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Biostatistics and Computational Biology

URMC / Department of Biostatistics and Computational Biology / Training Grant / Publications

 

Publications

The collaborations of T32 trainees and their mentors on environmental health applications typically lead to co-authored publication in journals focused on environmental health or epidemiology. Trainees also carry out statistical methodology research as part of their training, whether or not it relates to environmental health.

Below are recent publications co-authored by trainees while supported on the T32 grant. Trainee names are shown in bold.

  • Skrill D, Norman-Haignere SV. Large language models transition from integrating across position-yoked, exponential windows to structure-yoked, power-law windows. In Thirty-seventh Conference on Neural Information Processing Systems 2023 Nov 2.

  • Liu L, Cai X, Love T, Corsetti M, Mathias AM, Worster A, Ma J, Kavsak PA. Using logistic regression models to investigate the effects of high-sensitivity cardiac troponin T confounders on ruling in acute myocardial infarction. Clinical Chemistry Laboratory Medicine. 61(7):1335-1342. 2023 Jun 27; Epub 2023 Jan 26. PMCID: PMC10585657 (available on 2024-06-27).

  • Klus JK, Thurston SW, Myers G, Watson GE, Rand MD, Love TM, Yeates AJ, Mulhern MS, McSorley EM, Strain JJ, Shamlaye C, van Wijngaarden E. Postnatal methylmercury exposure and neurodevelopmental outcomes at 7 years of age in the Seychelles Child Development Study Nutrition Cohort 2, Neurotoxicology, 2023, to appear.

  • Barrett ES, Sharghi S, Thurston SW, Terry MS, Loftus C, Karr C, Nguyen RHN, Swan SH, Sathayanarayan S. Exposure to air pollution during fetal development and early infancy is associated with altered reproductive development at birth and age one in a multi-center U.S. cohort, Environmental Health Perspectives, 2023, to appear.

  • Beggan LA, Mulhern MS, Maehre HK, McSorley EM, Yeates AJ, Zavez A, Thurston SW, Shamlaye C, van Wijngaarden E, Davidson PW, Myers GJ, Strain JJ, Elvevoll EO. Associations between serum taurine concentrations in mothers and neonates and the children’s anthropometrics and early neurodevelopment: Results from the Seychelles Child Development Study, Nutrition Cohort 2, Neurotoxicology, 2023, to appear.

  • Duttweiler LP, Thurston SW, Almudevar A, Spectral Bayesian Network Theory, Linear Algebra and Its Applications, 2023, to appear. https://doi.org/10.1016/j.laa.2023.06.003. NIHMSID: NIHMS1906655

  • Weisenthal SJ, Thurston SW, Ertefaie A. Relative sparsity for medical decision problems. Stat Med. 2023 Jun 14;. doi: 10.1002/sim.9755. [Epub ahead of print] PubMed PMID: 37315949; NIHMSID:NIHMS1896342.

  • Conway MC, Yeates AJ, Love TM, Weller D, McSorley EM, Mulhern MS, Wesolowska M, Watson GE, Myers GJ, Shamlaye CF, Henderson J, Davidson PW, van Wijngaarden E, Strain JJ. Maternal fish consumption and child neurodevelopment in Nutrition 1 Cohort: Seychelles Child Development Study. British Journal of Nutrition 2023 Feb 10:1-21. doi: 10.1017/S0007114523000375. Epub ahead of print. PMID: 36759019.
  • Zavez, A., McSorley, E. M., Yeates, A. J., & Thurston, S. A Bayesian partial membership model for multiple exposures with uncertain group memberships. Journal of Agricultural, Biological and Environmental Statistics. 2023 Feb 14. https://doi.org/10.1007/s13253-023-00528-3
  • Murphy CM, Weller DL, Reiter MS, Bardsley CA, Eifert J, Ponder M, Rideout SL, Strawn LK. Anaerobic soil disinfestation, amendment-type, and irrigation regimen influence Salmonella survival and die-off in agricultural soils. J Appl Microbiol. 2022 Mar; 132(3): 2342-2354. doi: 10.1111/jam.15324. Epub 2021 Oct 26. PubMed PMID: 34637586; PubMed Central PMCID: PMC8860855.
  • Vitek W, Oh J, Mbowe O, Thurston SW, Christianson MS, Styer AK, Polotsky AJ, Diamond MP, Cedars MI. Preconception ovarian reserve and placenta-mediated pregnancy complications among infertile women. Pregnancy Hypertens. 2022 Mar;27:193-196. doi: 10.1016/j.preghy.2022.01.010. Epub 2022 Feb 2. PubMed PMID: 35131729; PubMed Central PMCID: PMC8922433.
  • Barrett ES, Corsetti M, Day D, Thurston SW, Loftus CT, Karr CJ, Kannan K, LeWinn KZ, Smith AK, Smith R, Tylavsky FA, Bush NR, Sathyanarayana S. Prenatal phthalate exposure in relation to placental corticotropin releasing hormone (pCRH) in the CANDLE cohort. Environ Int. 2022 Feb;160:107078. doi: 10.1016/j.envint.2022.107078. Epub 2022 Jan 7. PubMed PMID: 35007898; PubMed Central PMCID: PMC8821329.
  • Corsetti MA, Love TM. Grafted and Vanishing Random Subspaces. Pattern Anal Appl. 2022 Feb;25(1):89-124. doi: 10.1007/s10044-021-01029-0. Epub 2021 Nov 25. PubMed PMID: 35370452; PubMed Central PMCID: PMC8975250.
  • Bardsley C, Weller D, Ingram D, Chen Y, Oryang D, Rideout S, Strawn L. (2021). Strain, Soil-Type, Irrigation Regimen, and Poultry Litter Influence Salmonella Survival and Die-off in Agricultural Soils Frontiers in Microbiology, 12. doi.org/10.3389/fmicb.2021.590303
  • Barrett E, Thurston SW, Harrington D, Bush NR, Sathyanarayana S, Nguyen R, Zavez A, Wang C, Swan S. Digit ratio, a proposed marker of the prenatal hormone environment, is not associated with prenatal sex steroids, anogenital distance, or gender-typed play behavior in preschool age children. J Dev Orig Health Dis. 2021 Dec;12(6):923-932. doi: 10.1017/S2040174420001270. Epub 2020 Dec 18. PubMed PMID: 33336644; PubMed Central PMCID: PMC8211903.
  • Zavez A, Thurston SW, Rand MD, Mruzek DW, Love T, Smith T, Shamlaye CF, van Wijngaarden E. Delivery Mode and Child Development at 20 Months of Age and 7 Years of Age in the Republic of Seychelles. Matern Child Health J. 2021 Dec;25(12):1930-1938. doi: 10.1007/s10995-021-03239-8. Epub 2021 Oct 5. PubMed PMID: 34609706; PubMed Central PMCID: PMC8610017.
  • Croft DP, Burton DS, Nagel DJ, Bhattacharya S, Falsey AR, Georas SN, Hopke PK, Johnston CJ, Kottmann RM, Litonjua AA, Mariani TJ, Rich DQ, Thevenet-Morrison K, Thurston SW, Utell MJ, McCall MN. The effect of air pollution on the transcriptomics of the immune response to respiratory infection. Sci Rep. 2021 Sep 30;11(1):19436. doi: 10.1038/s41598-021-98729-8. PubMed PMID: 34593881; PubMed Central PMCID: PMC8484285.
  • Weller DL, Love TMT, Wiedmann M. Interpretability Versus Accuracy: A Comparison of Machine Learning Models Built Using Different Algorithms, Performance Measures, and Features to Predict E. coli Levels in Agricultural Water. Front Artif Intell. 2021;4:628441. doi: 10.3389/frai.2021.628441. eCollection 2021. PubMed PMID: 34056577; PubMed Central PMCID: PMC8160515.
  • Strain JJ, Love TM, Yeates AJ, Weller D, Mulhern MS, McSorley EM, Thurston SW, Watson GE, Mruzek D, Broberg K, Rand MD, Henderson J, Shamlaye CF, Myers GJ, Davidson PW, van Wijngaarden E. Associations of prenatal methylmercury exposure and maternal polyunsaturated fatty acid status with neurodevelopmental outcomes at 7 years of age: results from the Seychelles Child Development Study Nutrition Cohort 2. Am J Clin Nutr. 2021 Feb 2;113(2):304-313. doi: 10.1093/ajcn/nqaa338. PubMed PMID: 33330939; PubMed Central PMCID: PMC7851824.
  • Zhang Y, Cuerdo J, Halushka MK, McCall MN. The effect of tissue composition on gene co-expression. Brief Bioinform. 2021 Jan 18;22(1):127-139. doi: 10.1093/bib/bbz135. Review. PubMed PMID: 31813949; PubMed Central PMCID: PMC8453244.
  • Belias A, Strawn LK, Wiedmann M, Weller D. Small Produce Farm Environments Can Harbor Diverse Listeria monocytogenes and Listeria spp. Populations. J Food Prot. 2021 Jan 1;84(1):113-121. doi: 10.4315/JFP-20-179. PubMed PMID: 32916716; PubMed Central PMCID: PMC8000000.
  • Harrand AS, Strawn LK, Illas-Ortiz PM, Wiedmann M, Weller DL. Listeria monocytogenes Prevalence Varies More within Fields Than between Fields or over Time on Conventionally Farmed New York Produce Fields. J Food Prot. 2020 Nov 1;83(11):1958-1966. doi: 10.4315/JFP-20-120. PubMed PMID: 32609818; PubMed Central PMCID: PMC7995327.
  • Weller DL, Love TMT, Belias A, Wiedmann M. Predictive Models May Complement or Provide an Alternative to Existing Strategies for Assessing the Enteric Pathogen Contamination Status of Northeastern Streams Used to Provide Water for Produce Production. Front Sustain Food Syst. 2020 Oct;4. doi: 10.3389/fsufs.2020.561517. Epub 2020 Oct 6. PubMed PMID: 33791594; PubMed Central PMCID: PMC8009603.
  • LaLonde A, Love T, Thurston SW, Davidson PW. Discovering structure in multiple outcomes models for tests of childhood neurodevelopment. Biometrics. 2020 Sep;76(3):874-885. doi: 10.1111/biom.13174. Epub 2019 Nov 28. PubMed PMID: 31729013; PubMed Central PMCID: PMC7225082.
  • Weller DL, Saylor L, Turkon P. Total Coliform and Generic E. coli Levels, and Salmonella Presence in Eight Experimental Aquaponics and Hydroponics Systems: A Brief Report Highlighting Exploratory Data. Horticulturae. 2020 Sep;6(3). doi: 10.3390/horticulturae6030042. Epub 2020 Jul 30. PubMed PMID: 34336990; PubMed Central PMCID: PMC8323784.
  • Belias AM, Sbodio A, Truchado P, Weller D, Pinzon J, Skots M, Allende A, Munther D, Suslow T, Wiedmann M, Ivanek R. Effect of Weather on the Die-Off of Escherichia coli and Attenuated Salmonella enterica Serovar Typhimurium on Preharvest Leafy Greens following Irrigation with Contaminated Water Appl Environ Microbiol. 2020 Aug 18;86(17). doi: 10.1128/AEM.00899-20. Print 2020 Aug 18. PubMed PMID: 32591379; PubMed Central PMCID: PMC7440809.
  • Weller D, Brassill N, Rock C, Ivanek R, Mudrak E, Roof S, Ganda E, Wiedmann M. Complex Interactions Between Weather, and Microbial and Physicochemical Water Quality Impact the Likelihood of Detecting Foodborne Pathogens in Agricultural Water. Front Microbiol. 2020;11:134. doi: 10.3389/fmicb.2020.00134. eCollection 2020. PubMed PMID: 32117154; PubMed Central PMCID: PMC7015975.
  • Weller D, Belias A, Green H, Roof S, Wiedmann M. Landscape, Water Quality, and Weather Factors Associated With an Increased Likelihood of Foodborne Pathogen Contamination of New York Stream Used to Source Water for Produce Production. Front Sustain Food Syst. 2020 Feb;3. doi: 10.3389/fsufs.2019.00124. Epub 2020 Feb 6. PubMed PMID: 32440656; PubMed Central PMCID: PMC7241490.
  • Yeates AJ, McSorley EM, Mulhern MS, Spence T, Crowe W, Grzesik K, Thurston SW, Watson GE, Myers GJ, Davidson PW, Shamlaye CF, van Wijngaarden E, Strain JJ. Associations between maternal inflammation during pregnancy and infant birth outcomes in the Seychelles Child Development Study. J. Reprod Immunol. 2020 Feb;137:102623. doi: 10.1016/j.jri.2019.102623. Epub 2019 Oct 23. PubMed PMID: 31710980; PubMed Central PMCID: PMC7028463.
  • Zavez A, McSorley EM, Yeates AJ, Thurston SW. Modeling the effects of multiple exposures with unknown group memberships: a Bayesian latent variable approach. Journal of applied statistics. 2020. NIHMSID: NIHMS1643642.
  • Green H, Weller D, Johnson S, Michalenko E. Microbial Source-Tracking Reveals Origins of Fecal Contamination in a Recovering Watershed. Water (Basel). 2019 Oct;11(10). doi: 10.3390/w11102162. Epub 2019 Oct 17. PubMed PMID: 32587756; PubMed Central PMCID: PMC7316189.
  • Irwin JL, McSorley EM, Yeates AJ, Mulhern MS, Strain JJ, Watson GE, Grzesik K, Thurston SW, Love TM, Smith TH, Broberg K, Shamlaye CF, Myers GJ, Davidson PW, van Wijngaarden E. Maternal immune markers during pregnancy and child neurodevelopmental outcomes at age 20 months in the Seychelles Child Development Study. J Neuroimmunol. 2019 Oct 15;335:577023. doi:10.1016/j.jneuroim.2019.577023. Epub 2019 Aug 14. PubMed PMID: 31445378; PubMed Central PMCID: PMC6750754.
  • Jusko TA, Singh K, Greener EA, Oktapodas Feiler M, Thevenet-Morrison K, Lawrence BP, Wright RO, Thurston SW. Blood Lead Concentrations and Antibody Levels to Measles, Mumps, and Rubella among U.S. Children. Int J Environ Res Public Health. 2019 Aug 22;16(17). doi: 10.3390/ijerph16173035. PubMed PMID: 31443341; PubMed Central PMCID: PMC6747326.
  • Irwin JL, Yeates AJ, Mulhern MS, McSorley EM, Strain JJ, Watson GE, Grzesik K, Thurston SW, Love TM, Smith TH, Mruzek DW, Shamlaye CF, Monthy C, Myers GJ, Davidson PW, van Wijngaarden E. Maternal Gestational Immune Response and Autism Spectrum Disorder Phenotypes at 7 Years of Age in the Seychelles Child Development Study. Mol Neurobiol. 2019 Jul;56(7):5000-5008. doi: 10.1007/s12035-018-1424-y. Epub 2018 Nov 14. PubMed PMID: 30430410; PubMed Central PMCID: PMC6517093.
  • Zareba W, Thurston SW, Zareba G, Couderc JP, Evans K, Xia J, Watson GE, Strain JJ, McSorley E, Yeates A, Mulhern M, Shamlaye CF, Bovet P, van Wijngaarden E, Davidson PW, Myers GJ. Prenatal and recent methylmercury exposure and heart rate variability in young adults: the Seychelles Child Development Study. Neurotoxicol Teratol. 2019 Jul - Aug;74:106810. doi: 10.1016/j.ntt.2019.106810. Epub 2019 May 23. PubMed PMID: 31128243; PubMed Central PMCID: PMC6642841.
  • Zhang Y, Bandyopadhyay G, Topham DJ, Falsey AR, Qiu X. Highly efficient hypothesis testing methods for regression-type tests with correlated observations and heterogeneous variance structure. BMC Bioinformatics. 2019 Apr 15;20(1):185. doi: 10.1186/s12859-019-2783-8. PubMed PMID: 30987598; PubMed Central PMCID: PMC6466736.
  • Barrett ES, Mbowe O, Thurston SW, Butts S, Wang C, Nguyen R, Bush N, Redmon JB, Sheshu S, Swan SH, Sathyanarayana S. Predictors of Steroid Hormone Concentrations in Early Pregnancy: Results from a Multi-Center Cohort. Matern Child Health J. 2019 Mar;23(3):397-407. doi: 10.1007/s10995-018-02705-0. PubMed PMID: 30659461; PubMed Central PMCID: PMC6397082.
  • Breitner S, Peters A, Zareba W, Hampel R, Oakes D, Wiltshire J, Frampton MW, Hopke PK, Cyrys J, Utell MJ, Kane C, Schneider A, Rich DQ. Ambient and controlled exposures to particulate air pollution and acute changes in heart rate variability and repolarization. Sci Rep. 2019 Feb 13;9(1):1946. doi: 10.1038/s41598-019-38531-9. PubMed PMID: 30760868; PubMed Central PMCID: PMC6374365.
  • Mikelson CK, Troisi J, LaLonde A, Symes SJK, Thurston SW, DiRe LM, David Adair C, Miller RK, Richards SM. Placental concentrations of essential, toxic, and understudied metals and relationships with birth outcomes in Chattanooga, TN. Environ Res. 2019 Jan;168:118-129. doi: 10.1016/j.envres.2018.09.006. Epub 2018 Sep 7. PubMed PMID: 30296639; PubMed Central PMCID: PMC6288679.
  • McSorley EM, Yeates AJ, Mulhern MS, van Wijngaarden E, Grzesik K, Thurston SW, Spence T, Crowe W, Davidson PW, Zareba G, Myers GJ, Watson GE, Shamlaye CF, Strain JJ. Associations of maternal immune response with MeHg exposure at 28 weeks' gestation in the Seychelles Child Development Study. Am J Reprod Immunol. 2018 Nov;80(5):e13046. doi: 10.1111/aji.13046. Epub 2018 Sep 17. PubMed PMID: 30295973; PubMed Central PMCID: PMC6202202.
  • Lalonde A, Love T. Using the Seychelles Child Development Study to Cluster Multiple Outcomes into Domains to Improve Estimation of the Overall Effect of Mercury on Neurodevelopment. Math Appl. 2018;7(1):53-62. doi: 10.13164/ma.2018.05. PubMed PMID: 30636979; PubMed Central PMCID: PMC6329395.
  • Selioutski O, Grzesik K, Vasilyeva ON, Hilmarsson Á, Fessler AJ, Liu L, Gross RA. Evaluation of phenytoin serum levels following a loading dose in the acute hospital setting. Seizure. 2017 Nov;52:199- 204. doi: 10.1016/j.seizure.2017.10.006. Epub 2017 Oct 16. PubMed PMID: 29073585; PubMed Central PMCID: PMC5846464.
  • Barrett ES, Sathyanarayana S, Mbowe O, Thurston SW, Redmon JB, Nguyen RHN, Swan SH. First-Trimester Urinary Bisphenol A Concentration in Relation to Anogenital Distance, an Androgen-Sensitive Measure of Reproductive Development, in Infant Girls. Environ Health Perspect. 2017 Jul 11;125(7):077008. doi: 10.1289/EHP875. PubMed PMID: 28728138; PubMed Central PMCID: PMC5744699.
  • Love TM, Thurston SW, Davidson PW. Finding vulnerable subpopulations in the Seychelles Child Development Study: effect modification with latent groups. Stat Methods Med Res. 2017 Apr;26(2):809- 822. doi: 10.1177/0962280214560044. Epub 2014 Dec 14. PubMed PMID: 25512145; PubMed Central PMCID: PMC4577466.
  • Raudenbush B, Frost C, Okafor R, Chen C, Qiu X, Mesfin A. Publication Rate of Podium Presentations From the North American Spine Society Annual Meetings. Global spine journal. 2017; :1-6. doi: 10.1177/2192568217713732.
  • Wang M, Utell MJ, Schneider A, Zareba W, Frampton MW, Oakes D, Hopke PK, Wiltshire J, Kane C, Peters A, Breitner S, Chalupa D, Rich DQ. Does total antioxidant capacity modify adverse cardiac responses associated with ambient ultrafine, accumulation mode, and fine particles in patients undergoing cardiac rehabilitation?. Environ Res. 2016 Aug;149:15-22. doi: 10.1016/j.envres.2016.04.031. Epub 2016 May 10. PubMed PMID: 27174779; PubMed Central PMCID: PMC4907837.
  • Chowdhry AK, Dworkin RH, McDermott MP. Meta-analysis with missing study-level sample variance data. Stat Med. 2016 Jul 30;35(17):3021-32. doi: 10.1002/sim.6908. Epub 2016 Feb 16. PubMed PMID: 26888093; PubMed Central PMCID: PMC4931964.
  • Thurston SW, Mendiola J, Bellamy AR, Levine H, Wang C, Sparks A, Redmon JB, Drobnis EZ, Swan SH. Phthalate exposure and semen quality in fertile US men. Andrology. 2016 Jul;4(4):632-8. doi: 10.1111/andr.12124. Epub 2015 Nov 24. PubMed PMID: 26601918; PubMed Central PMCID: PMC4879116.
  • Yeates AJ, Love TM, Engström K, Mulhern MS, McSorley EM, Grzesik K, Alhamdow A, Wahlberg K, Thurston SW, Davidson PW, van Wijngaarden E, Watson GE, Shamlaye CF, Myers GJ, Strain JJ, Broberg K. Genetic variation in FADS genes is associated with maternal long-chain PUFA status but not with cognitive development of infants in a high fish-eating observational study. Prostaglandins Leukot Essent Fatty Acids. 2015 Dec;102-103:13-20. doi: 10.1016/j.plefa.2015.08.004. Epub 2015 Sep 14. Review. PubMed PMID: 26474818; PubMed Central PMCID: PMC4746501.
  • Evans K, Love T, Thurston SW. Outlier Identification in Model-Based Cluster Analysis. J Classif. 2015 Apr 1;32(1):63-84. doi: 10.1007/s00357-015-9171-5. Epub 2015 Mar 10. PubMed PMID: 26806993; PubMed Central PMCID: PMC4720172.
  • Périard D, Beqiraj B, Hayoz D, Viswanathan B, Evans K, Thurston SW, Davidson PW, Myers GJ, Bovet P. Associations of baroreflex sensitivity, heart rate variability, and initial orthostatic hypotension with prenatal and recent postnatal methylmercury exposure in the Seychelles Child Development Study at age 19 years. Int J Environ Res Public Health. 2015 Mar 23;12(3):3395-405. doi: 10.3390/ijerph120303395. PubMed PMID: 25807149; PubMed Central PMCID: PMC4377973.
  • Frampton MW, Pietropaoli A, Dentler M, Chalupa D, Little EL, Stewart J, Frasier L, Oakes D, Wiltshire J, Vora R, Utell MJ. Cardiovascular effects of ozone in healthy subjects with and without deletion of glutathione-S-transferase M1. Inhal Toxicol. 2015 Feb;27(2):113-9. doi: 10.3109/08958378.2014.996272. PubMed PMID: 25600221; PubMed Central PMCID: PMC4659648.
  • Wiltshire J, Huffer FW, Parker WC. A General Class of Test Statistics for Van Valen's Red Queen Hypothesis. J Appl Stat. 2014 Sep 1;41(9):2028-2043. doi: 10.1080/02664763.2014.907394. PubMed PMID: 24910489; PubMed Central PMCID: PMC4043279.
  • Vora R, Zareba W, Utell MJ, Pietropaoli AP, Chalupa D, Little EL, Oakes D, Bausch J, Wiltshire J, Frampton MW. Inhalation of ultrafine carbon particles alters heart rate and heart rate variability in people with type 2 diabetes. Part Fibre Toxicol. 2014 Jul 16;11:31. doi: 10.1186/s12989-014-0031-y. PubMed PMID: 25028096; PubMed Central PMCID: PMC4110706.
  • Tran V, McCall MN, McMurray HR, Almudevar A. On the underlying assumptions of threshold Boolean networks as a model for genetic regulatory network behavior. Front Genet. 2013;4:263. doi:10.3389/fgene.2013.00263. eCollection 2013. PubMed PMID: 24376454; PubMed Central PMCID: PMC3859184.
  • van Wijngaarden E, Davidson PW, Smith TH, Evans K, Yost K, Love T, Thurston SW, Watson GE, Zareba G, Burns CM, Shamlaye CF, Myers GJ. Autism spectrum disorder phenotypes and prenatal exposure to methylmercury. Epidemiology. 2013 Sep;24(5):651-9. doi: 10.1097/EDE.0b013e31829d2651. PubMed PMID: 23873071; PubMed Central PMCID: PMC3732522.