretroviral therapy interruptions. Journal of Acquired Immune Deficiency Syndromes (1999). 50: 334-5. PMID 19242262 DOI: 10.1097/Qai.0B013E3181966B0C  0.442
2009 Azzoni L, Firnhaber C, Yin X, Foulkes A, Glencross D, Stevens W, Crowther N, Papasavvas E, Sanne I, Montaner L. Metabolic parameters and cellular activation are determinant of immune reconstitution in ARV-treated HIV-1-infected South Africans Cytokine. 48: 99. DOI: 10.1016/J.Cyto.2009.07.417  0.357
2008 Foulkes AS, Yucel R, Li X. A likelihood-based approach to mixed modeling with ambiguity in cluster identifiers. Biostatistics (Oxford, England). 9: 635-57. PMID 18343883 DOI: 10.1093/Biostatistics/Kxm055  0.435
2007 Nonyane BA, Foulkes AS. Multiple imputation and random forests (MIRF) for unobservable, high-dimensional data. The International Journal of Biostatistics. 3: Article 12. PMID 22550652 DOI: 10.2202/1557-4679.1049  0.417
2007 Foulkes AS, DeGruttola VG. A resampling-based approach to multiple testing with uncertainty in phase. The International Journal of Biostatistics. 3: Article 2. PMID 22550644 DOI: 10.2202/1557-4679.1037  0.375
2007 Li X, Foulkes AS, Yucel RM, Rich SM. An expectation maximization approach to estimate malaria haplotype frequencies in multiply infected children. Statistical Applications in Genetics and Molecular Biology. 6: Article33. PMID 18052916 DOI: 10.2202/1544-6115.1321  0.42
2007 Chehimi J, Azzoni L, Farabaugh M, Creer SA, Tomescu C, Hancock A, Mackiewicz A, D'Alessandro L, Ghanekar S, Foulkes AS, Mounzer K, Kostman J, Montaner LJ. Baseline viral load and immune activation determine the extent of reconstitution of innate immune effectors in HIV-1-infected subjects undergoing antiretroviral treatment. Journal of Immunology (Baltimore, Md. : 1950). 179: 2642-50. PMID 17675528 DOI: 10.4049/Jimmunol.179.4.2642  0.368
2007 Azzoni L, Chehimi J, Zhou L, Foulkes AS, June R, Maino VC, Landay A, Rinaldo C, Jacobson LP, Montaner LJ. Early and delayed benefits of HIV-1 suppression: timeline of recovery of innate immunity effector cells. Aids (London, England). 21: 293-305. PMID 17255736 DOI: 10.1097/Qad.0B013E328012B85F  0.32
2006 Papasavvas E, Kostman JR, Thiel B, Pistilli M, Mackiewicz A, Foulkes A, Gross R, Jordan KA, Nixon DF, Grant R, Poulin JF, McCune JM, Mounzer K, Montaner LJ. HIV-1-specific CD4+ T cell responses in chronically HIV-1 infected blippers on antiretroviral therapy in relation to viral replication following treatment interruption. Journal of Clinical Immunology. 26: 40-54. PMID 16418802 DOI: 10.1007/S10875-006-7518-8  0.304
2006 Foulkes AS, Wohl DA, Frank I, Puleo E, Restine S, Wolfe ML, Dube MP, Tebas P, Reilly MP. Associations among race/ethnicity, ApoC-III genotypes, and lipids in HIV-1-infected individuals on antiretroviral therapy. Plos Medicine. 3: e52. PMID 16417409 DOI: 10.1371/Journal.Pmed.0030052  0.4
2005 Zhao JX, Foulkes AS, George EI. Exploratory Bayesian model selection for serial genetics data. Biometrics. 61: 591-9. PMID 16011709 DOI: 10.1111/J.1541-0420.2005.040417.X  0.349
2005 Foulkes AS, Reilly M, Zhou L, Wolfe M, Rader DJ. Mixed modelling to characterize genotype-phenotype associations. Statistics in Medicine. 24: 775-89. PMID 15696502 DOI: 10.1002/Sim.1965  0.325
2004 De Gruttola V, Foulkes AS. Validation and discovery in Markov models of genetics data. Statistical Applications in Genetics and Molecular Biology. 3: Article38. PMID 16646818 DOI: 10.2202/1544-6115.1104  0.35
2002 Foulkes AS, De GV. Characterizing the relationship between HIV-1 genotype and phenotype: prediction-based classification. Biometrics. 58: 145-56. PMID 11890310 DOI: 10.1111/j.0006-341X.2002.00145.x  0.304
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