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Tox21 Selected Publications

List of Tox21 selected publications
Year Publication

Qu W, Crizer DM, DeVito MJ, Waidyanatha S, Xia M, Houck K, Ferguson SS. Exploration of xenobiotic metabolism within cell lines used for Tox21 chemical screening. Toxicol In Vitro. 2021 Jun;73:105109. doi: 10.1016/j.tiv.2021.105109.

2021 Li S, Zhao J, Huang R, Travers J, Klumpp-Thomas C, Yu W, MacKerell AD Jr, Sakamuru S, Ooka M, Xue F, Sipes NS, Hsieh JH, Ryan K, Simeonov A, Santillo MF, Xia M. Profiling the Tox21 chemical collection for acetylcholinesterase inhibition. Environ Health Perspect. 2021 Apr;129(4):47008. doi: 10.1289/EHP6993.
2021 Richard AM, Huang R, Waidyanatha S, Shinn P, Collins BJ, Thillainadarajah I, Grulke CM, Williams AJ, Lougee RR, Judson RS, Houck KA, Shobair M, Yang C, Rathman JF, Yasgar A, Fitzpatrick SC, Simeonov A, Thomas RS, Crofton KM, Paules RS, Bucher JR, Austin CP, Kavlock RJ, Tice RR. The Tox21 10k compound library: collaborative chemistry advancing toxicology. Chem Res Toxicol. 2021 Feb 15;34(2):189-216. doi: 10.1021/acs.chemrestox.0c00264.
2018 Bell SM, Chang X, Wambaugh JF, Allen DG, Bartels M, Brouwer KLR, et al. In vitro to in vivo extrapolation for high-throughput prioritization and decision making. Toxicol In Vitro. 2018;47:213-227. doi: 10.1016/j.tiv.2017.11.016.
2018 Delp J, Gutbier S, Klima S, Hoelting L, Pinto-Gil K, Hsieh JH, et al. A high-throughput approach to identify specific neurotoxicants/ developmental toxicants in human neuronal cell function assays. ALTEX. 2018 Apr 20;35(2):235-253. doi: 10.14573/altex.1712182.
2018 Hur J, Danes L, Hsieh JH, McGregor B, Krout D, Auerbach S. Tox21 Enricher: Web-based chemical/biological functional annotation analysis tool based on Tox21 toxicity screening platform. Mol Inform. 2018 May;37(5):1700129. doi: 10.1002/minf.201700129.
2018 Kleinstreuer NC, Hoffmann S, Alépée N, Allen D, Ashikaga T, Casey W, et al. Non-animal methods to predict skin sensitization (II): an assessment of defined approaches. Crit Rev Toxicol. 2018 Feb 23;48(5):359-374. doi: 10.1080/10408444.2018.1429386.
2018 Mav D, Shah RR, Howard BE, Auerbach SS, Bushel PR, Collins JB, et al. A hybrid gene selection approach to create the S1500+ targeted gene sets for use in high-throughput transcriptomics. PLoS One. 2018 Feb 20;13(2):e0191105. doi: 10.1371/journal.pone.0191105.
2018 Sykora P, Witt KL, Revanna P, Smith-Roe SL, Dismukes J, Lloyd DG, et al. Next generation high-throughput DNA damage detection platform for genotoxic compound screening. Sci Rep. 2018 Feb 19;8(1):2771. doi: 10.1038/s41598-018-20995-w.
2017 Braga RC, Alves VM, Muratov EN, Strickland J, Kleinstreuer N, Tropsha A, et al. Pred-Skin: a fast and reliable web application to assess skin sensitization effect of chemicals. J Chem Inf Model. 2017 May 1;57(5):1013-1017. doi: 10.1021/acs.jcim.7b00194.
2017 Grego S, Dougherty ER, Alexander FJ, Auerbach SS, Berridge BR, Bittner ML, et al. Systems biology for organotypic cell cultures. ALTEX. 2017 May 1;34(2):301-310. doi: 10.14573/altex.1608221.
2017 Harrill AH, McAllister KA. New rodent population models may inform human health risk assessment and identification of genetic susceptibility to environmental exposures. Environ Health Perspect. 2017 Aug;125(8):086002. doi: 10.1289/EHP1274.
2017 Houck KA, Judson RS, Knudsen TB, Martin MT, Richard AM, Crofton KM, et al. Comment on "On the utility of ToxCast™ and ToxPi as methods for identifying new obesogens" [Editorial/Letter]. Environ Health Perspect. 2017;125(1):A8-A11. doi: 10.1289/EHP881.
2017 Hsieh JH, Huang R, Lin JA, Sedykh A, Zhao J, Tice RR, et al. Real-time cell toxicity profiling of Tox21 10K compounds reveals cytotoxicity dependent toxicitypathway linkage. PLoS One. 2017 May 22;12(5):e0177902. doi: 10.1371/journal.pone.0177902.
2017 Lynch C, Sakamuru S, Huang R, Stavreva DA, Varticovski L, Hager GL, et al. Identifying environmental chemicals as agonists of the androgen receptor by using a quantitative high-throughput screening platform. Toxicology. 2017 Jun 15;385:48-58. doi: 10.1016/j.tox.2017.05.001.
2017 Ramaiahgari SC, Waidyanatha S, Dixon D, DeVito MJ, Paules RS, Ferguson SS. From the cover: three-dimensional (3D) HepaRG spheroid model with physiologically relevant xenobiotic metabolism competence and hepatocyte functionality for liver toxicity screening. Toxicol Sci. 2017 Sep 1;159(1):124-136. doi: 10.1093/toxsci/kfx122.
2017 Sand S, Parham F, Portier CJ, Tice RR, Krewski D. Comparison of points of departure for health risk assessment based on high-throughput screening data. Environ Health Perspect. 2017;125(4):623-633. doi: 10.1289/EHP408.
2017 Sipes NS, Wambaugh JF, Pearce R, Auerbach SS, Wetmore BA, Hsieh JH, et al. An intuitive approach for predicting potential human health risk with the Tox21 10k library. Environ Sci Technol. 2017;51(18):10786-10796. doi: 10.1021/acs.est.7b00650.
2017 Sirenko O, Grimm FA, Ryan KR, Iwata Y, Chiu WA, Parham F, et al. In vitro cardiotoxicity assessment of environmental chemicals using an organotypic human induced pluripotent stem cell-derived model. Toxicol Appl Pharmacol. 2017 May 1;322:60-74. doi: 10.1016/j.taap.2017.02.020.
2017 Teng CT, Hsieh JH, Zhao J, Huang R, Xia M, Martin N, et al. Development of novel cell lines for high-throughput screening to detect estrogen-related receptor alpha modulators. SLAS Discov. 2017;22(6):720-731. doi: 10.1177/2472555216689772.
2017 Witt KL, Hsieh JH, Smith-Roe SL, Xia M, Huang R, Zhao J, et al. Assessment of the DNA damaging potential of environmental chemicals using a quantitative high-throughput screening approach to measure p53 activation. Environ Mol Mutagen. 2017 Jul 17;58(7):494-507. doi: 10.1002/em.22112.
2017 Wu L, Liu Z, Auerbach S, Huang R, Chen M, McEuen K, et al. Integrating drug's mode of action into quantitative structure-activity relationships for improved prediction of drug-induced liver injury. J Chem Inf Model. 2017;57(4):1000-1006. doi: 10.1021/acs.jcim.6b00719.
2016 Adler M, Ramm S, Hafner M, Muhlich JL, Gottwald EM, Weber E, et al. A quantitative approach to screen for nephrotoxic compounds in vitro. J Am Soc Nephrol. 2016;27:1015-1028. doi: 10.1681/ASN.2015010060.
2016 Auerbach S, Filer D, Reif D, Walker V, Holloway AC, Schlezinger J, et al. Prioritizing environmental chemicals for obesity and diabetes outcomes research: a screening approach using ToxCast™ high-throughput data. Environ Health Perspect. 2016;124:1141–1154. doi: 10.1289/ehp.1510456.
2016 Ball N, Cronin MT, Shen J, Blackburn K, Booth ED, Bouhifd M, et al. Toward good read-across practice (grap) guidance. ALTEX. 2016;33(2):149-166. doi: 10.14573/altex.1601251.
2016 Birnbaum LS, Burke TA, Jones JJ. Informing 21st-century risk assessments with 21st-century science. Environ Health Perspect. 2016;124:A60-A63. doi: 10.1289/ehp.1511135.
2016 Ceger P, Allen D, Huang R, Xia M, Casey W. Corrigendum to performance of the BG1Luc ER TA method in a qHTS format. ALTEX. 2016;33:79. doi: 10.14573/altex.1512041.
2016 Cote I, Andersen ME, Ankley GT, Barone S, Birnbaum LS, Boekelheide K, et al. The next generation of risk assessment multiyear study- highlights of findings, applications to risk assessment and future directions. Environ Health Perspect. 2016 Nov;124(11):1671–1682. doi: 10.1289/EHP233.
2016 Hsu CW, Heish JH, Huang R, Pijnenburg D, Khuc T, Hamm J, et al. Differential modulation of FXR activity by chlorophacinone and invermectin analogs. Toxicol Appl Pharmacol. 2016 Dec 15;313(15):138-148. doi: 10.1016/j.taap.2016.10.017.
2016 Judson R, Houck K, Martin M, Richard AM, Knudsen TB, Shah I, et al. Analysis of the effects of cell stress and cytotoxicity on in vitro assay activity across a diverse chemical and assay space. Toxicol Sci. 2016 Aug 1;152(2):323–339. doi: 10.1093/toxsci/kfw092.
2016 Karmaus AL, Toole CM, Filer DL, Lewis KC, Martin MT. High-throughput screening of chemical effects on steroidogenesis using H295R human adrenocortical carcinoma cells. Toxicol Sci. 2016 Apr;150(2):323-332. doi: 10.1093/toxsci/kfw002.
2016 Karmaus AL, Filer DL, Martin MT, Houck KA. Evaluation of food-relevant chemicals in the toxcast high-throughput screening program. Food Chem Toxicol. 2016 Jun;92:188-196. doi: 10.1016/j.fct.2016.04.012.
2017 Kleinstreuer NC, Ceger P, Watt ED, Martin M, Houck K, Browne P, et al. Development and validation of a computational model for androgen receptor activity. Chem Res Toxicol. 2017;30(4):946-964. doi: 10.1021/acs.chemrestox.6b00347.
2016 Nishihara K, Huang R, Zhao J, Shahane SA, Witt KL, Smith-Roe SL, et al. Identification of genotoxic compounds using isogenic DNA repair deficient dt40 cell lines on a quantitative high-throughput screening platform. Mutagenesis. 2016 Jan;31(1):69-81. doi: 10.1093/mutage/gev055.
2016 Pei Y, Peng J, Behl M, Sipes NS, Shockley KR, Rao MS, et al. Comparative neurotoxicity screening in human ipsc-derived neural stem cells, neurons and astrocytes. Brain Res. 2016 May 1;1638(Pt A):57-73. doi: 10.1016/j.brainres.2015.07.048.
2016 Ryan KR, Sirenko O, Parham F, Hsieh JH, Cromwell EF, Tice RR, et al. Neurite outgrowth in human induced pluripotent stem cell-derived neurons as a high-throughput screen for developmental neurotoxicity or neurotoxicity. Neurotoxicology. 2016 Mar;53:271-281. doi: 10.1016/j.neuro.2016.02.003.
2015 Hsieh JH, Sedykh A, Huang R, Xia M, Tice RR. A data analysis pipeline accounting for artifacts in Tox21 quantitative high-throughput screening assays. J Biomol Screen. 2015;20(7):887-897. doi: 10.1177/1087057115581317.
2015 Chen S, Hsieh JS, Huang R, Sakamuru S, Hsin LY, Xia M, et al. 2015. Cell-based high-throughput screening for aromatase inhibitors in the Tox21 10K library. Toxicol Sci. 2015 Oct;147(2):446-457. doi: 10.1093/toxsci/kfv141.
2015 Behl M, Hsieh JH, Shafer TJ, Mundy WR, Rice JR, Boyd WA, et al. Use of alternative assays to identify and prioritize organophosphorus flame retardants for potential developmental and neurotoxicity. Neurotoxicol Teratol. 2015;52(Pt B):181-193. doi: 10.1016/
2015 Attene-Ramos MS, Huang R, Michael S, Witt KL, Richard A, Tice RR, et al. Profiling of the Tox21 chemical collection for mitochondrial function to identify compounds that acutely decrease mitochondrial membrane potential. Environ Health Perspect. 2015;123(1):49-56. doi: 10.1289/ehp.1408642.
2014 Huang R, Sakamuru S, Martin MT, Reif DM, Judson RS, Houck KA, et al. Profiling of the Tox21 10K compound library for agonists and antagonists of the estrogen receptor alpha signaling pathway. Sci Rep. 2014;4:5664. doi: 10.1038/srep05664.
2013 Tice RR, Austin CP, Kavlock RJ, Bucher JR. Improving the human hazard characterization of chemicals: a Tox21 update. Environ Health Perspect. 2013 Jul;121(7):756-765. doi: 10.1289/ehp.1205784.
2013 Attene-Ramos MS, Miller N, Huang R, Michael S, Itkin M, Kavlock RJ, et al. The Tox21 robotic platform for the assessment of environmental chemicals—from vision to reality. Drug Discov Today. 2013 Aug;18(15-16):716-723. doi: 10.1016/j.drudis.2013.05.015.
2011 Huang R, Xia M, Cho MH, Sakamuru S, Shinn P, Houck KA, et al. Chemical genomics profiling of environmental chemical modulation of human nuclear receptors. Environ Health Perspect. 2011;119(8):1142-1148. doi: 10.1289/ehp.1002952.
2009 Xia M, Huang R, Sun Y, Semenza GL, Aldred SF, Witt KL, et al. Identification of chemical compounds that induce HIF-1alpha activity. Toxicol Sci. 2009;112(1):153-163. doi: 10.1093/toxsci/kfp123.
2009 Parham F, Austin C, Southall N, Huang R, Tice R, Portier C. Dose-response modeling of high-throughput screening data. J Biomol Screen. 2009;14(10):1216-1227. doi: 10.1177/1087057109349355.
2009 Kavlock RJ, Austin CP, Tice RR. Toxicity testing in the 21st century: implications for human health risk assessment. Risk Anal. 2009 Apr;29(4):485-487; discussion 492-487. doi: 10.1111/j.1539-6924.2008.01168.x.
2009 Huang R, Southall N, Xia M, Cho MH, Jadhav A, Nguyen DT, et al. Weighted feature significance: a simple, interpretable model of compound toxicity based on the statistical enrichment of structural features. Toxicol Sci. 2009 Dec;112(2):385-393. doi: 10.1093/toxsci/kfp231.
2008 Xia M, Huang R, Witt KL, Southall N, Fostel J, Cho MH, et al. Compound cytotoxicity profiling using quantitative high-throughput screening. Environ Health Perspect. 2008 Mar;116(3):284-291. doi: 10.1289/ehp.10727.
2008 Huang R, Southall N, Cho MH, Xia M, Inglese J, Austin CP. Characterization of diversity in toxicity mechanism using in vitro cytotoxicity assays in quantitative high-throughput screening. Chem Res Toxicol. 2008;21(3):659-667. doi: 10.1021/tx700365e.
2008 Collins FS, Gray GM, Bucher JR. Transforming environmental health protection. Science. 2008 Feb 15;319(5865):906-907. doi: 10.1126/science.1154619.