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Introducing WikiPathways as a Data-Source to Support Adverse Outcome Pathways for Regulatory Risk Assessment of Chemicals and Nanomaterials

Front. Genet., 21 December 2018, doi: 10.3389/fgene.2018.00661

VIVD: Virtual in vitro distribution model for the mechanistic prediction of intracellular concentrations of chemicals in in vitro toxicity assays

Toxicology in Vitro, December 2018,DOI:10.1016/j.tiv.2018.12.017

Persistence of Epigenomic Effects After Recovery From Repeated Treatment With Two Nephrocarcinogens.

Front Genet. 2018 Dec 3;9:558. doi: 10.3389/fgene.2018.00558. eCollection 2018.

A new semi-automated workflow for chemical data retrieval and quality checking for modeling applications

Journal of Cheminformatics 201810:60, doi.org/10.1186/s13321-018-0315-6

Major changes of cell function and toxicant sensitivity in cultured cells undergoing mild, quasi-natural genetic drift

Arch Toxicol. 2018 Oct 8, DOI: 10.1007/s00204-018-2326-5

Development of an Infrastructure for the Prediction of Biological Endpoints in Industrial Environments. Lessons Learned at the eTOX Project

Front. Pharmacol., 11 October 2018, DOI: 10.3389/fphar.2018.01147

Relevance of the incubation period in cytotoxicity testing with primary human hepatocytes

Arch Toxicol. 2018 Oct 13, DOI: 10.1007/s00204-018-2302-0

QSAR Modeling of ToxCast Assays Relevant to the Molecular Initiating Events of AOPs Leading to Hepatic Steatosis

J. Chem. Inf. Model. 58, 8, 1501-1517; DOI: 10.1021/acs.jcim.8b00297

Limonciel, A., Ates, G., Carta, G. et al. Arch Toxicol (2018). https://doi.org/10.1007/s00204-018-2256-2

Generation of Hepatic Stellate Cells from Human Pluripotent Stem Cells Enables In Vitro Modeling of Liver Fibrosis

Cell Stem Cell (2018), https://doi.org/10.1016/j.stem.2018.05.027

Comparing the performance of meta-classifiers-a case study on selected imbalanced data sets relevant for prediction of liver toxicity.

J Comput Aided Mol Des. 2018 May;32(5):583-590. doi: 10.1007/s10822-018-0116-z. Epub 2018 Apr 6. PMID: 29626291 [PubMed - in process] Free PMC Article

Insights into the Structure, Function, and Ligand Discovery of the Large Neutral Amino Acid Transporter 1, LAT1.

Int J Mol Sci. 2018 Apr 24;19(5). pii: E1278. doi: 10.3390/ijms19051278. Review. PMID: 29695141 [PubMed - in process] Free PMC Article

Predicting drug resistance related to ABC transporters using unsupervised Consensus Self-Organizing Maps.

Sci Rep. 2018 May 1;8(1):6803. doi: 10.1038/s41598-018-25235-9. PMID: 29717183 [PubMed - in process] Free Article

Human Environmental Disease Network: A computational model to assess toxicology of contaminants.

ALTEX. 2017;34(2):289-300. doi: 10.14573/altex.1607201. Epub 2016 Oct 21. PMID: 27768803 [PubMed - indexed for MEDLINE]

A systems biology approach to predictive developmental neurotoxicity of a larvicide used in the prevention of Zika virus transmission.

Toxicol Appl Pharmacol. 2018 Feb 21. pii: S0041-008X(18)30060-7. doi: 10.1016/j.taap.2018.02.014. [Epub ahead of print] PMID: 29476864 [PubMed - as supplied by publisher]

DTNI: a novel toxicogenomics data analysis tool for identifying the molecular mechanisms underlying the adverse effects of toxic compounds.

Arch Toxicol. 2017 Jun;91(6):2343-2352. doi: 10.1007/s00204-016-1922-5. Epub 2016 Dec 28. PMID: 28032149 [PubMed - indexed for MEDLINE] Free PMC Article

Validation of gene expression profiles from cholestatic hepatotoxicants in vitro against human in vivo cholestasis.

Toxicol In Vitro. 2017 Oct;44:322-329. doi: 10.1016/j.tiv.2017.07.024. Epub 2017 Aug 1. PMID: 28778767 [PubMed - indexed for MEDLINE] Free Article

A model-based assay design to reproduce in vivo patterns of acute drug-induced toxicity.

Arch Toxicol. 2018 Jan;92(1):553-555. doi: 10.1007/s00204-017-2041-7. Epub 2017 Aug 29. No abstract available. PMID: 28852801 [PubMed - in process] Free PMC Article

Integrated 'omics analysis reveals new drug-induced mitochondrial perturbations in human hepatocytes.

Toxicol Lett. 2018 Jun 1;289:1-13. doi: 10.1016/j.toxlet.2018.02.026. Epub 2018 Mar 6. PMID: 29501571 [PubMed - indexed for MEDLINE]

SOX10 Single Transcription Factor-Based Fast and Efficient Generation of Oligodendrocytes from Human Pluripotent Stem Cells.

Stem Cell Reports. 2018 Feb 13;10(2):655-672. doi: 10.1016/j.stemcr.2017.12.014. Epub 2018 Jan 11. PMID: 29337119 [PubMed - in process] Free PMC Article

Efficient Recombinase-Mediated Cassette Exchange in hPSCs to Study the Hepatocyte Lineage Reveals AAVS1 Locus-Mediated Transgene Inhibition.

Ordovás L, Boon R, Pistoni M, Chen Y, Wolfs E, Guo W, Sambathkumar R, Bobis-Wozowicz S, Helsen N, Vanhove J, Berckmans P, Cai Q, Vanuytsel K, Eggermont K, Vanslembrouck V, Schmidt BZ, Raitano S, Van Den Bosch L, Nahmias Y, Cathomen T, Struys T, Verfaillie

Strategies for In Vivo Genome Editing in Nondividing Cells.

Trends Biotechnol. 2018 Apr 21. pii: S0167-7799(18)30088-X. doi: 10.1016/j.tibtech.2018.03.004. [Epub ahead of print] Review. PMID: 29685818 [PubMed - as supplied by publisher]

Generation of hepatocyte- and endocrine pancreatic-like cells from human induced endodermal progenitor cells.

PLoS One. 2018 May 11;13(5):e0197046. doi: 10.1371/journal.pone.0197046. eCollection 2018. PMID: 29750821 [PubMed - in process] Free PMC Article

Prediction of liver toxicity and mode of action using metabolomics in vitro in HepG2 cells.

Arch Toxicol. 2018 Feb;92(2):893-906. doi: 10.1007/s00204-017-2079-6. Epub 2017 Sep 30. PMID: 28965233 [PubMed - in process] Free PMC Article

Framework for the quality assurance of 'omics technologies considering GLP requirements.

Regul Toxicol Pharmacol. 2017 Dec;91 Suppl 1:S27-S35. doi: 10.1016/j.yrtph.2017.10.007. Epub 2017 Oct 5. PMID: 28987912 [PubMed - in process] Free Article

Legacy data sharing to improve drug safety assessment: the eTOX project.

Nat Rev Drug Discov. 2017 Dec;16(12):811-812. doi: 10.1038/nrd.2017.177. Epub 2017 Oct 13. PMID: 29026211 [PubMed - indexed for MEDLINE]

New microRNA Biomarkers for Drug-Induced Steatosis and Their Potential to Predict the Contribution of Drugs to Non-alcoholic Fatty Liver Disease.

López-Riera M, Conde I, Tolosa L, Zaragoza Á, Castell JV, Gómez-Lechón MJ, Jover R. Front Pharmacol. 2017 Jan 25;8:3. doi: 10.3389/fphar.2017.00003. eCollection 2017. PMID: 28179883 [PubMed] Free PMC Article

Customised in vitro model to detect human metabolism-dependent idiosyncratic drug-induced liver injury.

Arch Toxicol. 2018 Jan;92(1):383-399. doi: 10.1007/s00204-017-2036-4. Epub 2017 Jul 31. PMID: 28762043

Predicting drug-induced cholestasis: preclinical models.

Expert Opin Drug Metab Toxicol. 2018 Jun 11. doi: 10.1080/17425255.2018.1487399. [Epub ahead of print] PMID: 29888962 [PubMed - as supplied by publisher]

The application of new HARD-descriptor available from the CORAL software to building up NOAEL models.

Food Chem Toxicol. 2018 Feb;112:544-550. doi: 10.1016/j.fct.2017.03.060. Epub 2017 Mar 30. PMID: 28366846

Exposure to PFOA and PFOS and fetal growth: a critical merging of toxicological and epidemiological data.

Negri E, Metruccio F, Guercio V, Tosti L, Benfenati E, Bonzi R, La Vecchia C, Moretto A. Crit Rev Toxicol. 2017 Jul;47(6):482-508. doi: 10.1080/10408444.2016.1271972. Epub 2017 Feb 15. Review. PMID: 28617200 [PubMed - indexed for MEDLINE]

SAR for gastro-intestinal absorption and blood-brain barrier permeation of pesticides.

Chem Biol Interact. 2018 Jun 25;290:1-5. doi: 10.1016/j.cbi.2018.04.030. Epub 2018 May 16. PMID: 29753609

QSARpy: A new flexible algorithm to generate QSAR models based on dissimilarities. The log Kow case study.

Sci Total Environ. 2018 Oct 1;637-638:1158-1165. doi: 10.1016/j.scitotenv.2018.05.072. Epub 2018 May 14. PMID: 29801209

Adverse outcome pathways: a concise introduction for toxicologists.

Arch Toxicol. 2017 Nov;91(11):3697-3707. doi: 10.1007/s00204-017-2020-z. Epub 2017 Jun 28. PMID: 28660287

A frequent misinterpretation in current research on liver fibrosis: the vessel in the center of CCl<sub>4</sub>-induced pseudolobules is a portal vein.

Arch Toxicol. 2017 Nov;91(11):3689-3692. doi: 10.1007/s00204-017-2040-8. Epub 2017 Aug 19. PMID: 28825120

Comprehensive Landscape of Nrf2 and p53 Pathway Activation Dynamics by Oxidative Stress and DNA Damage.

Chem Res Toxicol. 2017 Apr 17;30(4):923-933. doi: 10.1021/acs.chemrestox.6b00322. Epub 2016 Dec 16. PMID: 27982581 [PubMed - indexed for MEDLINE]

Highlight report: 'Big data in the 3R's: outlook and recommendations', a roundtable summary.

Arch Toxicol. 2018 Feb;92(2):1015-1020. doi: 10.1007/s00204-017-2145-0. Epub 2018 Jan 16. No abstract available. PMID: 29340744

Dynamic imaging of adaptive stress response pathway activation for prediction of drug induced liver injury.

Arch Toxicol. 2018 May;92(5):1797-1814. doi: 10.1007/s00204-018-2178-z. Epub 2018 Mar 3. PMID: 29502165

Ab initio chemical safety assessment: A workflow based on exposure considerations and non-animal methods.

Comput Toxicol. 2017 Nov;4:31-44. doi: 10.1016/j.comtox.2017.10.001. PMID: 29214231 [PubMed] Free PMC Article

Towards optimisation of induced pluripotent cell culture: Extracellular acidification results in growth arrest of iPSC prior to nutrient exhaustion.

Toxicol In Vitro. 2017 Dec;45(Pt 3):445-454. doi: 10.1016/j.tiv.2017.07.023. Epub 2017 Aug 15. PMID: 28821352 [PubMed - in process]

A snapshot on the progress of in vitro toxicology for safety assessment.

Toxicol In Vitro. 2017 Dec;45(Pt 3):269-271. doi: 10.1016/j.tiv.2017.10.024. No abstract available. PMID: 29195642 [PubMed - in process]

Toxicol. Res., 2018, DOI: 10.1039/C8TX00051D

Received: March 23, 2018; doi:10.14573/altex.1803231; ALTEX 35(2), 2018

January 21, 2018; doi:10.14573/altex.1712182; ALTEX 35(2), 2018

April 5, 2018; doi:10.14573/altex.180

Recommendation on test readiness criteria for new approach methods in toxicology: Exemplified for developmental neurotoxicity

ALTEX. 2018 Feb 23. doi: 10.14573/altex.1712081. [Epub ahead of print]

Consensus statement on the need for innovation, transition and implementation of developmental neurotoxicity (DNT) testing for regulatory purposes

Toxicol Appl Pharmacol. 2018 Feb 12. pii: S0041-008X(18)30043-7. doi: 10.1016/j.taap.2018.02.004. [Epub ahead of print]

A high-throughput approach to identify specific neurotoxicants/ developmental toxicants in human neuronal cell function assays

ALTEX. 2018 Jan 21. doi: 10.14573/altex.1712182. [Epub ahead of print]

Stage-specific metabolic features of differentiating neurons: Implications for toxicant sensitivity

Toxicol Appl Pharmacol. 2017 Dec 24. pii: S0041-008X(17)30494-5. doi: 10.1016/j.taap.2017.12.013. [Epub ahead of print]

An adverse outcome pathway for parkinsonian motor deficits associated with mitochondrial complex I inhibition

Arch Toxicol. 2018 Jan;92(1):41-82. doi: 10.1007/s00204-017-2133-4. Epub 2017 Dec 5. Review.

A structure-activity relationship linking non-planar PCBs to functional deficits of neural crest cells: new roles for connexins

Arch Toxicol. 2017 Nov 21. doi: 10.1007/s00204-017-2125-4. [Epub ahead of print]

New animal-free concepts and test methods for developmental toxicity and peripheral neurotoxicity

Altern Lab Anim. 2017 Nov;45(5):253-260.

Adverse outcome pathways: opportunities, limitations and open questions

Arch Toxicol. 2017 Nov;91(11):3477-3505. doi: 10.1007/s00204-017-2045-3. Epub 2017 Oct 19.

Combination of multiple neural crest migration assays to identify environmental toxicants from a proof-of-concept chemical library

Arch Toxicol. 2017 Nov;91(11):3613-3632. doi: 10.1007/s00204-017-1977-y. Epub 2017 May 5.

Tipping Points and Endogenous Determinants of Nigrostriatal Degeneration by MPTP

Trends Pharmacol Sci. 2017 Jun;38(6):541-555. doi: 10.1016/j.tips.2017.03.010. Epub 2017 Apr 23. Review.

OECD/EFSA workshop on developmental neurotoxicity (DNT): The use of non-animal test methods for regulatory purposes

ALTEX. 2017;34(2):311-315. doi: 10.14573/altex.1701171. No abstract available.

Impairment of human neural crest cell migration by prolonged exposure to interferon-beta

Arch Toxicol. 2017 Oct;91(10):3385-3402. doi: 10.1007/s00204-017-1966-1. Epub 2017 Apr 1.

Stem Cell Transcriptome Responses and Corresponding Biomarkers That Indicate the Transition from Adaptive Responses to Cytotoxicity

Chem Res Toxicol. 2017 Apr 17;30(4):905-922. doi: 10.1021/acs.chemrestox.6b00259. Epub 2016 Dec 21.

Hybrid optimal descriptors as a tool to predict skin sensitization in accordance to OECD principles

Toxicology Letters 275 (2017) 57–66

The index of ideality of correlation: A criterion of predictability of QSAR models for skin permeability?

Science of the Total Environment 586 (2017) 466–472

The application of new HARD-descriptor available from the CORAL software to building up NOAEL models

Food and Chemical Toxicology xxx (2017) 1-7

The index of ideality of correlation: A criterion of predictive potential of QSPR/QSAR models?

Mutat Res Gen Tox En 819 (2017) 31–37

CORAL: Binary classifications (active/inactive) for drug-induced liver injury

Toxicology Letters 268 (2017) 51–57

Human environmental disease network: A computational model to assess toxicology of contaminants

Altex, published October 21, 2016

In Silico Systems Pharmacology to Assess Drug's Therapeutic and Toxic Effects

Current Pharmaceutical Design, Volume 22, Number 46, December 2016, pp. 6895-6902(8) - DOI: 10.2174/1381612822666160907093215

​The ascending pathophysiology of cholestatic liver disease

Hepatology. 2017 Feb;65(2):722-738

In vitro acute and developmental neurotoxicity screening: an overview of cellular platforms and high-throughput technical possibilities

January 2017 - Arch Toxicol - DOI: 10.1007/s00204-016-1805-9

Improved building up a model of toxicity towards Pimephales promelas by the Monte Carlo method

November 2016 - Environmental Toxicology and Pharmacology 48 (2016) 278–285

A Multi-Compartment Liver Model for the Prediction of Toxicokinetics

September 2016 - Toxicology Letters 258S (2016) S62–S324

Unraveling cellular pathways contributing to drug-induced liver injury by dynamical modeling

Expert Opin Drug Metab Toxicol. 2016 Sep 23:1-13 - DOI:10.1080/17425255.2017.1234607

September 2016 - Front. Cell. Neurosci. 10:215. doi:10.3389/fncel.2016.00215

Good Cell Culture Practice for Stem Cells and Stem-Cell-Derived Models

August 2016 - ALTEX 34(1), 2017 - 10.14573/altex.1607121

Reference compounds for alternative test methods to indicate developmental neurotoxicity (DNT) potential of chemicals: example lists and criteria for their selection and use

July 2016 - DOI: 10.14573/altex.1604201

May 2016 - Arch Toxicol - DOI 10.1007/s00204-016-1741-8

March 2016 - Arch Toxicol - DOI 10.1007/s00204-016-1698-7

ALTEX 33(2), 2016