• James Linneman

  • Research Programmer/Analyst Senior

    • MCRI - MCRI-Res Computing and Analyt
    • 1000 North Oak Ave. ML9 Marshfield, WI 54449
    • (715) 221-7271


1998 to 2005:
B.A., Computer Science, Lakeland College, Sheboygan, WI
1990 to 1992:
A.S., Accounting, Mid State Technical College, Wisconsin Rapids, WI

Work Experience

2011 to Present:
Research Programmer Analyst Senior, Marshfield Clinic Research Institute, Marshfield, WI
2008 to 2011:
Research Programmer Analyst, Marshfield Clinic Research Foundation, Marshfield, WI
2005 to 2008:
Clinical Programmer Analyst II, Marshfield Clinic Research Foundation, Marshfield, WI
1999 to 2005:
Statistical Programmer, Marshfield Clinic Research Foundation, Marshfield, WI
1993 to 1999:
Senior Accounting Assistant, Marshfield Clinic, Marshfield, WI

Select Publications

  • Joo YY, Pacheco JA, Thompson WK, Rasmussen-Torvik LJ, Rasmussen LV, Lin FTJ,...Kho AN [including Linneman JG.] Multi-ancestry genome- and phenome-wide association studies of diverticular disease in electronic health records with natural language processing enriched phenotyping algorithm. PLoS One. 2023 May 17;18(5):e0283553. doi: 10.1371/journal.pone.0283553. PMCID: PMC10191288.
    PubMed ID: 37196047
  • Chu SH, Wan ES, Cho MH, Goryachev S, Gainer V, Linneman J,...Karlson E [including Scotty EJ, Hebbring SJ.] An independently validated, portable algorithm for the rapid identification of COPD patients using electronic health records. Sci Rep. 2021 October 7;11(1):19959. doi: 10.1038/s41598-021-98719-w. PMCID: PMC8497529.
    PubMed ID: 34620889
  • Almoguera B, Vazquez L, Mentch F, March ME, Connolly JJ, Peissig PL,...Hakonarson H [including Linneman JG, Brilliant M.] Novel locus for atopic dermatitis in African Americans and replication in European Americans. J Allergy Clin Immunol. 2019 March; 143(3):1229-1231.
    PubMed ID: 30414857
  • Hellwege JN, Stallings S, Torstenson ES, Carroll R, Borthwick KM, Brilliant MH,...Edwards TL [including Linneman JG, Peissig PL.] Heritability and genome-wide association study of benign prostatic hyperplasia (BPH) in the eMERGE network. Sci Rep. 2019 April 15; 9(1):6077. PMCID: PMC6465359.
    PubMed ID: 30988330
  • Mosley JD, Feng Q, Wells QS, Van Driest SL, Shaffer CM, Edwards TL,...Roden DM [including Peissig PL, Brilliant MH, Linneman JG.] A study paradigm integrating prospective epidemiologic cohorts and electronic health records to identify disease biomarkers. Nat Commun. 2018 August 30; 9(1):3522.
    PubMed ID: 30166544
  • Mosley JD, Benson MD, Smith JG, Melander O, Ngo D, Shaffer CM,...Wang TJ [including Peissig PL, Brilliant MH, Kitchner TE, Linneman JG.] Probing the Virtual Proteome to Identify Novel Disease Biomarkers. CIRCULATION. 2018 November 27; 138(22):2469-2481.
    PubMed ID: 30571344
  • Hansen RA, Qian J, Berg RL, Linneman JG, Seoane-Vazquez E, Dutcher S,...Peissig PL. (2017 October 10). Comparison of outcomes following a switch from a brand to an authorized vs. independent generic drug. Clin Pharmacol Ther.
    PubMed ID: 27981563
  • Mosley JD, Shoemaker MB, Wells QS, Darbar D, Shaffer CM, Edwards TL,...Roden DM [including Brilliant MH, Linneman JG.] (2017 April). Investigating the Genetic Architecture of the PR Interval Using Clinical Phenotypes. Circ Cardiovasc Genet. 10(2)
    PubMed ID: 28416512
  • Almoguera B, Vazquez L, Mentch F, Connolly J, Pacheco JA, Sundaresan AS,...Hakonarson H [including Peissig PL, Linneman JG, Brilliant M.] (2017 February 15). Identification of Four Novel Loci in Asthma in European American and African American Populations. Am J Respir Crit Care Med. 195(4):456-463.
    PubMed ID: 27611488
  • Hansen RA, Qian J, Berg R, Linneman J, Seoane-Vazquez E, Dutcher SK,...Peissig P. (2017 April). Comparison of Generic-to-Brand Switchback Rates Between Generic and Authorized Generic Drugs. PHARMACOTHERAPY. 37(4):429-437.
    PubMed ID: 28152215
  • Li R, Dudek SM, Kim D, Hall MA, Bradford Y, Peissig PL,...Ritchie MD [including Brilliant MH, Linneman JG.] (2016 May 10). Identification of genetic interaction networks via an evolutionary algorithm evolved Bayesian network. BioData Min. 9 :18.
    PubMed ID: 27168765
  • Mosley JD, van Driest SL, Wells QS, Shaffer CM, Edwards TL, Bastarache L,...Roden DM [including Peissig PL, Brilliant MH, Linneman JG.] (2016 December). Defining a Contemporary Ischemic Heart Disease Genetic Risk Profile Using Historical Data. Circ Cardiovasc Genet. 9(6):521-530.
    PubMed ID: 27780847
  • Jackson KL, Mbagwu M, Pacheco JA, Baldridge AS, Viox DJ, Linneman JG,...Kho AN [including Shukla SK, Peissig PL.] (2016 November 17). Performance of an electronic health record-based phenotype algorithm to identify community associated methicillin-resistant Staphylococcus aureus cases and controls for genetic association studies. BMC Infect Dis. 16(1):684.
    PubMed ID: 27855652
  • Verma SS, Cooke Bailey JN, Lucas A, Bradford Y, Linneman JG, Hauser MA,...Ritchie MD [including Peissig PL, Brilliant MH.] (2016 September). Epistatic Gene-Based Interaction Analyses for Glaucoma in eMERGE and NEIGHBOR Consortium. PLoS Genet.. 12(9):e1006186.
    PubMed ID: 27623284
  • Hoh BL, Gong Y, McDonough CW, Waters MF, Royster AJ, Sheehan TO,...Johnson JA [including Brilliant MH, Kitchner TE, Linneman JG.] (2016 June). CYP2C19 and CES1 polymorphisms and efficacy of clopidogrel and aspirin dual antiplatelet therapy in patients with symptomatic intracranial atherosclerotic disease. J Neurosurg. 124(6):1746-51.
    PubMed ID: 26587656
  • Mosley JD, Shaffer CM, Van Driest SL, Weeke PE, Wells QS, Karnes JH,...Roden DM [including Linneman JG, Brilliant MH.] (2016 June). A genome-wide association study identifies variants in KCNIP4 associated with ACE inhibitor-induced cough. Pharmacogenomics J.. 16(3):231-7.
    PubMed ID: 26169577
  • Bielinski SJ, Pathak J, Carrell DS, Takahashi PY, Olson JE, Larson NB,...Roger VL [including Dart RA, Peissig P, Linneman JG.] (2015 August 21). A Robust e-Epidemiology Tool in Phenotyping Heart Failure with Differentiation for Preserved and Reduced Ejection Fraction: the Electronic Medical Records and Genomics (eMERGE) Network. J Cardiovasc Transl Res. 8 :475-83.
    PubMed ID: 26195183
  • Borthwick KM, Smelser DT, Bock JA, Elmore JR, Ryer EJ, Ye Z,...Tromp G [including Linneman JG, Peissig PL.] (2015 December). ePhenotyping for Abdominal Aortic Aneurysm in the Electronic Medical Records and Genomics (eMERGE) Network: Algorithm Development and Konstanz Information Miner Workflow. Int J Biomed Data Min. 4(1):pii: 113.
    PubMed ID: 27054044
  • Dahlin A, Denny J, Roden DM, Brilliant MH, Ingram C, Kitchner TE,...Wu AC [including Linneman JG.] (2015 December). CMTR1 is associated with increased asthma exacerbations in patients taking inhaled corticosteroids. Immun Inflamm Dis. 3(4):350-9.
    PubMed ID: 26734457
  • Naidoo D, Wu AC, Brilliant MH, Denny J, Ingram C, Kitchner TE,...Medina MW [including Linneman JG.] (2015 June). A polymorphism in HLA-G modifies statin benefit in asthma. Pharmacogenomics J.. 15(3):272-7.
    PubMed ID: 25266681
  • Berg RL, Pickett W, Linneman JG, Wood DJ, Marlenga BL. (2014 April). Asymmetry in noise-induced hearing loss: Evaluation of two competing theories. Noise Health. 16(69):102-7.
    PubMed ID: 24804714
  • Nadkarni GN, Gottesman O, Linneman JG, Chase H, Berg RL, Farouk S,...Bottinger EP [including Peissig P.] (2014 November 14). Development and validation of an electronic phenotyping algorithm for chronic kidney disease. AMIA Annu Symp Proc. 2014 :907-16.
    PubMed ID: 25954398
  • Peissig PL, Rasmussen LV, Berg RL, Linneman JG, McCarty CA, Waudby CJ,...Starren JB [including Chen L.] (2012 March). Importance of multi-modal approaches to effectively identify cataract cases from electronic health records. JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION. 19(2):225-34.
    PubMed ID: 22319176
  • Marlenga BL, Berg RL, Linneman JG, Wood DJ, Kirkhorn SR, Pickett W. (2012 July). Determinants of early-stage hearing loss among a cohort of young workers with 16-year follow-up. OCCUPATIONAL AND ENVIRONMENTAL MEDICINE. 69(7):479-84.
    PubMed ID: 22447644
  • McKiernan FE, Hocking JA, Cournoyer S, Berg RL, Linneman JG. (2011 September). A Long Femur Scan Field Does Not Alter Proximal Femur Bone Mineral Density Measurements by Dual-Energy X-Ray Absorptiometry. J Clin Densitom. 14(3)
    PubMed ID: 21652250
  • Marlenga BL, Linneman JG, Pickett W, Wood DJ, Kirkhorn SR, Broste SK,...Berg RL. (2011 November). Randomized trial of a hearing conservation intervention for rural students: long-term outcomes. PEDIATRICS. 128(5):e1139-46.
    PubMed ID: 21987700
  • Waudby CJ, Berg RL, Linneman JG, Rasmussen LV, Peissig PL, Chen L, McCarty CA. (2011 November). Cataract research using electronic health records. BMC Ophthalmology. 11(32)
    PubMed ID: 22078460
  • McKiernan FE, Berg RL, Linneman JG. (2011 April). The utility of BMD Z-score diagnostic thresholds for secondary causes of osteoporosis. OSTEOPOROSIS INTERNATIONAL. 22(4):1069-77.
    PubMed ID: 20533026
  • Turner SD, Berg RL, Linneman JG, Peissig PL, Crawford DC, Denny JC,...Wilke RA [including McCarty CA.] (2011 May). Knowledge-driven multi-locus analysis reveals gene-gene interactions influencing HDL cholesterol level in two independent EMR-linked biobanks. PLoS One. 6(5):e19586.
    PubMed ID: 21589926
  • Conway M, Berg RL, Carrell D, Denny JC, Kho AN, Kullo IJ,...Pathak J [including Linneman JG, Peissig P.] (2011). Analyzing the heterogeneity and complexity of Electronic Health Record oriented phenotyping algorithms. AMIA Annu Symp Proc. 2011 :274-83.
    PubMed ID: 22195079
  • Wilke R, Berg RL, Linneman JG, Peissig PL, Starren J, Ritchie MD, McCarty CA. (2010). Quantification of the clinical modifiers impacting high-density lipoprotein cholesterol in the community: Personalized Medicine Research Project. Prev Cardiol. 13(2):63-8.
    PubMed ID: 20377807
  • Mareedu RK, Modhia FM, Kanin EI, Linneman JG, Kitchner TE, McCarty CA,...Wilke RA. (2009). Use of an electronic medical record to characterize cases of intermediate statin-induced muscle toxicity. Prev Cardiol. 12(2):88-94.
    PubMed ID: 19476582
  • Berg RL, Pickett W, Fitz-Randolph M, Broste SK, Knobloch MJ, Wood DJ,...Marlenga BL [including Kirkhorn SR, Linneman JG.] (2009 December). Hearing conservation program for agricultural stude nts: Short-term outcomes from a cluster-randomized trial with planned long-term follow-up. PREVENTIVE MEDICINE. 49(6):546-52.
    PubMed ID: 19800914
  • Wilke RA, Berg RL, Linneman JG, Zhao C, McCarty CA, Krauss RM. (2008 October). Characterization of low-density lipoprotein cholesterol-lowering efficacy for atorvastatin in a population-based DNA biorepository. Basic Clin Pharmacol Toxicol. 103(4):354-9.
    PubMed ID: 18834356
  • Pickett W, Dostaler S, Berg RL, Brison RJ, Linneman JG, Marlenga BL. (2008 November). Hospitalized head injuries in agricultural settings: Who are the vulnerable groups? Accident Analysis and Prevention. 40 :1943-48.
    PubMed ID: 19068298
  • Morrongiello BA, Pickett W, Berg RL, Linneman JG, Brison RJ, Marlenga BL. (2008 May). Adult supervision and pediatric injuries in the agricultural worksite. Accid Anal Prev.. 40(3):1149-56.
    PubMed ID: 18460383
  • Marlenga BL, Berg RL, Linneman JG, Brison RJ, Pickett W. (2007 February). Changing the child labor laws for agriculture: impact on injury. Am J Public Health. 97(2):276-282.
    PubMed ID: 17194860
  • Morrongiello BA, Marlenga BL, Berg RL, Linneman JG, Pickett W. (2007 October). A new approach to understanding pediatric farm injuries. Soc Sci Med. 65(7):1364-1371.
    PubMed ID: 17583403
  • Pickett W, Dostaler S, Berg RL, Linneman JG, Brison RJ, Marlenga BL. (2007 April). Pediatric fall injuries in agricultural settings: a new look at a common injury control problem. J Occup Environ Med. 49(4):461-468.
    PubMed ID: 17426530
  • Brison RJ, Pickett W, Berg RL, Linneman JG, Zentner JL, Marlenga BL. (2006 June). Fatal agricultural injuries in preschool children: risks, injury patterns, and strategies for prevention. CMAJ. 174(12):1723-1726.
    PubMed ID: 16754900
  • Marlenga BL, Doty BC, Berg RL, Linneman JG. (2006 February). Evaluation of a policy to reduce youth tractor crashes on public roads. Injury Prev. 12(1):46-51.
    PubMed ID: 16502564
  • Chyou P, Scheuer DJ, Linneman JG. (2006 December). Assessment of female participation in an employee 20-week walking incentive program at marshfield clinic, a large multispecialty group practice. Clin Med Res. 4(4):256-265.
    PubMed ID: 17210975
  • Mazza JJ, Glurich IE, Chyou P, Linneman JG. Efficacy of the influenza vaccine in patients with malignant lymphoma. Clin Med Res. 2005 November; 3(4):214-220.
    PubMed ID: 16303886
  • Pickett W, Brison RJ, Berg RL, Zentner JL, Linneman JG, Marlenga BL. (2005 February). Pediatric farm injuries involving non-working children: five opportunities for primary prevention. Inj Prev. 11(1):6-11.
    PubMed ID: 15691981
  • Marlenga BL, Brison RJ, Berg RL, Zentner JL, Linneman JG, Pickett W. (2004 December). Evaluation of the <em>North American Guidelines for Children's Agricultural Tasks</em> using a case series of injuries. Inj Prev. 10(6):350-357.
    PubMed ID: 15583256