David Reif

Fleming, J. F., House, J. S., Chappel, J. R., Motsinger-Reif, A. A., & Reif, D. M. (2024). Guided optimization of ToxPi model weights using a Semi-Automated approach. COMPUTATIONAL TOXICOLOGY, 29. https://doi.org/10.1016/j.comtox.2023.100294

Kirkwood-Donelson, K. I., Chappel, J., Tobin, E., Dodds, J. N., Reif, D. M., DeWitt, J. C., & Baker, E. S. (2024). Investigating mouse hepatic lipidome dysregulation following exposure to emerging per- and polyfluoroalkyl substances (PFAS). Chemosphere. https://doi.org/10.1016/j.chemosphere.2024.141654

Chappel, J. R., King, M. E., Fleming, J., Eberlin, L. S., Reif, D. M., & Baker, E. S. (2023, August 14). Aggregated Molecular Phenotype Scores: Enhancing Assessment and Visualization of Mass Spectrometry Imaging Data for Tissue-Based Diagnostics. ANALYTICAL CHEMISTRY, Vol. 8. https://doi.org/10.1021/acs.analchem.3c02389

Jin, B., Dunson, D. B., Rager, J. E., Reif, D. M., Engel, S. M., & Herring, A. H. (2023, March 15). Bayesian matrix completion for hypothesis testing. JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES C-APPLIED STATISTICS, Vol. 3. https://doi.org/10.1093/jrsssc/qlac005

Green, A. J., Truong, L., Thunga, P., Leong, C., Hancock, M., Tanguay, R. L., & Reif, D. M. (2023, September 17). Deep autoencoder-based behavioral pattern recognition outperforms standard statistical methods in high-dimensional zebrafish studies. https://doi.org/10.1101/2023.09.13.557544

Wallis, D. J., Kotlarz, N., Knappe, D. R. U., Collier, D. N., Lea, C. S., Reif, D., … Hoppin, J. A. (2023). Estimation of the Half-Lives of Recently Detected Per- and Polyfluorinated Alkyl Ethers in an Exposed Community. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 57(41), 15348–15355. https://doi.org/10.1021/acs.est.2c08241

Chappel, J. R., Kirkwood-Donelson, K. I., Reif, D. M., & Baker, E. S. (2023, October 25). From big data to big insights: statistical and bioinformatic approaches for exploring the lipidome. ANALYTICAL AND BIOANALYTICAL CHEMISTRY, Vol. 10. https://doi.org/10.1007/s00216-023-04991-2

Phelps, D. W., Palekar, A. I., Conley, H. E., Ferrero, G., Driggers, J. H., Linder, K. E., … Yoder, J. A. (2023). Legacy and emerging per- and polyfluoroalkyl substances suppress the neutrophil respiratory burst. JOURNAL OF IMMUNOTOXICOLOGY, 20(1). https://doi.org/10.1080/1547691X.2023.2176953

Gonzalez, R. D., Small, G. W., Green, A. J., Akhtari, F. S., Motsinger-Reif, A. A., Quintanilha, J. C. F., … Wiltshire, T. (2023). MKX-AS1 Gene Expression Associated with Variation in Drug Response to Oxaliplatin and Clinical Outcomes in Colorectal Cancer Patients. PHARMACEUTICALS, 16(5). https://doi.org/10.3390/ph16050757

Small, G. W., Akhtari, F. S., Green, A. J., Havener, T. M., Sikes, M., Quintanhila, J., … Wiltshire, T. (2023). Pharmacogenomic Analyses Implicate B Cell Developmental Status and MKL1 as Determinants of Sensitivity toward Anti-CD20 Monoclonal Antibody Therapy. CELLS, 12(12). https://doi.org/10.3390/cells12121574

Gonzalez, R. D., Small, G. W., Green, A. J., Akhtari, F. S., Havener, T. M., Quintanilha, J. C. F., … Wiltshire, T. (2023). RYK Gene Expression Associated with Drug Response Variation of Temozolomide and Clinical Outcomes in Glioma Patients. PHARMACEUTICALS, 16(5). https://doi.org/10.3390/ph16050726

Marinello, W. P., Gillera, S. E. A., Huang, L., Rollman, J., Reif, D. M., & Patisaul, H. B. (2023). Uncovering the common factors of chemical exposure and behavior: Evaluating behavioral effects across a testing battery using factor analysis. NEUROTOXICOLOGY, 99, 264–273. https://doi.org/10.1016/j.neuro.2023.10.012

Chappel, J. R., King, M. E., Fleming, J., Eberlin, L. S., Reif, D. M., & Baker, E. S. (2023, June 5). Utilizing Aggregated Molecular Phenotype (AMP) Scores to Visualize Simultaneous Molecular Changes in Mass Spectrometry Imaging Data. https://doi.org/10.1101/2023.06.01.543306

Wolkin, A., Collier, S., House, J. S., Reif, D., Motsinger-Reif, A., Duca, L., & Sharpe, J. D. (2022). Comparison of National Vulnerability Indices Used by the Centers for Disease Control and Prevention for the COVID-19 Response. Public Health Reports, 137(4), 803–812. https://doi.org/10.1177/00333549221090262

Hubal, E. A. C., DeLuca, N. M., Mullikin, A., Slover, R., Little, J. C., & Reif, D. M. (2022). Demonstrating a systems approach for integrating disparate data streams to inform decisions on children's environmental health. BMC PUBLIC HEALTH, 22(1). https://doi.org/10.1186/s12889-022-12682-3

Truong, L., Rericha, Y., Thunga, P., Marvel, S., Wallis, D., Simonich, M. T., … Tanguay, R. L. (2022). Systematic developmental toxicity assessment of a structurally diverse library of PFAS in zebrafish. JOURNAL OF HAZARDOUS MATERIALS, 431. https://doi.org/10.1016/j.jhazmat.2022.128615

Watson, A. L. T. D., Carmona Baez, A., Jima, D., Reif, D., Ding, J., Roberts, R., & Kullman, S. W. (2022, November 12). TCDD alters essential transcriptional regulators of osteogenic differentiation in multipotent mesenchymal stem cells. TOXICOLOGICAL SCIENCES, Vol. 11. https://doi.org/10.1093/toxsci/kfac120

Shankar, P., Garcia, G. R., LaDu, J. K., Sullivan, C. M., Dunham, C. L., Goodale, B. C., … Tanguay, R. L. (2022, April 4). The Ahr2-Dependent wfikkn1 Gene Influences Zebrafish Transcriptome, Proteome, and Behavior. TOXICOLOGICAL SCIENCES, Vol. 4. https://doi.org/10.1093/toxsci/kfac037

Fleming, J., Marvel, S. W., Supak, S., Motsinger-Reif, A. A., & Reif, D. M. (2022, April 26). ToxPi*GIS Toolkit: creating, viewing, and sharing integrative visualizations for geospatial data using ArcGIS. JOURNAL OF EXPOSURE SCIENCE AND ENVIRONMENTAL EPIDEMIOLOGY, Vol. 4. https://doi.org/10.1038/s41370-022-00433-w

Kirkwood, K. I., Fleming, J., Nguyen, H., Reif, D. M., Baker, E. S., & Belcher, S. M. (2022). Utilizing Pine Needles to Temporally and Spatially Profile Per- and Polyfluoroalkyl Substances (PFAS). ENVIRONMENTAL SCIENCE & TECHNOLOGY, 56(6), 3441–3451. https://doi.org/10.1021/acs.est.1c06483

Thunga, P., Truong, L., Rericha, Y., Du, J. L., Morshead, M., Tanguay, R. L., & Reif, D. M. (2022). Utilizing a Population-Genetic Framework to Test for Gene-Environment Interactions between Zebrafish Behavior and Chemical Exposure. TOXICS, 10(12). https://doi.org/10.3390/toxics10120769

Carberry, C. K., Koval, L. E., Payton, A., Hartwell, H., Kim, Y. H., Smith, G. J., … Rager, J. E. (2022). Wildfires and extracellular vesicles: Exosomal MicroRNAs as mediators of cross-tissue cardiopulmonary responses to biomass smoke. ENVIRONMENT INTERNATIONAL, 167. https://doi.org/10.1016/j.envint.2022.107419

Thunga, P., Truong, L., Tanguay, R. L., & Reif, D. M. (2021). Concurrent Evaluation of Mortality and Behavioral Responses: A Fast and Efficient Testing Approach for High-Throughput Chemical Hazard Identification. Frontiers in Toxicology, 3. https://doi.org/10.3389/ftox.2021.670496

Gilchrist, P. O., Alexander, A. B., Green, A. J., Sanders, F. E., Hooker, A. Q., & Reif, D. M. (2021). Development of a Pandemic Awareness STEM Outreach Curriculum: Utilizing a Computational Thinking Taxonomy Framework. EDUCATION SCIENCES, 11(3). https://doi.org/10.3390/educsci11030109

Green, A. J., Anchang, B., Akhtari, F. S., Reif, D. M., & Motsinger-Reif, A. (2021, May 28). Extending the lymphoblastoid cell line model for drug combination pharmacogenomics. PHARMACOGENOMICS, Vol. 22. https://doi.org/10.2217/pgs-2020-0160

Akhtari, F. S., Green, A. J., Small, G. W., Havener, T. M., House, J. S., Roell, K. R., … Motsinger-Reif, A. A. (2021). High-throughput screening and genome-wide analyses of 44 anticancer drugs in the 1000 Genomes cell lines reveals an association of the NQO1 gene with the response of multiple anticancer drugs. PLOS GENETICS, 17(8). https://doi.org/10.1371/journal.pgen.1009732

Green, A. J., Mohlenkamp, M. J., Das, J., Chaudhari, M., Truong, L., Tanguay, R. L., & Reif, D. M. (2021). Leveraging high-throughput screening data, deep neural networks, and conditional generative adversarial networks to advance predictive toxicology. PLOS COMPUTATIONAL BIOLOGY, 17(7). https://doi.org/10.1371/journal.pcbi.1009135

Odenkirk, M. T., Reif, D. M., & Baker, E. S. (2021). Multiomic Big Data Analysis Challenges: Increasing Confidence in the Interpretation of Artificial Intelligence Assessments. ANALYTICAL CHEMISTRY, 93(22), 7763–7773. https://doi.org/10.1021/acs.analchem.0c04850

Marvel, S. W., House, J. S., Wheeler, M., Song, K., Zhou, Y.-H., Wright, F. A., … Reif, D. M. (2021, January). The COVID-19 Pandemic Vulnerability Index (PVI) Dashboard: Monitoring County-Level Vulnerability Using Visualization, Statistical Modeling, and Machine Learning. https://doi.org/10.1289/EHP8690

Fleming, J., Marvel, S. W., Motsinger-Reif, A. A., & Reif, D. M. (2021, October 11). ToxPi*GIS Toolkit: Creating, viewing, and sharing integrative visualizations for geospatial data using ArcGIS (Vol. 10). Vol. 10. https://doi.org/10.1101/2021.10.08.21264756

Wallis, D. J., Truong, L., La Du, J., Tanguay, R. L., & Reif, D. M. (2021). [Review of Uncovering Evidence for Endocrine-Disrupting Chemicals That Elicit Differential Susceptibility through Gene-Environment Interactions]. TOXICS, 9(4). https://doi.org/10.3390/toxics9040077

Kirkwood, K. I., Fleming, J., Nguyen, H., Reif, D. M., Baker, E. S., & Belcher, S. M. (2021, August 26). Utilizing Pine Needles to Temporally and Spatially Profile Per- and Polyfluoroalkyl Substances (Vol. 8). Vol. 8. https://doi.org/10.1101/2021.08.24.457570

Bayesian Matrix Completion for Hypothesis Testing. (2020, September 17).

Hubal, E. A. C., Reif, D. M., Slover, R., Mullikin, A., & Little, J. C. (2020). Children’s Environmental Health: A Systems Approach for Anticipating Impacts from Chemicals. International Journal of Environmental Research and Public Health, 17(22), 8337. https://doi.org/10.3390/ijerph17228337

Kosnik, M. B., Strickland, J. D., Marvel, S. W., Wallis, D. J., Wallace, K., Richard, A. M., … Shafer, T. J. (2020). Concentration-response evaluation of ToxCast compounds for multivariate activity patterns of neural network function. ARCHIVES OF TOXICOLOGY, 94(2), 469–484. https://doi.org/10.1007/s00204-019-02636-x

Bhandari, S., Lewis, P. G. T., Craft, E., Marvel, S. W., Reif, D. M., & Chiu, W. A. (2020). HGBEnviroScreen: Enabling Community Action through Data Integration in the Houston–Galveston–Brazoria Region. International Journal of Environmental Research and Public Health, 17(4), 1130. https://doi.org/10.3390/ijerph17041130

Phelps, D. W., Fletcher, A. A., Rodriguez-Nunez, I., Balik-Meisner, M. R., Tokarz, D. A., Reif, D. M., … Yoder, J. A. (2020). In vivo assessment of respiratory burst inhibition by xenobiotic exposure using larval zebrafish. Journal of Immunotoxicology, 17(1), 94–104. https://doi.org/10.1080/1547691X.2020.1748772

Reif, D. M., Chanock, S. J., Edwards, K. M., & Crowe, J. E. (2020). Inappropriate Citation of Vaccine Article. The Journal of Infectious Diseases, 222(8), 1413–1414. https://doi.org/10.1093/infdis/jiz287

Odenkirk, M. T., Zin, P. P. K., Ash, J. R., Reif, D. M., Fourches, D., & Baker, E. S. (2020). Structural-based connectivity and omic phenotype evaluations (SCOPE): a cheminformatics toolbox for investigating lipidomic changes in complex systems. ANALYST, 145(22), 7197–7209. https://doi.org/10.1039/d0an01638a

Marvel, S. W., House, J. S., Wheeler, M., Song, K., Zhou, Y., Wright, F. A., … Reif, D. M. (2020, August 13). The COVID-19 Pandemic Vulnerability Index (PVI) Dashboard: monitoring county level vulnerability. MedRxiv, Vol. 8. https://doi.org/10.1101/2020.08.10.20169649

Truong, L., Marvel, S., Reif, D. M., Thomas, D. G., Pande, P., Dasgupta, S., … Tanguay, R. L. (2020). The multi-dimensional embryonic zebrafish platform predicts flame retardant bioactivity. REPRODUCTIVE TOXICOLOGY, 96, 359–369. https://doi.org/10.1016/j.reprotox.2020.08.007

Kosnik, M. B., Reif, D. M., Lobdell, D. T., Astell-Burt, T., Feng, X., Hader, J. D., & Hoppin, J. A. (2019). Associations between access to healthcare, environmental quality, and end-stage renal disease survival time: Proportional-hazards models of over 1,000,000 people over 14 years. PLOS ONE, 14(3). https://doi.org/10.1371/journal.pone.0214094

Kosnik, M. B., & Reif, D. M. (2019). Determination of chemical-disease risk values to prioritize connections between environmental factors, genetic variants, and human diseases. Toxicology and Applied Pharmacology, 379, 114674. https://doi.org/10.1016/j.taap.2019.114674

Kosnik, M. B., Planchart, A., Marvel, S. W., Reif, D. M., & Mattingly, C. J. (2019). Integration of curated and high-throughput screening data to elucidate environmental influences on disease pathways. Computational Toxicology, 12, 100094. https://doi.org/10.1016/j.comtox.2019.100094

To, K. T., Truong, L., Edwards, S., Tanguay, R. L., & Reif, D. M. (2019). Multivariate modeling of engineered nanomaterial features associated with developmental toxicity. NanoImpact, 16. https://doi.org/10.1016/j.impact.2019.100185

Burnett, S. D., Blanchette, A. D., Grimm, F. A., House, J. S., Reif, D. M., Wright, F. A., … Rusyn, I. (2019). Population-based toxicity screening in human induced pluripotent stem cell-derived cardiomyocytes. Toxicology and Applied Pharmacology, 381. https://doi.org/10.1016/j.taap.2019.114711

Gillera, S. E. A., Marinello, W. P., Horman, B. M., Phillips, A. L., Ruis, M. T., Stapleton, H. M., … Patisaul, H. B. (2019). Sex-specific effects of perinatal FireMaster® 550 (FM 550) exposure on socioemotional behavior in prairie voles. Neurotoxicology and Teratology, 79, 106840. https://doi.org/10.1016/j.ntt.2019.106840

Roell, K. R., Havener, T. M., Reif, D. M., Jack, J., McLeod, H. L., Wiltshire, T., & Motsinger-Reif, A. A. (2019). Synergistic Chemotherapy Drug Response Is a Genetic Trait in Lymphoblastoid Cell Lines. FRONTIERS IN GENETICS, 10. https://doi.org/10.3389/fgene.2019.00829

Truong, L., Zaikova, T., Baldock, B. L., Balik-Meisner, M., To, K., Reif, D. M., … Tanguay, R. L. (2019). Systematic determination of the relationship between nanoparticle core diameter and toxicity for a series of structurally analogous gold nanoparticles in zebrafish. Nanotoxicology, 4, 1—15. https://doi.org/10.1080/17435390.2019.1592259

To, K. T., Fry, R. C., & Reif, D. M. (2018). Characterizing the effects of missing data and evaluating imputation methods for chemical prioritization applications using ToxPi. BIODATA MINING, 11(1). https://doi.org/10.1186/s13040-018-0169-5

Mahapatra, D., Franzosa, J. A., Roell, K., Kuenemann, M. A., Houck, K. A., Reif, D. M., … Kullman, S. W. (2018). Confirmation of high-throughput screening data and novel mechanistic insights into VDR-xenobiotic interactions by orthogonal assays. Scientific Reports, 8(1). https://doi.org/10.1038/s41598-018-27055-3

Balik-Meisner, M., Truong, L., Scholl, E. H., La, D. J. K., Tanguay, R. L., & Reif, D. M. (2018). Elucidating Gene-by-Environment Interactions Associated with Differential Susceptibility to Chemical Exposure. Environmental Health Perspectives, 6(6). https://doi.org/10.1289/ehp2662

Baptissart, M., Lamb, H. E., To, K., Bradish, C., Tehrani, J., Reif, D., & Cowley, M. (2018). Neonatal mice exposed to a high-fat diet in utero influence the behaviour of their nursing dam. Proceedings of the Royal Society B: Biological Sciences, 285(1891), 20181237. https://doi.org/10.1098/rspb.2018.1237

Balik-Meisner, M., Truong, L., Scholl, E. H., Tanguay, R. L., & Reif, D. M. (2018). Population genetic diversity in zebrafish lines. MAMMALIAN GENOME, 29(1-2), 90–100. https://doi.org/10.1007/s00335-018-9735-x

Marvel, S. W., To, K., Grimm, F. A., Wright, F. A., Rusyn, I., & Reif, D. M. (2018). ToxPi Graphical User Interface 2.0: Dynamic exploration, visualization, and sharing of integrated data models. BMC Bioinformatics, 3(1). https://doi.org/10.1186/s12859-018-2089-2

Chiu, W. A., Guyton, K. Z., Martin, M. T., Reif, D. M., & Rusyn, I. (2018). Use of high-throughput in vitro toxicity screening data in cancer hazard evaluations by IARC Monograph Working Groups. ALTEX, 35(1), 51–64. https://doi.org/10.14573/altex.1703231

Zhang, G., Truong, L., Tanguay, R. L., & Reif, D. M. (2017). A New Statistical Approach to Characterize Chemical-Elicited Behavioral Effects in High-Throughput Studies Using Zebrafish. PLOS ONE, 12(1). https://doi.org/10.1371/journal.pone.0169408

Zhang, G., Roell, K. R., Truong, L., Tanguay, R. L., & Reif, D. M. (2017). A data-driven weighting scheme for multivariate phenotypic endpoints recapitulates zebrafish developmental cascades. TOXICOLOGY AND APPLIED PHARMACOLOGY, 314, 109–117. https://doi.org/10.1016/j.taap.2016.11.010

Roell, K. R., Reif, D. M., & Motsinger-Reif, A. A. (2017). An introduction to terminology and methodology of chemical synergy-perspectives from across disciplines. Frontiers in Pharmacology, 8(APR). https://doi.org/10.3389/fphar.2017.00158

Roell, K. R., Reif, D. M., & Motsinger-Reif, A. A. (2017). [Review of An introduction to terminology and methodology of chemical synergy-perspectives from across disciplines]. Frontiers in Pharmacology, 8.

Tilley, S. K., Reif, D. M., & Fry, R. C. (2017). Incorporating ToxCast and Tox21 datasets to rank biological activity of chemicals at Superfund sites in North Carolina. ENVIRONMENT INTERNATIONAL, 101, 19–26. https://doi.org/10.1016/j.envint.2016.10.006

Zhang, G., Truong, L., Tanguay, R. L., & Reif, D. M. (2017). Integrating Morphological and Behavioral Phenotypes in Developing Zebrafish. The Rights and Wrongs of Zebrafish: Behavioral Phenotyping of Zebrafish, pp. 259–272. https://doi.org/10.1007/978-3-319-33774-6_12

Knecht, A. L., Truong, L., Marvel, S. W., Reif, D. M., Garcia, A., Lu, C., … Tanguay, R. L. (2017). Transgenerational inheritance of neurobehavioral and physiological deficits from developmental exposure to benzo[a]pyrene in zebrafish. TOXICOLOGY AND APPLIED PHARMACOLOGY, 329, 148–157. https://doi.org/10.1016/j.taap.2017.05.033

Grimm, F. A., Iwata, Y., Sirenko, O., Chappell, G. A., Wright, F. A., Reif, D. M., … Rusyn, I. (2016). A chemical-biological similarity-based grouping of complex substances as a prototype approach for evaluating chemical alternatives. GREEN CHEMISTRY, 18(16), 4407–4419. https://doi.org/10.1039/c6gc01147k

Grondin, C. J., Davis, A. P., Wiegers, T. C., King, B. L., Wiegers, J. A., Reif, D. M., … Mattingly, C. J. (2016). Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database. Environmental Health Perspectives, 124(10), 1592–1599. https://doi.org/10.1289/ehp174

Grondin, C. J., Davis, A. P., Wiegers, T. C., King, B. L., Wiegers, J. A., Reif, D. M., … Mattingly, C. J. (2016). Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database. Environmental Health Perspectives, 10. Retrieved from http://europepmc.org/abstract/med/27170236

Planchart, A., Mattingly, C. J., Allen, D., Ceger, P., Casey, W., Hinton, D., … Hamm, J. (2016). Advancing toxicology research using in vivo high throughput toxicology with small fish models. ALTEX, 33(4), 435–452. https://doi.org/10.14573/altex.1601281

Zhang, G., Marvel, S., Truong, L., Tanguay, R. L., & Reif, D. M. (2016). Aggregate entropy scoring for quantifying activity across endpoints with irregular correlation structure. REPRODUCTIVE TOXICOLOGY, 62, 92–99. https://doi.org/10.1016/j.reprotox.2016.04.012

Judson, R., Houck, K., Martin, M., Richard, A. M., Knudsen, T. B., Shah, I., … Thomas, R. S. (2016). Analysis of the Effects of Cell Stress and Cytotoxicity on In Vitro Assay Activity Across a Diverse Chemical and Assay Space. Toxicological Sciences : an Official Journal of the Society of Toxicology, 10(2), 409–409. https://doi.org/10.1093/toxsci/kfw148

Saggu, P., Mineeva, T., Arif, M., Cory, D. G., Haun, R., Heacock, B., … Pushin, D. A. (2016). Decoupling of a neutron interferometer from temperature gradients. Review of Scientific Instruments, 87(12), 123507. https://doi.org/10.1063/1.4971851

Judson, R., Houck, K., Martin, M., Richard, A. M., Knudsen, T. B., Shah, I., … Thomas, R. S. (2016). Editor's Highlight: Analysis of the Effects of Cell Stress and Cytotoxicity on In Vitro Assay Activity Across a Diverse Chemical and Assay Space. Toxicological Sciences : an Official Journal of the Society of Toxicology, 8(2), 323–339. https://doi.org/10.1093/toxsci/kfw092

Chialvo, C. H. S., Che, R., Reif, D., Motsinger-Reif, A., & Reed, L. K. (2016). Eigenvector metabolite analysis reveals dietary effects on the association among metabolite correlation patterns, gene expression, and phenotypes. METABOLOMICS, 12(11). https://doi.org/10.1007/s11306-016-1117-3

Kollitz, E. M., Zhang, G., Hawkins, M. B., Whitfield, G. K., Reif, D. M., & Kullman, S. W. (2016). Evolutionary and Functional Diversification of the Vitamin D Receptor-Lithocholic Acid Partnership. PLOS ONE, 11(12). https://doi.org/10.1371/journal.pone.0168278

Watson, A. L. T. D., Planchart, A., Mattingly, C. J., Winkler, C., Reif, D. M., & Kullman, S. W. (2016). From the Cover: Embryonic Exposure to TCDD Impacts Osteogenesis of the Axial Skeleton in Japanese medaka,Oryzias latipes. Toxicological Sciences, 155(2), 485–496. https://doi.org/10.1093/toxsci/kfw229

Reif, D. M., Truong, L., Mandrell, D., Marvel, S., Zhang, G., & Tanguay, R. L. (2016). High-throughput characterization of chemical-associated embryonic behavioral changes predicts teratogenic outcomes. ARCHIVES OF TOXICOLOGY, 90(6), 1459–1470. https://doi.org/10.1007/s00204-015-1554-1

Prevatt, B.-S., Desmarais, S. L., & Janssen, P. A. (2016). Lifetime substance use as a predictor of postpartum mental health. Archives of Women's Mental Health, 20(1), 189–199. https://doi.org/10.1007/s00737-016-0694-5

Auerbach, S., Filer, D., Reif, D., Walker, V., Holloway, A. C., Schlezinger, J., … Thayer, K. A. (2016). [Review of Prioritizing Environmental Chemicals for Obesity and Diabetes Outcomes Research: A Screening Approach Using ToxCast (TM) High-Throughput Data]. ENVIRONMENTAL HEALTH PERSPECTIVES, 124(8), 1141–1154. https://doi.org/10.1289/ehp.1510456

Shah, I., Setzer, R. W., Jack, J., Houck, K. A., Judson, R. S., Knudsen, T. B., … Kavlock, R. J. (2016). Using toxcast™ data to reconstruct dynamic cell state trajectories and estimate toxicological points of departure. Environmental Health Perspectives, 124(7), 910–919. https://doi.org/10.1289/ehp.1409029

Loomis, D., Guyton, K., Grosse, Y., El, G. F., Bouvard, V., Benbrahim-Tallaa, L., … France. (2015). Carcinogenicity of lindane, DDT, and 2,4-dichlorophenoxyacetic acid. The Lancet. Oncology, 8. https://doi.org/10.1016/s1470-2045(15)00081-9

Ducharme, N. A., Reif, D. M., Gustafsson, J.-A., & Bondesson, M. (2015). Comparison of toxicity values across zebrafish early life stages and mammalian studies: Implications for chemical testing. Reproductive Toxicology, 55, 3–10. https://doi.org/10.1016/j.reprotox.2014.09.005

Meisner, M., & Reif, D. M. (2015). Computational Methods Used in Systems Biology. In Systems Biology in Toxicology and Environmental Health (pp. 85–115). https://doi.org/10.1016/B978-0-12-801564-3.00005-5

George, B. J., Reif, D. M., Gallagher, J. E., Williams-DeVane, C. R., Heidenfelder, B. L., Hudgens, E. E., … Edwards, S. W. (2015). Data-driven asthma endotypes defined from blood biomarker and gene expression data. PLoS ONE, 10(2). https://doi.org/10.1371/journal.pone.0117445

Motsinger, A. A., & Reif, D. M. (2015). Embracing complexity: Searching for gene-gene and gene environment interactions in genetic epidemiology. In Genomics and Proteomics: Principles, Technologies, and Applications (pp. 19–58). https://doi.org/10.1201/b18597

Rovida, C., Asakura, S., Daneshian, M., Hofman-Huether, H., Leist, M., Meunier, L., … Hartung, T. (2015). Food for Thought...: Toxicity testing in the 21st century beyond environmental chemicals. Altex, 32(3), 171–181. https://doi.org/10.14573/altex.1506201

Rebuli, M. E., Camacho, L., Adonay, M. E., Reif, D. M., Aylor, D. L., & Patisaul, H. B. (2015). Impact of Low-Dose Oral Exposure to Bisphenol A (BPA) on Juvenile and Adult Rat Exploratory and Anxiety Behavior: A CLARITY-BPA Consortium Study. TOXICOLOGICAL SCIENCES, 148(2), 341–354. https://doi.org/10.1093/toxsci/kfv163

Kollitz, E. M., Zhang, G., Hawkins, M. B., Whitfield, G. K., Reif, D. M., & Kullman, S. W. (2015). Molecular Cloning, Functional Characterization, and Evolutionary Analysis of Vitamin D Receptors Isolated from Basal Vertebrates. PLOS ONE, 10(4). https://doi.org/10.1371/journal.pone.0122853

Motsinger-Reif, A. A., Zhu, H., Kling, M. A., Matson, W., Sharma, S., Fiehn, O., … Arnold, S. E. (2014). Comparing metabolomic and pathologic biomarkers alone and in combination for discriminating Alzheimer's disease from normal cognitive aging. Acta Neuropathologica Communications, 2(1), 28. https://doi.org/10.1186/2051-5960-1-28

Rotroff, D. M., Wetmore, B. A., Dix, D. J., Ferguson, S. S., Clewell, H. J., Houck, K. A., … Thomas, R. S. (2014). Erratum to Incorporating human dosimetry and exposure into High-throughput in Vitro Toxicity Screening [Toxicological sciences 137, 2, (2014), 499]. Toxicological Sciences, 137(2). https://doi.org/10.1093/toxsci/kft185

Wilson, A., Reif, D. M., & Reich, B. J. (2014). Hierarchical Dose-Response Modeling for High-Throughput Toxicity Screening of Environmental Chemicals. BIOMETRICS, 70(1), 237–246. https://doi.org/10.1111/biom.12114

Truong, L., Reif, D. M., St, M. L., Geier, M. C., Truong, H. D., & Tanguay, R. L. (2014). Multidimensional in vivo hazard assessment using zebrafish. Toxicological Sciences, 137(1), 212–233. https://doi.org/10.1093/toxsci/kft235

Kleinstreuer, N. C., Yang, J., Berg, E. L., Knudsen, T. B., Richard, A. M., Martin, M. T., … Houck, K. A. (2014). Phenotypic screening of the ToxCast chemical library to classify toxic and therapeutic mechanisms. Nature Biotechnology, 32(6), 583–591. https://doi.org/10.1038/nbt.2914

Rotroff, D. M., Martin, M. T., Dix, D. J., Filer, D. L., Houck, K. A., Knudsen, T. B., … Judson, R. S. (2014). Predictive endocrine testing in the 21st century using in vitro assays of estrogen receptor signaling responses. Environmental Science and Technology, 48(15), 8706–8716. https://doi.org/10.1021/es502676e

Huang, R., Sakamuru, S., Martin, M. T., Reif, D. M., Judson, R. S., Houck, K. A., … Xia, M. (2014). Profiling of the Tox21 10K compound library for agonists and antagonists of the estrogen receptor alpha signaling pathway. Scientific Reports, 4. https://doi.org/10.1038/srep05664

Filer, D., Patisaul, H. B., Schug, T., Reif, D., & Thayer, K. (2014). Test driving ToxCast: endocrine profiling for 1858 chemicals included in phase II. CURRENT OPINION IN PHARMACOLOGY, 19, 145–152. https://doi.org/10.1016/j.coph.2014.09.021

Bushnell, P. J., Tatum-Gibbs, R., McKee, J. M., Evansky, P. A., Higuchi, M., MLin, M. T., … Boyes, W. K. (2014). ToxiFly: Can fruit flies be used to identify toxicity pathways for airborne chemicals? Neurotoxicology and Teratology, 43, 89. https://doi.org/10.1016/J.NTT.2014.04.045

Kleinstreuer, N., Dix, D., Rountree, M., Baker, N., Sipes, N., Reif, D., … Knudsen, T. (2013). A Computational Model Predicting Disruption of Blood Vessel Development. PLoS Comput Biol, 9(4), e1002996. https://doi.org/10.1371/journal.pcbi.1002996

Williams-DeVane, C. R., Reif, D. M., Cohen Hubal, E., Bushel, P. R., Hudgens, E. E., Gallagher, J. E., & Edwards, S. W. (2013). Decision tree-based method for integrating gene expression, demographic, and clinical data to determine disease endotypes. BMC Systems Biology, 7, 119. https://doi.org/10.1186/1752-0509-7-119

Wambaugh, J. F., Setzer, R. W., Pitruzzello, A. M., Liu, J., Reif, D. M., Kleinstreuer, N. C., … Lau, C. (2013). Dosimetric anchoring of in vivo and in vitro studies for perfluorooctanoate and perfluorooctanesulfonate. Toxicological Sciences, 136(2), 308–327. https://doi.org/10.1093/toxsci/kft204

Wambaugh, J. F., Setzer, R. W., Reif, D. M., Gangwal, S., Mitchell-Blackwood, J., Arnot, J. A., … E.A. (2013). High-throughput models for exposure-based chemical prioritization in the ExpoCast project. Environmental Science and Technology, 47(15), 8479–8488. https://doi.org/10.1021/es400482g

Kleinstreuer, N. C., Dix, D. J., Houck, K. A., Kavlock, R. J., Knudsen, T. B., Martin, M. T., … Judson, R. S. (2013). In vitro perturbations of targets in cancer hallmark processes predict rodent chemical carcinogenesis. Toxicological Sciences, 131(1), 40–55. https://doi.org/10.1093/toxsci/kfs285

Ducharme, N. A., Peterson, L. E., Benfenati, E., Reif, D., McCollum, C. W., JÅ, G., & Bondesson, M. (2013). Meta-analysis of toxicity and teratogenicity of 133 chemicals from zebrafish developmental toxicity studies. Reproductive Toxicology, 41, 98–108. https://doi.org/10.1016/j.reprotox.2013.06.070

Judson, R., Kavlock, R., Martin, M., Reif, D., Houck, K., Knudsen, T., … Dix, D. (2013). Perspectives on validation of high-throughput assays supporting 21st century toxicity testing. Altex, 30(1), 51–66. Retrieved from http://europepmc.org/abstract/med/23338806

Sipes, N. S., Martin, M. T., Kothiya, P., Reif, D. M., Judson, R. S., Richard, A. M., … Knudsen, T. B. (2013). Profiling 976 ToxCast Chemicals across 331 Enzymatic and Receptor Signaling Assays. Chem. Res. Toxicol., 26(6), 878–895. https://doi.org/10.1021/tx400021f

Rotroff, D. M., Dix, D. J., Houck, K. A., Kavlock, R. J., Knudsen, T. B., Martin, M. T., … Judson, R. S. (2013). Real-time growth kinetics measuring hormone mimicry for ToxCast chemicals in T-47D human ductal carcinoma cells. Chemical Research in Toxicology, 26(7), 1097–1107. https://doi.org/10.1021/tx400117y

Houck, K. A., Richard, A. M., Judson, R. S., Martin, M. T., Reif, D. M., & Shah, I. (2013, February). ToxCast: Predicting Toxicity Potential Through High-Throughput Bioactivity Profiling. High-Throughput Screening Methods in Toxicity Testing, Vol. 2, p. 1–31. https://doi.org/10.1002/9781118538203.ch1

Reif, D. M., Sypa, M., Lock, E. F., Wright, F. A., Wilson, A., Cathey, T., … Bioinformatics. (2013). ToxPi GUI: an interactive visualization tool for transparent integration of data from diverse sources of evidence. Bioinformatics, 29(3), 402–403. https://doi.org/10.1093/bioinformatics/bts686

Rotroff, D. M., Dix, D. J., Houck, K. A., Knudsen, T. B., Martin, M. T., McLaurin, K. W., … Judson, R. S. (2013). Using in vitro high throughput screening assays to identify potential endocrine-disrupting chemicals. Environmental Health Perspectives, 121(1), 7–14. https://doi.org/10.1289/ehp.1205065

Hoover, K., Marceau, R., Harris, T., Reif, D., & Motsinger-Reif, A. (2012). A comparison of GE optimized neural networks and decision trees. Proceedings of the fourteenth international conference on Genetic and evolutionary computation conference companion - GECCO Companion '12, 611–614. https://doi.org/10.1145/2330784.2330885

Gory, J. J., Sweeney, H. C., Reif, D. M., & Motsinger-Reif, A. A. (2012). A comparison of internal model validation methods for multifactor dimensionality reduction in the case of genetic heterogeneity. BMC Research Notes, 5(1), 623. https://doi.org/10.1186/1756-0500-5-623

Judson, R. S., Martin, M. T., Egeghy, P., Gangwal, S., Reif, D. M., Kothiya, P., … A.M. (2012). Aggregating Data for Computational Toxicology Applications: The U.S. Environmental Protection Agency (EPA) Aggregated Computational Toxicology Resource (ACToR) System. International Journal of Molecular Sciences, 13(2), 1805–1831. https://doi.org/10.3390/ijms13021805

Dix, D. J., Houck, K. A., Judson, R. S., Kleinstreuer, N. C., Knudsen, T. B., Martin, M. T., … Kavlock, R. J. (2012). Incorporating biological, chemical, and toxicological knowledge into predictive models of toxicity. Toxicological Sciences, 130(2), 440–441. https://doi.org/10.1093/toxsci/kfs281

Gangwal, S., Reif, D. M., Mosher, S., Egeghy, P. P., Wambaugh, J. F., Judson, R. S., & Hubal, E. A. C. (2012). Incorporating exposure information into the toxicological prioritization index decision support framework. Science of The Total Environment, 435-436, 316–325. https://doi.org/10.1016/j.scitotenv.2012.06.086

Kavlock, R., Chandler, K., Houck, K., Hunter, S., Judson, R., Kleinstreuer, N., … Dix, D. (2012). Update on EPA’s ToxCast Program: Providing High Throughput Decision Support Tools for Chemical Risk Management. Chem. Res. Toxicol., 25(7), 1287–1302. https://doi.org/10.1021/tx3000939

Padilla, S., Corum, D., Padnos, B., Hunter, D. L., Beam, A., Houck, K. A., … Reif, D. M. (2012). Zebrafish developmental screening of the ToxCast™ Phase I chemical library. Reproductive Toxicology, 33(2), 174–187. https://doi.org/10.1016/j.reprotox.2011.10.018

Knudsen, T. B., Houck, K. A., Sipes, N. S., Singh, A. V., Judson, R. S., Martin, M. T., … Kavlock, R. J. (2011). Activity profiles of 309 ToxCast™ chemicals evaluated across 292 biochemical targets. Toxicology, 282(1-2), 1–15. https://doi.org/10.1016/j.tox.2010.12.010

Kleinstreuer, N. C., Judson, R. S., Reif, D. M., Sipes, N. S., Singh, A. V., Chandler, K. J., … Knudsen, T. B. (2011). Environmental Impact on Vascular Development Predicted by High-Throughput Screening. Environ Health Perspect, 119(11), 1596–1603. https://doi.org/10.1289/ehp.1103412

Chandler, K. J., Barrier, M., Jeffay, S., Nichols, H. P., Kleinstreuer, N. C., Singh, A. V., … Knudsen, T. B. (2011). Evaluation of 309 Environmental Chemicals Using a Mouse Embryonic Stem Cell Adherent Cell Differentiation and Cytotoxicity Assay. PLoS ONE, 6(6), e18540. https://doi.org/10.1371/journal.pone.0018540

Joubert, B. R., Reif, D. M., Edwards, S. W., Leiner, K. A., Hudgens, E. E., Egeghy, P., … Hubal, E. C. (2011). Evaluation of genetic susceptibility to childhood allergy and asthma in an African American urban population. BMC Medical Genetics, 12, 25. https://doi.org/10.1186/1471-2350-12-25

Gallagher, J., Hudgens, E., Williams, A., Inmon, J., Rhoney, S., Andrews, G., … Hubal, E. C. (2011). Mechanistic indicators of childhood asthma (MICA) study: piloting an integrative design for evaluating environmental health. BMC Public Health, 11, 344. https://doi.org/10.1186/1471-2458-11-344

Hoover, K., Marceau, R., Harris, T., Hardison, N., Reif, D., & Motsinger-Reif, A. (2011). Optimization of grammatical evolution decision trees. Proceedings of the 13th annual conference companion on Genetic and evolutionary computation - GECCO '11, 35–36. https://doi.org/10.1145/2001858.2001879

Martin, M. T., Knudsen, T. B., Reif, D. M., Houck, K. A., Judson, R. S., Kavlock, R. J., & Dix, D. J. (2011). Predictive model of rat reproductive toxicity from ToxCast high throughput screening. Biology of Reproduction, 85(2), 327–339. https://doi.org/10.1095/biolreprod.111.090977

Sipes, N. S., Martin, M. T., Reif, D. M., Kleinstreuer, N. C., Judson, R. S., Singh, A. V., … Knudsen, T. B. (2011). Predictive models of prenatal developmental toxicity from ToxCast high-throughput screening data. Toxicological Sciences, 124(1), 109–127. https://doi.org/10.1093/toxsci/kfr220

Shah, I., Houck, K., Judson, R. S., Kavlock, R. J., Martin, M. T., Reif, D. M., … Dix, D. J. (2011). Using Nuclear Receptor Activity to Stratify Hepatocarcinogens. PLoS ONE, 6(2). https://doi.org/10.1371/journal.pone.0014584

Judson, R. S., Martin, M. T., Reif, D. M., Houck, K. A., Knudsen, T. B., Rotroff, D. M., … Dix, D. J. (2010). Analysis of eight oil spill dispersants using rapid, in vitro tests for endocrine and other biological activity. Environmental Science and Technology, 44(15), 5979–5985. https://doi.org/10.1021/es102150z

Reif, D. M., Martin, M. T., Tan, S. W., Houck, K. A., Judson, R. S., Richard, A. M., … Kavlock, R. J. (2010). Endocrine Profiling and Prioritization of Environmental Chemicals Using ToxCast Data. Environ Health Perspect, 118(12), 1714–1720. https://doi.org/10.1289/ehp.1002180

Martin, M. T., Dix, D. J., Judson, R. S., Kavlock, R. J., Reif, D. M., Richard, A. M., … Houck, K. A. (2010). Impact of environmental chemicals on key transcription regulators and correlation to toxicity end points within EPA's ToxCast program. Chemical Research in Toxicology, 23(3), 578–590. https://doi.org/10.1021/tx900325g

Judson, R. S., Houck, K. A., Kavlock, R. J., Knudsen, T. B., Martin, M. T., Mortensen, H. M., … Dix, D. J. (2010). In vitro screening of environmental chemicals for targeted testing prioritization: The toxcast project. Environmental Health Perspectives, 118(4), 485–492. https://doi.org/10.1289/ehp.0901392

Rotroff, D. M., Wetmore, B. A., Dix, D. J., Ferguson, S. S., Clewell, H. J., Houck, K. A., … Thomas, R. S. (2010). Incorporating human dosimetry and exposure into high-throughput in vitro toxicity screening. Toxicological Sciences, 117(2), 348–358. https://doi.org/10.1093/toxsci/kfq220

Sanchez, Y. A., Deener, K., Hubal, E. C., Knowlton, C., Reif, D., & Segal, D. (2010). Research needs for community-based risk assessment: findings from a multi-disciplinary workshop. J Expos Sci Environ Epidemiol, 20(2), 186–195. https://doi.org/10.1038/jes.2009.8

Rotroff, D. M., Beam, A. L., Dix, D. J., Farmer, A., Freeman, K. M., Houck, K. A., … Ferguson, S. S. (2010). Xenobiotic-metabolizing enzyme and transporter gene expression in primary cultures of human hepatocytes modulated by ToxCast chemicals. Journal of Toxicology and Environmental Health - Part B: Critical Reviews, 13(2-4), 329–346. https://doi.org/10.1080/10937404.2010.483949

Motsinger-Reif, A. A., Reif, D. M., Fanelli, T. J., & Ritchie, M. D. (2009, December). A Comparison of Analytical Methods for Genetic Association Studies (vol 32, pg 767, 2008). GENETIC EPIDEMIOLOGY, Vol. 33, pp. 751–751. https://doi.org/10.1002/gepi.20420

Heidenfelder, B. L., Reif, D. M., Harkema, J. R., Cohen Hubal, E. A., Hudgens, E. E., Bramble, L. A., … Gallagher, J. E. (2009). Comparative microarray analysis and pulmonary changes in Brown Norway rats exposed to ovalbumin and concentrated air particulates. Toxicological Sciences, 108(1), 207–221. https://doi.org/10.1093/toxsci/kfp005

Reif, D. M., Motsinger-Reif, A. A., McKinney, B. A., Rock, M. T., Crowe, J. E., Jr., & Moore, J. H. (2009). Integrated analysis of genetic and proteomic data identifies biomarkers associated with adverse events following smallpox vaccination. GENES AND IMMUNITY, 10(2), 112–119. https://doi.org/10.1038/gene.2008.80

Martin, M. T., Judson, R. S., Reif, D. M., Kavlock, R. J., & Dix, D. J. (2009). Profiling Chemicals Based on Chronic Toxicity Results from the U.S. EPA ToxRef Database. Environ Health Perspect, 117(3), 392–399. https://doi.org/10.1289/ehp.0800074

Motsinger-Reif, A. A., Reif, D. M., Fanelli, T. J., & Ritchie, M. D. (2008). A Comparison of Analytical Methods for Genetic Association Studies. GENETIC EPIDEMIOLOGY, 32(8), 767–778. https://doi.org/10.1002/gepi.20345

Hardison, N. E., Fanelli, T. J., Dudek, S. M., Reif, D. M., Ritchie, M. D., & Motsinger-Reif, A. A. (2008). A balanced accuracy fitness function leads to robust analysis using grammatical evolution neural networks in the case of class imbalance. Proceedings of the 10th annual conference on Genetic and evolutionary computation - GECCO '08, 353–354. https://doi.org/10.1145/1389095.1389159

Reif, D. M., McKinney, B. A., Motsinger, A. A., Chanock, S. J., Edwards, K. M., Rock, M. T., … Crowe, Jr., J. E. (2008). Genetic Basis for Adverse Events after Smallpox Vaccination. The Journal of Infectious Diseases, 198(1), 16–22. https://doi.org/10.1086/588670

Reif, D. M., McKinney, B. A., & Motsinger, A. A. (2008). Genetic basis for adverse events after smallpox vaccination (Journal of Infectious Diseases (2008) 198, (16-22)). Journal of Infectious Diseases, 198(5). https://doi.org/10.1086/590918

McKinney, B. A., Reif, D. M., White, B. C., Je, C., Moore, J. H., & Bioinformatics. (2007). Evaporative cooling feature selection for genotypic data involving interactions. Bioinformatics, 23(16), 2113–2120. https://doi.org/10.1093/bioinformatics/btm317

Reif, D. M., Israel, M. A., & Moore, J. H. (2007). Exploratory Visual Analysis of statistical results from microarray experiments comparing high and low grade glioma. Cancer Informatics, 5, 19–24. Retrieved from http://europepmc.org/abstract/med/19390666

Motsinger, A. A., Reif, D. M., Fanelli, T. J., Davis, A. C., & Ritchie, M. D. (2007). Linkage Disequilibrium in Genetic Association Studies Improves the Performance of Grammatical Evolution Neural Networks. Proceedings of the ... IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology. IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2007, 1–8. Retrieved from http://europepmc.org/abstract/med/21572972

Motsinger, A. A., Reif, D. M., Fanelli, T. J., Davis, A. C., & Ritchie, M. D. (2007). Linkage disequilibrium in genetic association studies improves the performance of grammatical evolution neural networks. 2007 IEEE Symposium on Computational Intelligence and Bioinformatics and Computational Biology, CIBCB 2007, 1–8. Retrieved from http://www.scopus.com/inward/record.url?eid=2-s2.0-67650698880&partnerID=MN8TOARS

Motsinger, A. A., Ritchie, M. D., & Reif, D. M. (2007). Novel methods for detecting epistasis in pharmacogenomics studies. Pharmacogenomics, 8(9), 1229–1241. https://doi.org/10.2217/14622416.8.9.1229

McKinney, B. A., Reif, D. M., Rock, M. T., Edwards, K. M., Kingsmore, S. F., Moore, J. H., & JE, C., Jr. (2006). Cytokine expression patterns associated with systemic adverse events following smallpox immunization. Journal of Infectious Diseases, 194(4), 444–453. https://doi.org/10.1086/505503

Feature selection using a random forests classifier for the integrated analysis of multiple data types. (2006). Proceedings of the 2006 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB'06, 171–178. https://doi.org/10.1109/CIBCB.2006.330987

Reif, D. M., & Libraries, V. U. (2006). Integrated analysis of genetic and proteomic data. Retrieved from http://europepmc.org/theses/ETH/7299

McKinney, B. A., Reif, D. M., Ritchie, M. D., & Moore, J. H. (2006). Machine Learning for Detecting Gene-Gene Interactions. Applied Bioinformatics, 5(2), 77–88. https://doi.org/10.2165/00822942-200605020-00002

Motsinger, A. A., Reif, D. M., Dudek, S. M., & Ritchie, M. D. (2006). Understanding the evolutionary process of grammatical evolution neural networks for feature selection in genetic epidemiology. Proceedings of the 2006 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB'06, 263–270. https://doi.org/10.1109/CIBCB.2006.330945

Reif, D., & Moore, J. (2006). Visual analysis of statistical results from microarray studies of human breast cancer. Oncol Rep, 4(4), 1043–1047. https://doi.org/10.3892/or.15.4.1043

Reif, D. M., & Moore, J. H. (2006). Visual analysis of statistical results from microarray studies of human breast cancer. Oncology Reports, c, 1043–1047. Retrieved from http://europepmc.org/abstract/med/16525698

White, B. C., Gilbert, J. C., Reif, D. M., & Moore, J. H. (2005). A statistical comparison of grammatical evolution strategies in the domain of human genetics. 2005 IEEE Congress on Evolutionary Computation, IEEE CEC 2005. Proceedings, 1, 676–682. Retrieved from http://www.scopus.com/inward/record.url?eid=2-s2.0-27144535907&partnerID=MN8TOARS

Wilke, R. A., Reif, D. M., & Moore, J. H. (2005). Combinatorial Pharmacogenetics. Nat Rev Drug Discov, 4(11), 911–918. https://doi.org/10.1038/nrd1874

Reif, D. M., Dudek, S. M., Shaffer, C. M., Wang, J., & Moore, J. H. (2005). Exploratory visual analysis of pharmacogenomic results. Proceedings of the Pacific Symposium on Biocomputing 2005, PSB 2005, 296–307. Retrieved from http://www.scopus.com/inward/record.url?eid=2-s2.0-15944408038&partnerID=MN8TOARS

Reif, D. M., Dudek, S. M., Shaffer, C. M., Wang, J., & Moore, J. H. (2005). Exploratory visual analysis of pharmacogenomic results. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. Retrieved from http://europepmc.org/abstract/med/15759635

Knabe, C., Stiller, M., Berger, G., Reif, D., Gildenhaar, R., Howlett, C. R., & Zreiqat, H. (2005). The effect of bioactive glass ceramics on the expression of bone-related genes and proteins in vitro. Clinical Oral Implants Research, 16(1), 119–127. https://doi.org/10.1111/j.1600-0501.2004.01066.x

Reif, D. M., White, B. C., & Moore, J. H. (2004). Integrated analysis of genetic, genomic and proteomic data. Expert Review of Proteomics, 1(1), 67–75. https://doi.org/10.1586/14789450.1.1.67

Reif, D. M., White, B. C., Olsen, N., Aune, T., & Moore, J. H. (2003). Complex Function Sets Improve Symbolic Discriminant Analysis of Microarray Data. Genetic and Evolutionary Computation — GECCO 2003, p. 2277–2287. https://doi.org/10.1007/3-540-45110-2_121

Reif, D. M., White, B. C., Olsen, N., Aune, T., & Moore, J. H. (2003). Complex function sets improve symbolic discriminant analysis of microarray data. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (Vol. 2724, pp. 2277–2287). Retrieved from http://www.scopus.com/inward/record.url?eid=2-s2.0-33744780676&partnerID=MN8TOARS

REIF, D. A. V. I. D. M., DUDEK, S. C. O. T. T. M., SHAFFER, C. H. R. I. S. T. I. A. N. M., WANG, J. A. N. E. Y., & MOORE, J. A. S. O. N. H. EXPLORATORY VISUAL ANALYSIS OF PHARMACOGENOMIC RESULTS. Biocomputing 2005 - Proceedings of the Pacific Symposium. https://doi.org/10.1142/9789812702456_0028