Mapping the human toxome by systems toxicology.

Toxicity testing typically involves studying adverse health outcomes in animals subjected to high doses of toxicants with subsequent extrapolation to expected human responses at lower doses. The low-throughput of current toxicity testing approaches (which are largely the same for industrial chemicals, pesticides and drugs) has led to a backlog of more than 80,000 chemicals to which human beings are potentially exposed whose potential toxicity remains largely unknown. Employing new testing strategies that employ the use of predictive, high-throughput cell-based assays (of human origin) to evaluate perturbations in key pathways, referred as pathways of toxicity, and to conduct targeted testing against those pathways, we can begin to greatly accelerate our ability to test the vast 'storehouses' of chemical compounds using a rational, risk-based approach to chemical prioritization and provide test results that are more predictive of human toxicity than current methods. The NIH Transformative Research Grant project Mapping the Human Toxome by Systems Toxicology aims at developing the tools for pathway mapping, annotation and validation as well as the respective knowledge base to share this information.

[1]  Thomas Hartung,et al.  Food for Thought ... on mapping the human toxome. , 2011, ALTEX.

[2]  Melvin E Andersen,et al.  Lessons learned, challenges, and opportunities: the U.S. Endocrine Disruptor Screening Program. , 2014, ALTEX.

[3]  Thomas Hartung,et al.  Lessons Learned from Alternative Methods and their Validation for a New Toxicology in the 21st Century , 2010, Journal of toxicology and environmental health. Part B, Critical reviews.

[4]  T. Hartung Evidence-based toxicology - the toolbox of validation for the 21st century? , 2010, ALTEX.

[5]  S. Imazato,et al.  In vitro Estrogenicity of Resin Composites , 2004, Journal of dental research.

[6]  C. Sonnenschein,et al.  p-Nonyl-phenol: an estrogenic xenobiotic released from "modified" polystyrene. , 1991, Environmental health perspectives.

[7]  T. Knudsen,et al.  A roadmap for the development of alternative (non-animal) methods for systemic toxicity testing. , 2012, ALTEX.

[8]  G. Daston,et al.  Toxicogenomic Approach to Endocrine Disrupters: Identification of a Transcript Profile Characteristic of Chemicals with Estrogenic Activity , 2004, Toxicologic pathology.

[9]  R. Kiyama,et al.  Bisphenol A induces a rapid activation of Erk1/2 through GPR30 in human breast cancer cells. , 2011, Environmental pollution.

[10]  C. K. Kwoh,et al.  Genetic studies of diseases , 2007, Cellular and Molecular Life Sciences.

[11]  H. Fischer Towards quantitative biology: integration of biological information to elucidate disease pathways and to guide drug discovery. , 2005, Biotechnology annual review.

[12]  L. Smirnova,et al.  Metabolomics in toxicology and preclinical research. , 2013, ALTEX.

[13]  Eric E. Schadt,et al.  Moving toward a system genetics view of disease , 2007, Mammalian Genome.

[14]  J. Gustafsson,et al.  Comparison of the ligand binding specificity and transcript tissue distribution of estrogen receptors alpha and beta. , 1997, Endocrinology.

[15]  Thomas Hartung,et al.  A Toxicology for the 21st Century—Mapping the Road Ahead , 2009, Toxicological sciences : an official journal of the Society of Toxicology.

[16]  Anne Marie Vinggaard,et al.  Endocrine-Disrupting Potential of Bisphenol A, Bisphenol A Dimethacrylate, 4-n-Nonylphenol, and 4-n-Octylphenol in Vitro: New Data and a Brief Review , 2007, Environmental health perspectives.

[17]  Uri Alon,et al.  An Introduction to Systems Biology , 2006 .

[18]  D. Lauffenburger,et al.  Physicochemical modelling of cell signalling pathways , 2006, Nature Cell Biology.

[19]  Thomas Hartung,et al.  Food for thought... on evidence-based toxicology. , 2009, ALTEX.

[20]  Mardas Daneshian,et al.  Validation and quality control of replacement alternatives - Current status and future challenges , 2012 .

[21]  Thomas Hartung,et al.  Review: Toxicometabolomics , 2013, Journal of applied toxicology : JAT.

[22]  Atul J. Butte,et al.  Unsupervised knowledge discovery in medical databases using relevance networks , 1999, AMIA.

[23]  T. Hartung Toxicology for the twenty-first century , 2009, Nature.

[24]  Thomas Hartung,et al.  Food for thought ... on alternative methods for cosmetics safety testing. , 2008, ALTEX.

[25]  Thomas Hartung,et al.  Food for thought...on alternative methods for chemical safety testing. , 2010, ALTEX.

[26]  P. Y. Ng,et al.  Genetic studies of diseases , 2007, Cellular and Molecular Life Sciences.

[27]  Thomas Hartung,et al.  Food for thought ... on alternative methods for nanoparticle safety testing. , 2010, ALTEX.

[28]  J. Gustafsson,et al.  Differential response of estrogen receptor alpha and estrogen receptor beta to partial estrogen agonists/antagonists. , 1998, Molecular pharmacology.

[29]  David M. Reif,et al.  Endocrine Profiling and Prioritization of Environmental Chemicals Using ToxCast Data , 2010, Environmental health perspectives.

[30]  P. D’haeseleer,et al.  Mining the gene expression matrix: inferring gene relationships from large scale gene expression data , 1998 .

[31]  V. Yong,et al.  Review: Endocrine disrupting chemicals and immune responses: a focus on bisphenol-A and its potential mechanisms. , 2013, Molecular immunology.

[32]  J. McLachlan,et al.  Estrogens and development. , 1987, Environmental health perspectives.

[33]  Thomas Hartung,et al.  From alternative methods to a new toxicology. , 2011, European journal of pharmaceutics and biopharmaceutics : official journal of Arbeitsgemeinschaft fur Pharmazeutische Verfahrenstechnik e.V.

[34]  J. Sumpter,et al.  Environmentally persistent alkylphenolic compounds are estrogenic. , 1994, Endocrinology.

[35]  Alexandra Maertens,et al.  Integrated testing strategies for safety assessments. , 2013, ALTEX.

[36]  Bor-Sen Chen,et al.  Quantitative inference of dynamic regulatory pathways via microarray data , 2004, BMC Bioinformatics.

[37]  Y. Shimohigashi,et al.  Endocrine disruptor bisphenol A strongly binds to human estrogen-related receptor gamma (ERRgamma) with high constitutive activity. , 2006, Toxicology letters.

[38]  Y. Shimohigashi,et al.  Endocrine disruptor bisphenol A strongly binds to human estrogen-related receptor γ (ERRγ) with high constitutive activity , 2006 .

[39]  Uri Alon,et al.  Simplicity in biology , 2007, Nature.

[40]  Thomas Hartung,et al.  Pathways of Toxicity. , 2014, ALTEX.

[41]  T. Hartung,et al.  A novel in vitro metabolomics approach for neurotoxicity testing, proof of principle for methyl mercury chloride and caffeine. , 2008, Neurotoxicology.

[42]  S Fuhrman,et al.  Reveal, a general reverse engineering algorithm for inference of genetic network architectures. , 1998, Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing.

[43]  U. Alon Network motifs: theory and experimental approaches , 2007, Nature Reviews Genetics.

[44]  Donald G Robertson,et al.  Metabonomics in toxicology: a review. , 2005, Toxicological sciences : an official journal of the Society of Toxicology.

[45]  Bas J Blaauboer,et al.  The use of biomarkers of toxicity for integrating in vitro hazard estimates into risk assessment for humans. , 2012, ALTEX.

[46]  M. Peitsch,et al.  The application of systems biology to drug discovery. , 2006, Current opinion in chemical biology.

[47]  Hsien-Ming Wu,et al.  Estradiol and Tamoxifen Induce Cell Migration through GPR30 and Activation of Focal Adhesion Kinase (FAK) in Endometrial Cancers with Low or without Nuclear Estrogen Receptor α (ERα) , 2013, PloS one.

[48]  Zhiping Weng,et al.  Computational inference of transcriptional regulatory networks from expression profiling and transcription factor binding site identification. , 2004, Nucleic acids research.

[49]  Thomas Hartung,et al.  Food for Thought … Systems Toxicology , 2012 .

[50]  Thomas Hartung,et al.  Inflammatory findings on species extrapolations: humans are definitely no 70-kg mice , 2013, Archives of Toxicology.

[51]  Thomas Hartung,et al.  Food for thought... on the economics of animal testing. , 2009, ALTEX.

[52]  L Earl Gray,et al.  Development and characterization of a cell line that stably expresses an estrogen-responsive luciferase reporter for the detection of estrogen receptor agonist and antagonists. , 2004, Toxicological sciences : an official journal of the Society of Toxicology.

[53]  Bor-Sen Chen,et al.  Integrated cellular network of transcription regulations and protein-protein interactions , 2010, BMC Systems Biology.