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2024 journal article
Characterizing PFAS hazards and risks: a human population-based in vitro cardiotoxicity assessment strategy
HUMAN GENOMICS, 18(1).
2024 journal article
Control of false discoveries in grouped hypothesis testing for eQTL data
BMC BIOINFORMATICS, 25(1).
2024 article
Genetic variation in severe cystic fibrosis liver disease is associated with novel mechanisms for disease pathogenesis
Stonebraker, J., Pace, R., Gallins, P., Dang, H., Aksit, M., Faino, A., … Knowles, M. (2024, March 27). HEPATOLOGY, Vol. 3.
2024 journal article
Hazard and risk characterization of 56 structurally diverse PFAS using a targeted battery of broad coverage assays using six human cell types
TOXICOLOGY, 503.
2024 article
Informing Hazard Identification and Risk Characterization of Environmental Chemicals by Combining Transcriptomic and Functional Data from Human-Induced Pluripotent Stem-Cell-Derived Cardiomyocytes
Tsai, H.-H. D., Ford, L. C., Burnett, S. D., Dickey, A. N., Wright, F. A., Chiu, W. A., & Rusyn, I. (2024, July 24). CHEMICAL RESEARCH IN TOXICOLOGY.
2024 journal article
Liver eQTL meta-analysis illuminates potential molecular mechanisms of cardiometabolic traits
AMERICAN JOURNAL OF HUMAN GENETICS, 111(9).
2024 journal article
Risk-Based Prioritization of PFAS Using Phenotypic and Transcriptomic Data from Human Induced Pluripotent Stem Cell-Derived Hepatocytes and Cardiomyocytes
ALTEX-ALTERNATIVES TO ANIMAL EXPERIMENTATION, 41(3), 363–381.
2024 article
Time for CHANGE: system-level interventions for bringing forward the date of effective use of NAMs in regulatory toxicology
Mathisen, G. H., Bearth, A., Jones, L. B., Hoffmann, S., Vist, G. E., Ames, H. M., … Whaley, P. (2024, June 14). ARCHIVES OF TOXICOLOGY.
2024 article
Two-Stage Machine Learning-Based Approach to Predict Points of Departure for Human Noncancer and Developmental/Reproductive Effects
Kvasnicka, J., Aurisano, N., Borries, K., Lu, E.-H., Fantke, P., Jolliet, O., … Chiu, W. A. (2024, May 2). ENVIRONMENTAL SCIENCE & TECHNOLOGY.
2023 article
A tiered testing strategy based on in vitro phenotypic and transcriptomic data for selecting representative petroleum UVCBs for toxicity evaluation in vivo
Tsai, H.-H. D., House, J. S., Wright, F. A., Chiu, W. A., & Rusyn, I. (2023, April 20). TOXICOLOGICAL SCIENCES.
2023 journal article
Analysis of reproducibility and robustness of a renal proximal tubule microphysiological system OrganoPlate 3-lane 40 for in vitro studies of drug transport and toxicity
TOXICOLOGICAL SCIENCES.
2023 article
Application of Ion Mobility Spectrometry-Mass Spectrometry for Compositional Characterization and Fingerprinting of a Library of Diverse Crude Oil Samples
Cordova, A. C., Dodds, J. N., Tsai, H.-H. D., Lloyd, D. T., Roman-Hubers, A. T., Wright, F. A., … Rusyn, I. (2023, August 22). ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY.
2023 journal article
Genetic Modifiers of Cystic Fibrosis Lung Disease Severity
AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE, 207(10), 1324–1333.
2023 journal article
Integrative Chemical-Biological Grouping of Complex High Production Volume Substances from Lower Olefin Manufacturing Streams
TOXICS, 11(7).
2023 article
Simultaneous modeling of multivariate heterogeneous responses and heteroskedasticity via a two-stage composite likelihood
Ting, B. W. W., Wright, F. A., & Zhou, Y.-H. (2023, May 22). BIOMETRICAL JOURNAL.
2023 article
Ten years of using key characteristics of human carcinogens to organize and evaluate mechanistic evidence in IARC Monographs on the identification of carcinogenic hazards to humans: Patterns and associations
Rusyn, I., & Wright, F. A. (2023, December 23). TOXICOLOGICAL SCIENCES.
2022 journal article
A Population-Based Human In Vitro Approach to Quantify Inter-Individual Variability in Responses to Chemical Mixtures
TOXICS, 10(8).
2022 journal article
A resource for integrated genomic analysis of the human liver
SCIENTIFIC REPORTS, 12(1).
2022 journal article
Characterization of compositional variability in petroleum substances
FUEL, 317.
2022 journal article
Characterization of population variability of 1,3-butadiene derived protein adducts in humans and mice
REGULATORY TOXICOLOGY AND PHARMACOLOGY, 132.
2022 journal article
Correlation Analysis of Variables From the Atherosclerosis Risk in Communities Study
FRONTIERS IN PHARMACOLOGY, 13.
2022 article
Fast Multivariate Probit Estimation via a Two-Stage Composite Likelihood
Ting, B., Wright, F., & Zhou, Y.-H. (2022, February 15). STATISTICS IN BIOSCIENCES, Vol. 2.
2022 article
Genomic map of candidate human imprint control regions: the imprintome
Jima, D. D., Skaar, D. A., Planchart, A., Motsinger-Reif, A., Cevik, S. E., Park, S. S., … Hoyo, C. (2022, June 25). EPIGENETICS, Vol. 6.
2022 journal article
Grouping of UVCB Substances with Dose-Response Transcriptomics Data from Human Cell-Based Assays
ALTEX-ALTERNATIVES TO ANIMAL EXPERIMENTATION, 39(3), 388–404.
2022 journal article
Identification and single-base gene-editing functional validation of a cis-EPO variant as a genetic predictor for EPO-increasing therapies
AMERICAN JOURNAL OF HUMAN GENETICS, 109(9), 1638–1652.
2022 journal article
Leveraging TOPMed imputation server and constructing a cohort-specific imputation reference panel to enhance genotype imputation among cystic fibrosis patients
HUMAN GENETICS AND GENOMICS ADVANCES, 3(2).
2022 journal article
MagicalRsq: Machine-learning-based genotype imputation quality calibration
AMERICAN JOURNAL OF HUMAN GENETICS, 109(11), 1986–1997.
2022 journal article
Model systems and organisms for addressing inter- and intra-species variability in risk assessment
REGULATORY TOXICOLOGY AND PHARMACOLOGY, 132.
2022 journal article
Pleiotropic modifiers of age-related diabetes and neonatal intestinal obstruction in cystic fibrosis
AMERICAN JOURNAL OF HUMAN GENETICS, 109(10), 1894–1908.
2022 journal article
Spatial and Temporal Analysis of Impacts of Hurricane Florence on Criteria Air Pollutants and Air Toxics in Eastern North Carolina
INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH, 19(3).
2022 article
TwinEQTL: ultrafast and powerful association analysis for eQTL and GWAS in twin studies
Xia, K., Shabalin, A. A., Yin, Z., Chung, W., Sullivan, P. F., Wright, F. A., … Zou, F. (2022, June 11). GENETICS.
2021 journal article
Application of Edible Montmorillonite Clays for the Adsorption and Detoxification of Microcystin
ACS APPLIED BIO MATERIALS, 4(9), 7254–7265.
Contributors: M. Wang *, K. Rivenbark *, J. Gong n , n & T. Phillips
2021 journal article
Data Processing Workflow to Identify Structurally Related Compounds in Petroleum Substances Using Ion Mobility Spectrometry-Mass Spectrometry
ENERGY & FUELS, 35(13), 10529–10539.
2021 journal article
Environmental impacts of Hurricane Florence flooding in eastern North Carolina: temporal analysis of contaminant distribution and potential human health risks
JOURNAL OF EXPOSURE SCIENCE AND ENVIRONMENTAL EPIDEMIOLOGY, 31(5), 810–822.
2021 journal article
Intra- and Inter-Species Variability in Urinary N7-(1-Hydroxy-3-buten-2-yl)guanine Adducts Following Inhalation Exposure to 1,3-Butadiene
CHEMICAL RESEARCH IN TOXICOLOGY, 34(11), 2375–2383.
2021 journal article
Potential Human Health Hazard of Post-Hurricane Harvey Sediments in Galveston Bay and Houston Ship Channel: A Case Study of Using In Vitro Bioactivity Data to Inform Risk Management Decisions
INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH, 18(24).
2021 journal article
Relationships between constituents of energy drinks and beating parameters in human induced pluripotent stem cell (iPSC)-Derived cardiomyocytes
FOOD AND CHEMICAL TOXICOLOGY, 149.
2021 personal communication
The COVID-19 Pandemic Vulnerability Index (PVI) Dashboard: Monitoring County-Level Vulnerability Using Visualization, Statistical Modeling, and Machine Learning
Marvel, S. W., House, J. S., Wheeler, M., Song, K., Zhou, Y.-H., Wright, F. A., … Reif, D. M. (2021, January).
Contributors: S. Marvel n, J. House* , M. Wheeler *, K. Song n, Y. Zhou n , n, W. Chiu *, I. Rusyn *, A. Motsinger-Reif*, D. Reif n
2020 journal article
Classification of estrogenic compounds by coupling high content analysis and machine learning algorithms
PLOS COMPUTATIONAL BIOLOGY, 16(9).
2020 journal article
Grouping of UVCB Substances with New Approach Methodologies (NAMs) Data
ALTEX-ALTERNATIVES TO ANIMAL EXPERIMENTATION, 38(1), 123–137.
Contributors: J. House n , F. Grimm, W. Klaren, A. Dalzell, S. Kuchi, S. Zhang, K. Lenz, P. Boogaard
2020 journal article
Low-Dose Silver Nanoparticle Surface Chemistry and Temporal Effects on Gene Expression in Human Liver Cells
SMALL, 16(21).
Contributors: J. House n , E. Bouzos*, K. Fahy *, V. Francisco*, D. Lloyd n, n, A. Motsinger-Reif*, P. Asuri *, K. Wheeler *
2020 personal communication
Questioning Existing Cancer Hazard Evaluation Standards in the Name of Statistics
Rusyn, I., Chiu, W. A., & Wright, F. A. (2020, October).
2020 journal article
Rapid Hazard Characterization of Environmental Chemicals Using a Compendium of Human Cell Lines from Different Organs
ALTEX-ALTERNATIVES TO ANIMAL EXPERIMENTATION, 37(4), 623–638.
2020 journal article
Risk Characterization of Environmental Samples Using In Vitro Bioactivity and Polycyclic Aromatic Hydrocarbon Concentrations Data
TOXICOLOGICAL SCIENCES, 179(1), 108–120.
2020 journal article
Systematic Comparisons for Composition Profiles, Taxonomic Levels, and Machine Learning Methods for Microbiome-Based Disease Prediction
FRONTIERS IN MOLECULAR BIOSCIENCES, 7.
2020 journal article
The GTEx Consortium atlas of genetic regulatory effects across human tissues
SCIENCE, 369(6509), 1318–1330.
2019 journal article
A New Liver Expression Quantitative Trait Locus Map From 1,183 Individuals Provides Evidence for Novel Expression Quantitative Trait Loci of Drug Response, Metabolic, and Sex-Biased Phenotypes
CLINICAL PHARMACOLOGY & THERAPEUTICS, 107(6), 1383–1393.
2019 article
Development of the Texas A&M Superfund Research Program Computational Platform for Data Integration, Visualization, and Analysis
29TH EUROPEAN SYMPOSIUM ON COMPUTER AIDED PROCESS ENGINEERING, PT A, Vol. 46, pp. 967–972.
2019 journal article
Grouping of complex substances using analytical chemistry data: A framework for quantitative evaluation and visualization
PLOS ONE, 14(10).
Contributors: M. Onel *, B. Beykal *, K. Ferguson *, W. Chiu *, T. McDonald *, L. Zhou *, J. House n , n
2019 journal article
Population-Based Analysis of DNA Damage and Epigenetic Effects of 1,3-Butadiene in the Mouse
CHEMICAL RESEARCH IN TOXICOLOGY, 32(5), 887–898.
2019 journal article
Using Collaborative Cross Mouse Population to Fill Data Gaps in Risk Assessment: A Case Study of Population-Based Analysis of Toxicokinetics and Kidney Toxicodynamics of Tetrachloroethylene
ENVIRONMENTAL HEALTH PERSPECTIVES, 127(6).
2018 journal article
A Human Population-Based Organotypic In Vitro Model for Cardiotoxicity Screening
ALTEX-ALTERNATIVES TO ANIMAL EXPERIMENTATION, 35(4), 441–452.
Contributors: F. Grimm *, A. Blanchette, J. House , K. Ferguson, N. Hsieh, C. Dalaijamts, A. Wright, B. Anson
2018 journal article
A common allele in FGF21 associated with sugar intake is associated with body shape, lower total body-fat percentage, and higher blood pressure
Cell Reports, 23(2), 327–336.
2018 journal article
Airway mucosal host defense is key to genomic regulation of cystic fibrosis lung disease severity
American Journal of Respiratory and Critical Care Medicine, 197(1), 79–93.
2018 journal article
HT-eQTL: integrative expression quantitative trait loci analysis in a large number of human tissues
BMC Bioinformatics, 19.
2019 journal article
Multi-dimensional in vitro bioactivity profiling for grouping of glycol ethers
REGULATORY TOXICOLOGY AND PHARMACOLOGY, 101, 91–102.
Contributors: F. Grimm *, J. House n , M. Wilson*, O. Sirenko *, Y. Iwata*, n, N. Ball, I. Rusyn *
2018 journal article
Periconceptional maternal mediterranean diet is associated with favorable offspring behaviors and altered CpG methylation of imprinted genes
Frontiers in Cell and Developmental Biology, 6(SEP), 107.
Contributors: J. House n , M. Mendez *, R. Maguire n, S. Gonzalez-Nahm *, Z. Huang *, J. Daniels *, S. Murphy *, B. Fuemmeler *, n, C. Hoyo n
2018 journal article
Polyphasic characterization of four soil-derived phenanthrene-degrading Acidovorax strains and proposal of Acidovorax carolinensis sp nov.
SYSTEMATIC AND APPLIED MICROBIOLOGY, 41(5), 460–472.
2018 journal article
Population-based dose-response analysis of liver transcriptional response to trichloroethylene in mouse
MAMMALIAN GENOME, 29(1-2), 168–181.
Contributors: A. Venkatratnam*, J. House n , K. Konganti*, C. McKenney n, D. Threadgill *, W. Chiu *, D. Aylor n, n, I. Rusyn *
2018 journal article
ToxPi Graphical User Interface 2.0: Dynamic exploration, visualization, and sharing of integrated data models
BMC Bioinformatics, 19.
2017 journal article
A Pipeline for high-throughput concentration response modeling of gene expression for toxicogenomics
Frontiers in Genetics, 8.
2017 journal article
A procedure to detect general association based on concentration of ranks
Stat, 6(1), 88–101.
2017 journal article
A tiered, Bayesian approach to estimating population variability for regulatory decision-making
Altex-Alternatives to Animal Experimentation, 34(3), 377–388.
2017 journal article
Adrenal-derived stress hormones modulate ozone-induced lung injury and inflammation
TOXICOLOGY AND APPLIED PHARMACOLOGY, 329, 249–258.
Contributors: A. Henriquez *, J. House n , D. Miller*, S. Snow *, A. Fisher*, H. Ren*, M. Schladweiler *, A. Ledbetter*, n, U. Kodavanti *
2017 journal article
An empirical Bayes approach for multiple tissue eQTL analysis
Biostatistics (Oxford, England), 19(3), 391–406.
2017 journal article
An improved and explicit surrogate variable analysis procedure by coefficient adjustment
BIOMETRIKA, 104(2), 303–316.
2017 journal article
Computation of ancestry scores with mixed families and unrelated individuals
BIOMETRICS, 74(1), 155–164.
2017 journal article
Conditional eQTL analysis reveals allelic heterogeneity of gene expression
HUMAN MOLECULAR GENETICS, 26(8), 1444–1451.
2017 journal article
Dynamic landscape and regulation of RNA editing in mammals
Nature, 550(7675), 249–254.
2017 journal article
Editor's Highlight: Collaborative Cross Mouse Population Enables Refinements to Characterization of the Variability in Toxicokinetics of Trichloroethylene and Provides Genetic Evidence for the Role of PPAR Pathway in Its Oxidative Metabolism
TOXICOLOGICAL SCIENCES, 158(1), 48–62.
2017 journal article
Estimation of cis-eQTL effect sizes using a log of linear model
BIOMETRICS, 74(2), 616–625.
2017 journal article
Functional Architectures of Local and Distal Regulation of Gene Expression in Multiple Human Tissues
AMERICAN JOURNAL OF HUMAN GENETICS, 100(4), 605–616.
2017 journal article
Genetic effects on gene expression across human tissues
Nature, 550(7675), 204–213.
Ed(s): A. Battle *, C. Brown *, B. Engelhardt * & S. Montgomery *
2017 journal article
Genetic effects on gene expression across human tissues
Nature, 550(7675), 204-.
2017 journal article
Landscape of X chromosome inactivation across human tissues
Nature, 550(7675), 244–248.
2017 journal article
The impact of rare variation on gene expression across tissues
Nature, 550(7675), 239–243.
2016 journal article
A chemical-biological similarity-based grouping of complex substances as a prototype approach for evaluating chemical alternatives
GREEN CHEMISTRY, 18(16), 4407–4419.
Contributors: F. Grimm *, Y. Iwata*, O. Sirenko *, G. Chappell *, n, D. Reif n , J. Braisted *, D. Gerhold *
2016 journal article
Erratum: Corrigendum: Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases
Scientific Reports, 6(1), 19384.
2016 journal article
Gene expression in major depressive disorder
Molecular Psychiatry, 21(3), 339–347.
2016 journal article
Homologous recombination and translesion DNA synthesis play critical roles on tolerating DNA damage caused by trace levels of hexavalent chromium
PLoS One, 11(12).
2016 journal article
Integrative approaches for large-scale transcriptome-wide association studies
Nature Genetics, 48(3), 245–252.
2016 journal article
Integrative approaches for large-scale transcriptome-wide association studies
Nature Genetics, 48(3), 245–252.
2016 conference paper
Poster: risk-based attack surface approximation
Symposium and Bootcamp on the Science of Security, 121–123.
2016 journal article
The projack: a resampling approach to correct for ranking bias in high-throughput studies
Biostatistics (Oxford, England), 17(1), 54–64.
2015 journal article
Consistent testing for recurrent genomic aberrations
BIOMETRIKA, 102(4), 783–796.
2015 journal article
Erratum: Gene expression in major depressive disorder
Molecular Psychiatry, 21(3), 444–444.
2015 journal article
Erratum: Prediction of human population responses to toxic compounds by a collaborative competition
Nature Biotechnology, 33(10), 1109–1109.
2015 journal article
Gene Expression in Transformed Lymphocytes Reveals Variation in Endomembrane and HLA Pathways Modifying Cystic Fibrosis Pulmonary Phenotypes
The American Journal of Human Genetics, 96(2), 318–328.
2015 journal article
Gene expression in major depressive disorder
Molecular Psychiatry, 21(3), 339–347.
2015 journal article
Genome-wide association meta-analysis identifies five modifier loci of lung disease severity in cystic fibrosis
Nature Communications, 6(1).
2015 journal article
Genome-wide association meta-analysis identifies five modifier loci of lung disease severity in cystic fibrosis
Nature Communications, 6.
2015 journal article
Hypothesis testing at the extremes: fast and robust association for high-throughput data
BIOSTATISTICS, 16(3), 611–625.
2015 journal article
Identification of Novel Gene Targets and Putative Regulators of Arsenic-Associated DNA Methylation in Human Urothelial Cells and Bladder Cancer
Chemical Research in Toxicology, 28(6), 1144–1155.
2015 journal article
Identification of novel gene targets and putative regulators of arsenic-associated DNA methylation in human urothelial cells and bladder cancer
Chemical Research in Toxicology, 28(6), 1144–1155.
2015 journal article
In vitro screening for population variability in toxicity of pesticide-containing mixtures
ENVIRONMENT INTERNATIONAL, 85, 147–155.
Contributors: N. Abdo *, B. Wetmore *, G. Chappell *, D. Shea n , n & I. Rusyn *
2015 journal article
Population-Based in Vitro Hazard and Concentration-Response Assessment of Chemicals: The 1000 Genomes High-Throughput Screening Study
ENVIRONMENTAL HEALTH PERSPECTIVES, 123(5), 458–466.
2015 journal article
Prediction of human population responses to toxic compounds by a collaborative competition
Nature Biotechnology, 33(9), 933–940.
2015 journal article
Prediction of human population responses to toxic compounds by a collaborative competition
Nature Biotechnology, 33(9), 933–172.
2015 journal article
Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases
Scientific Reports, 5(1), 15145.
2015 journal article
The human transcriptome across tissues and individuals
Science, 348(6235), 660–665.
2014 journal article
Convergence of sample eigenvalues, eigenvectors, and principal component scores for ultra-high dimensional data
BIOMETRIKA, 101(2), 484–490.
2014 journal article
Heritability and genomics of gene expression in peripheral blood
Nature Genetics, 46(5), 430–437.
2014 journal article
Heritability and genomics of gene expression in peripheral blood
Nature Genetics, 46(5), 430–437.
2014 journal article
Physiologically Based Pharmacokinetic (PBPK) Modeling of Interstrain Variability in Trichloroethylene Metabolism in the Mouse
ENVIRONMENTAL HEALTH PERSPECTIVES, 122(5), 456–463.
2014 journal article
Whole-Exome Sequencing Identifies Rare and Low-Frequency Coding Variants Associated with LDL Cholesterol
The American Journal of Human Genetics, 94(2), 233–245.
2013 journal article
Assessment of beating parameters in human induced pluripotent stem cells enables quantitative in vitro screening for cardiotoxicity
Toxicology and Applied Pharmacology, 273(3), 500–507.
2013 journal article
Space-time clustering and the permutation moments of quadratic forms
Stat, 2(1), 292–302.
2013 journal article
The Genotype-Tissue Expression (GTEx) project
Nature Genetics, 45(6), 580–585.
2013 journal article
The Value of Statistical or Bioinformatics Annotation for Rare Variant Association With Quantitative Trait
Genetic Epidemiology, 37(7), 666–674.
2013 journal article
Unified Analysis of Secondary Traits in Case–Control Association Studies
Journal of the American Statistical Association, 108(502), 566–576.
2012 journal article
Exome sequencing of extreme phenotypes identifies DCTN4 as a modifier of chronic Pseudomonas aeruginosa infection in cystic fibrosis
Nature Genetics, 44(8), 886–889.
2012 journal article
Multiple apical plasma membrane constituents are associated with susceptibility to meconium ileus in individuals with cystic fibrosis
Nature Genetics, 44(5), 562–569.
2011 journal article
A novel lung disease phenotype adjusted for mortality attrition for cystic fibrosis Genetic modifier studies
Pediatric Pulmonology, 46(9), 857–869.
2011 journal article
Genome-wide association and linkage identify modifier loci of lung disease severity in cystic fibrosis at 11p13 and 20q13.2
Nature Genetics, 43(6), 539–546.
2011 journal article
MicroRNA expression in the livers of inbred mice
Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, 714(1-2), 126–133.