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Hepatic transcriptional dose-response analysis of male and female Fischer rats exposed to hexabromocyclododecane.

Farmahin R, Gannon AM, Gagné R, Rowan-Carroll A, Kuo B, Williams A, Curran I, Yauk CL.

Food Chem Toxicol. 2018 Dec 27. pii: S0278-6915(18)30905-0. doi: 10.1016/j.fct.2018.12.032. [Epub ahead of print]


Integrated In Vivo Genotoxicity Assessment of Procarbazine Hydrochloride Demonstrates Induction of Pig-a and LacZ Mutations, and Micronuclei, in MutaMouse Hematopoietic Cells.

Maurice C, Dertinger SD, Yauk CL, Marchetti F.

Environ Mol Mutagen. 2018 Dec 28. doi: 10.1002/em.22271. [Epub ahead of print]


Transgenerational hypocortisolism and behavioral disruption are induced by the antidepressant fluoxetine in male zebrafish Danio rerio.

Vera-Chang MN, St-Jacques AD, Gagné R, Martyniuk CJ, Yauk CL, Moon TW, Trudeau VL.

Proc Natl Acad Sci U S A. 2018 Dec 26;115(52):E12435-E12442. doi: 10.1073/pnas.1811695115. Epub 2018 Dec 10.


Assessment of the Performance of the TGx-DDI Biomarker to Detect DNA Damage-Inducing Agents Using Quantitative RT-PCR in TK6 Cells.

Cho E, Buick JK, Williams A, Chen R, Li HH, Corton JC, Fornace AJ Jr, Aubrecht J, Yauk CL.

Environ Mol Mutagen. 2018 Nov 29. doi: 10.1002/em.22257. [Epub ahead of print]


The use of in vitro transcriptional data to identify thresholds of effects in a human lens epithelial cell-line exposed to ionizing radiation.

Chauhan V, Rowan-Carroll A, Gagné R, Kuo B, Williams A, Yauk CL.

Int J Radiat Biol. 2018 Nov 5:1-14. doi: 10.1080/09553002.2019.1539883. [Epub ahead of print]


In Utero Exposure to Benzo[a]pyrene Induces Ovarian Mutations at Doses That Deplete Ovarian Follicles in Mice.

Luderer U, Meier MJ, Lawson GW, Beal MA, Yauk CL, Marchetti F.

Environ Mol Mutagen. 2018 Oct 24. doi: 10.1002/em.22261. [Epub ahead of print]


Using a gene expression biomarker to identify DNA damage-inducing agents in microarray profiles.

Corton JC, Williams A, Yauk CL.

Environ Mol Mutagen. 2018 Dec;59(9):772-784. doi: 10.1002/em.22243. Epub 2018 Oct 17.


BMDExpress 2: Enhanced transcriptomic dose-response analysis workflow.

Phillips JR, Svoboda DL, Tandon A, Patel S, Sedykh A, Mav D, Kuo B, Yauk CL, Yang L, Thomas RS, Gift JS, Davis JA, Olysyzk L, Merrick BA, Paules RS, Parham F, Saddler T, Shah RR, Auerbach SS.

Bioinformatics. 2018 Oct 17. doi: 10.1093/bioinformatics/bty878. [Epub ahead of print]


Integration of sperm DNA damage assessment into OECD test guidelines for genotoxicity testing using the MutaMouse model.

Maurice C, O'Brien JM, Yauk CL, Marchetti F.

Toxicol Appl Pharmacol. 2018 Oct 15;357:10-18. doi: 10.1016/j.taap.2018.08.021. Epub 2018 Aug 27.


Identifying germ cell mutagens using OECD test guideline 488 (transgenic rodent somatic and germ cell gene mutation assays) and integration with somatic cell testing.

Marchetti F, Aardema MJ, Beevers C, van Benthem J, Godschalk R, Williams A, Yauk CL, Young R, Douglas GR.

Mutat Res. 2018 Aug;832-833:7-18. doi: 10.1016/j.mrgentox.2018.05.021. Epub 2018 May 29.


Simulation of mouse and rat spermatogenesis to inform genotoxicity testing using OECD test guideline 488.

Marchetti F, Aardema M, Beevers C, van Benthem J, Douglas GR, Godschalk R, Yauk CL, Young R, Williams A.

Mutat Res. 2018 Aug;832-833:19-28. doi: 10.1016/j.mrgentox.2018.05.020. Epub 2018 Jun 1.


Corrigendum to "MWCNTs of different physicochemical properties cause similar inflammatory responses, but differences in transcriptional and histological markers of fibrosis in mouse lungs" [Toxicol. Appl. Pharmacol., 284 (2015) 16-32].

Poulsen SS, Saber AT, Williams A, Andersen O, Købler C, Atluri R, Pozzebon ME, Mucelli SP, Simion M, Rickerby D, Mortensen A, Jackson P, Kyjovska ZO, Mølhave K, Jacobsen NR, Jensen KA, Yauk CL, Wallin H, Halappanavar S, Vogel U.

Toxicol Appl Pharmacol. 2018 Sep 15;355:286. doi: 10.1016/j.taap.2018.06.006. Epub 2018 Jun 13. No abstract available.


Discovering human germ cell mutagens with whole genome sequencing: Insights from power calculations reveal the importance of controlling for between-family variability.

Webster RJ, Williams A, Marchetti F, Yauk CL.

Mutat Res. 2018 Jul;831:24-32. doi: 10.1016/j.mrgentox.2018.04.004. Epub 2018 Apr 20.


The application of transcriptional benchmark dose modeling for deriving thresholds of effects associated with solar-simulated ultraviolet radiation exposure.

Qutob SS, Chauhan V, Kuo B, Williams A, Yauk CL, McNamee JP, Gollapudi B.

Environ Mol Mutagen. 2018 Jul;59(6):502-515. doi: 10.1002/em.22196. Epub 2018 May 15.


Transcriptional profiling of male CD-1 mouse lungs and Harderian glands supports the involvement of calcium signaling in acrylamide-induced tumors.

Chepelev NL, Gagné R, Maynor T, Kuo B, Hobbs CA, Recio L, Yauk CL.

Regul Toxicol Pharmacol. 2018 Jun;95:75-90. doi: 10.1016/j.yrtph.2018.02.005. Epub 2018 Feb 21.


Development and validation of a high-throughput transcriptomic biomarker to address 21st century genetic toxicology needs.

Li HH, Chen R, Hyduke DR, Williams A, Frötschl R, Ellinger-Ziegelbauer H, O'Lone R, Yauk CL, Aubrecht J, Fornace AJ Jr.

Proc Natl Acad Sci U S A. 2017 Dec 19;114(51):E10881-E10889. doi: 10.1073/pnas.1714109114. Epub 2017 Dec 4.


Integration of the TGx-28.65 genomic biomarker with the flow cytometry micronucleus test to assess the genotoxicity of disperse orange and 1,2,4-benzenetriol in human TK6 cells.

Buick JK, Williams A, Kuo B, Wills JW, Swartz CD, Recio L, Li HH, Fornace AJ Jr, Aubrecht J, Yauk CL.

Mutat Res. 2017 Dec;806:51-62. doi: 10.1016/j.mrfmmm.2017.09.002. Epub 2017 Sep 13.


Multi-walled carbon nanotube-induced genotoxic, inflammatory and pro-fibrotic responses in mice: Investigating the mechanisms of pulmonary carcinogenesis.

Rahman L, Jacobsen NR, Aziz SA, Wu D, Williams A, Yauk CL, White P, Wallin H, Vogel U, Halappanavar S.

Mutat Res. 2017 Nov;823:28-44. doi: 10.1016/j.mrgentox.2017.08.005. Epub 2017 Sep 8.


Adipogenic Effects and Gene Expression Profiling of Firemaster® 550 Components in Human Primary Preadipocytes.

Tung EWY, Peshdary V, Gagné R, Rowan-Carroll A, Yauk CL, Boudreau A, Atlas E.

Environ Health Perspect. 2017 Sep 14;125(9):097013. doi: 10.1289/EHP1318.


From sperm to offspring: Assessing the heritable genetic consequences of paternal smoking and potential public health impacts.

Beal MA, Yauk CL, Marchetti F.

Mutat Res. 2017 Jul;773:26-50. doi: 10.1016/j.mrrev.2017.04.001. Epub 2017 Apr 12. Review.


Stat-6 signaling pathway and not Interleukin-1 mediates multi-walled carbon nanotube-induced lung fibrosis in mice: insights from an adverse outcome pathway framework.

Nikota J, Banville A, Goodwin LR, Wu D, Williams A, Yauk CL, Wallin H, Vogel U, Halappanavar S.

Part Fibre Toxicol. 2017 Sep 13;14(1):37. doi: 10.1186/s12989-017-0218-0.


Transcriptional profiling of male F344 rats suggests the involvement of calcium signaling in the mode of action of acrylamide-induced thyroid cancer.

Chepelev NL, Gagné R, Maynor T, Kuo B, Hobbs CA, Recio L, Yauk CL.

Food Chem Toxicol. 2017 Sep;107(Pt A):186-200. doi: 10.1016/j.fct.2017.06.019. Epub 2017 Jun 9.


Dose-response mutation and spectrum analyses reveal similar responses at two microsatellite loci in benzo(a)pyrene-exposed mouse spermatogonia.

Rowan-Carroll A, Beal MA, Williams A, Marchetti F, Yauk CL.

Mutagenesis. 2017 Jul 1;32(4):463-470. doi: 10.1093/mutage/gex008.


Identification of Gene Transcription Start Sites and Enhancers Responding to Pulmonary Carbon Nanotube Exposure in Vivo.

Bornholdt J, Saber AT, Lilje B, Boyd M, Jørgensen M, Chen Y, Vitezic M, Jacobsen NR, Poulsen SS, Berthing T, Bressendorff S, Vitting-Seerup K, Andersson R, Hougaard KS, Yauk CL, Halappanavar S, Wallin H, Vogel U, Sandelin A.

ACS Nano. 2017 Apr 25;11(4):3597-3613. doi: 10.1021/acsnano.6b07533. Epub 2017 Mar 31.


Promise and peril in nanomedicine: the challenges and needs for integrated systems biology approaches to define health risk.

Halappanavar S, Vogel U, Wallin H, Yauk CL.

Wiley Interdiscip Rev Nanomed Nanobiotechnol. 2018 Jan;10(1). doi: 10.1002/wnan.1465. Epub 2017 Mar 15. Review.


Recommended approaches in the application of toxicogenomics to derive points of departure for chemical risk assessment.

Farmahin R, Williams A, Kuo B, Chepelev NL, Thomas RS, Barton-Maclaren TS, Curran IH, Nong A, Wade MG, Yauk CL.

Arch Toxicol. 2017 May;91(5):2045-2065. doi: 10.1007/s00204-016-1886-5. Epub 2016 Dec 7.


A framework for the use of single-chemical transcriptomics data in predicting the hazards associated with complex mixtures of polycyclic aromatic hydrocarbons.

Labib S, Williams A, Kuo B, Yauk CL, White PA, Halappanavar S.

Arch Toxicol. 2017 Jul;91(7):2599-2616. doi: 10.1007/s00204-016-1891-8. Epub 2016 Nov 17.


Next generation sequencing of benzo(a)pyrene-induced lacZ mutants identifies a germ cell-specific mutation spectrum.

O'Brien JM, Beal MA, Yauk CL, Marchetti F.

Sci Rep. 2016 Nov 10;6:36743. doi: 10.1038/srep36743.


Bisphenol A and Bisphenol S Induce Distinct Transcriptional Profiles in Differentiating Human Primary Preadipocytes.

Boucher JG, Gagné R, Rowan-Carroll A, Boudreau A, Yauk CL, Atlas E.

PLoS One. 2016 Sep 29;11(9):e0163318. doi: 10.1371/journal.pone.0163318. eCollection 2016.


Next generation testing strategy for assessment of genomic damage: A conceptual framework and considerations.

Dearfield KL, Gollapudi BB, Bemis JC, Benz RD, Douglas GR, Elespuru RK, Johnson GE, Kirkland DJ, LeBaron MJ, Li AP, Marchetti F, Pottenger LH, Rorije E, Tanir JY, Thybaud V, van Benthem J, Yauk CL, Zeiger E, Luijten M.

Environ Mol Mutagen. 2017 Jun;58(5):264-283. doi: 10.1002/em.22045. Epub 2016 Sep 21. Review.


Transcriptional benchmark dose modeling: Exploring how advances in chemical risk assessment may be applied to the radiation field.

Chauhan V, Kuo B, McNamee JP, Wilkins RC, Yauk CL.

Environ Mol Mutagen. 2016 Oct;57(8):589-604. doi: 10.1002/em.22043. Epub 2016 Sep 7.


In Utero Exposure to Benzo[a]Pyrene Increases Mutation Burden in the Soma and Sperm of Adult Mice.

Meier MJ, O'Brien JM, Beal MA, Allan B, Yauk CL, Marchetti F.

Environ Health Perspect. 2017 Jan;125(1):82-88. doi: 10.1289/EHP211. Epub 2016 Jul 22.


Benzo(a)pyrene Is Mutagenic in Mouse Spermatogonial Stem Cells and Dividing Spermatogonia.

O'Brien JM, Beal MA, Yauk CL, Marchetti F.

Toxicol Sci. 2016 Aug;152(2):363-71. doi: 10.1093/toxsci/kfw088. Epub 2016 May 13.


Transcriptional profiling of the mouse hippocampus supports an NMDAR-mediated neurotoxic mode of action for benzo[a]pyrene.

Chepelev NL, Long AS, Bowers WJ, Gagné R, Williams A, Kuo B, Phillips DH, Arlt VM, White PA, Yauk CL.

Environ Mol Mutagen. 2016 Jun;57(5):350-63. doi: 10.1002/em.22020. Epub 2016 May 19.


Meta-analysis of transcriptomic responses as a means to identify pulmonary disease outcomes for engineered nanomaterials.

Nikota J, Williams A, Yauk CL, Wallin H, Vogel U, Halappanavar S.

Part Fibre Toxicol. 2016 May 11;13(1):25. doi: 10.1186/s12989-016-0137-5.


Nano-risk Science: application of toxicogenomics in an adverse outcome pathway framework for risk assessment of multi-walled carbon nanotubes.

Labib S, Williams A, Yauk CL, Nikota JK, Wallin H, Vogel U, Halappanavar S.

Part Fibre Toxicol. 2016 Mar 15;13:15. doi: 10.1186/s12989-016-0125-9.


Application of the TGx-28.65 transcriptomic biomarker to classify genotoxic and non-genotoxic chemicals in human TK6 cells in the presence of rat liver S9.

Yauk CL, Buick JK, Williams A, Swartz CD, Recio L, Li HH, Fornace AJ Jr, Thomson EM, Aubrecht J.

Environ Mol Mutagen. 2016 May;57(4):243-60. doi: 10.1002/em.22004. Epub 2016 Mar 4.


Hepatic miRNA profiles and thyroid hormone homeostasis in rats exposed to dietary potassium perfluorooctanesulfonate (PFOS).

Dong H, Curran I, Williams A, Bondy G, Yauk CL, Wade MG.

Environ Toxicol Pharmacol. 2016 Jan;41:201-10. doi: 10.1016/j.etap.2015.12.009. Epub 2015 Dec 21.


BMDExpress Data Viewer - a visualization tool to analyze BMDExpress datasets.

Kuo B, Francina Webster A, Thomas RS, Yauk CL.

J Appl Toxicol. 2016 Aug;36(8):1048-59. doi: 10.1002/jat.3265. Epub 2015 Dec 15.


Adipogenic Mesenchymal Stromal Cells from Bone Marrow and Their Hematopoietic Supportive Role: Towards Understanding the Permissive Marrow Microenvironment in Acute Myeloid Leukemia.

Le Y, Fraineau S, Chandran P, Sabloff M, Brand M, Lavoie JR, Gagne R, Rosu-Myles M, Yauk CL, Richardson RB, Allan DS.

Stem Cell Rev. 2016 Apr;12(2):235-44. doi: 10.1007/s12015-015-9639-z.


The adverse outcome pathway (AOP) for chemical binding to tubulin in oocytes leading to aneuploid offspring.

Marchetti F, Massarotti A, Yauk CL, Pacchierotti F, Russo A.

Environ Mol Mutagen. 2016 Mar;57(2):87-113. doi: 10.1002/em.21986. Epub 2015 Nov 19. Review.


Carbon black nanoparticles induce biphasic gene expression changes associated with inflammatory responses in the lungs of C57BL/6 mice following a single intratracheal instillation.

Husain M, Kyjovska ZO, Bourdon-Lacombe J, Saber AT, Jensen KA, Jacobsen NR, Williams A, Wallin H, Halappanavar S, Vogel U, Yauk CL.

Toxicol Appl Pharmacol. 2015 Dec 15;289(3):573-88. doi: 10.1016/j.taap.2015.11.003. Epub 2015 Nov 10.


Transcriptional Profiling of Dibenzo[def,p]chrysene-induced Spleen Atrophy Provides Mechanistic Insights into its Immunotoxicity in MutaMouse.

Chepelev NL, Long AS, Williams A, Kuo B, Gagné R, Kennedy DA, Phillips DH, Arlt VM, White PA, Yauk CL.

Toxicol Sci. 2016 Jan;149(1):251-68. doi: 10.1093/toxsci/kfv232. Epub 2015 Oct 24.


Gene expression analysis of livers from female B6C3F1 mice exposed to carcinogenic and non-carcinogenic doses of furan, with or without bromodeoxyuridine (BrdU) treatment.

Webster AF, Williams A, Recio L, Yauk CL.

Genom Data. 2014 Jun 11;2:117-22. doi: 10.1016/j.gdata.2014.05.013. eCollection 2014 Dec.


Characterizing Benzo[a]pyrene-induced lacZ mutation spectrum in transgenic mice using next-generation sequencing.

Beal MA, Gagné R, Williams A, Marchetti F, Yauk CL.

BMC Genomics. 2015 Oct 19;16:812. doi: 10.1186/s12864-015-2004-4.


A predictive toxicogenomics signature to classify genotoxic versus non-genotoxic chemicals in human TK6 cells.

Williams A, Buick JK, Moffat I, Swartz CD, Recio L, Hyduke DR, Li HH, Fornace AJ Jr, Aubrecht J, Yauk CL.

Data Brief. 2015 Aug 24;5:77-83. doi: 10.1016/j.dib.2015.08.013. eCollection 2015 Dec.


Comparative transcriptomic analyses to scrutinize the assumption that genotoxic PAHs exert effects via a common mode of action.

Labib S, Williams A, Guo CH, Leingartner K, Arlt VM, Schmeiser HH, Yauk CL, White PA, Halappanavar S.

Arch Toxicol. 2016 Oct;90(10):2461-80. doi: 10.1007/s00204-015-1595-5. Epub 2015 Sep 16.


Mining the Archives: A Cross-Platform Analysis of Gene Expression Profiles in Archival Formalin-Fixed Paraffin-Embedded Tissues.

Webster AF, Zumbo P, Fostel J, Gandara J, Hester SD, Recio L, Williams A, Wood CE, Yauk CL, Mason CE.

Toxicol Sci. 2015 Dec;148(2):460-72. doi: 10.1093/toxsci/kfv195. Epub 2015 Sep 10.


Impact of Genomics Platform and Statistical Filtering on Transcriptional Benchmark Doses (BMD) and Multiple Approaches for Selection of Chemical Point of Departure (PoD).

Webster AF, Chepelev N, Gagné R, Kuo B, Recio L, Williams A, Yauk CL.

PLoS One. 2015 Aug 27;10(8):e0136764. doi: 10.1371/journal.pone.0136764. eCollection 2015.


HPLC Measurement of the DNA Oxidation Biomarker, 8-oxo-7,8-dihydro-2'-deoxyguanosine, in Cultured Cells and Animal Tissues.

Chepelev NL, Kennedy DA, Gagné R, White T, Long AS, Yauk CL, White PA.

J Vis Exp. 2015 Aug 1;(102):e52697. doi: 10.3791/52697.

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