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Blog posts : "Publications"

ToxPi Graphical User Interface 2.0: Dynamic exploration, visualization, and sharing of integrated data models (2018) BMC Bioinformatics

Marvel SW, To K, Grimm FA, Wright FA, Rusyn I, Reif DM. ToxPi Graphical User Interface 2.0: Dynamic exploration, visualization, and sharing of integrated data models. BMC Bioinformatics. 2018 Mar 5;19(1):80. doi: 10.1186/s12859-018-2089-2. PubMed PMID: 29506467.

 

https://bmcbioinformatics.bi…

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Population genetic diversity in zebrafish lines (2018) Mammalian Genome

Balik-Meisner M, Truong L, Scholl EH, Tanguay RL, Reif DM. Population genetic 
diversity in zebrafish lines. Mamm Genome. 2018 Jan 24. doi:
10.1007/s00335-018-9735-x. [Epub ahead of print] PubMed PMID: 29368091.

https://www.ncbi.nlm.nih.gov/pubmed/29368091

 

 

 

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Use of high-throughput in vitro toxicity screening data in cancer hazard evaluations by IARC Monograph Working Groups (2017) ALTEX

Transgenerational inheritance of neurobehavioral and physiological deficits from developmental exposure to benzo [a] pyrene in zebrafish (2017) Toxicology and Applied Pharmacology

Knecht AL, Truong L, Marvel SW, Reif DM, Garcia A, Lu C, Simonich MT,
Teeguarden JG, Tanguay RL. Transgenerational inheritance of neurobehavioral and
physiological deficits from developmental exposure to benzo[a]pyrene in
zebrafish. Toxicol Appl Pharmacol. 2017 Jun 3;329:148-157. doi:
10.1016/…

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An introduction to terminology and methodology of chemical synergy -perspectives from across disciplines (2017) Frontiers in Pharmacology

Integrating Morphological and Behavioral Phenotypes in Developing Zebrafish

Zhang G., Truong L., Tanguay R.L., Reif D.M. (2017) Integrating Morphological and Behavioral Phenotypes in Developing Zebrafish. In: Kalueff A. (eds) The rights and wrongs of zebrafish: Behavioral phenotyping of zebrafish. Springer, Cham.

http://www.springer.com/us/book/9783319337739

https://l…

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Incorporating ToxCast and Tox21 datasets to rank biological activity of chemicals at Superfund sites in North Carolina (2017) Environment International

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A New Statistical Approach to Characterize Chemical-Elicited Behavioral Effects in High-Throughput Studies Using Zebrafish (2017) PLoS One

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Evolutionary and Functional Diversification of the Vitamin D Receptor-Lithocholic Acid Partnership (2016) PLoS One

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A data-driven weighting scheme for multivariate phenotypic endpoints recapitulates zebrafish developmental cascades (2016) TAAP

Zhang G, Roell KR, Truong L, Tanguay RL, Reif DM. A data-driven weighting
scheme for multivariate phenotypic endpoints recapitulates zebrafish
developmental cascades. Toxicol Appl Pharmacol. 2016 Nov 21. pii:
S0041-008X(16)30365-9. doi: 10.1016/j.taap.2016.11.010. [Epub ahead of print]
PubMed …

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Embryonic exposure to TCDD impacts osteogenesis of the axial skeleton in Japanese medaka, Oryzias latipes (2016) Toxicological Sciences

Embryonic exposure to TCDD impacts osteogenesis of the axial skeleton in Japanese medaka, Oryzias latipes. ALTD Watson, A Planchart, CJ Mattingly, C Winkler, DM Reif, SW Kullman. Toxicological Sciences, kfw229

http://toxsci.oxfordjournals.org/content/early/2016/11/14/toxsci.kfw229.full.pdf+html

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Eigenvector metabolite analysis reveals dietary effects on the association among metabolite correlation patterns, gene expression, and phenotypes (2016) Metabolomics

Eigenvector metabolite analysis reveals dietary effects on the association among metabolite correlation patterns, gene expression, and phenotypes. CHS Chialvo, R Che, D Reif, A Motsinger-Reif, LK Reed. Metabolomics 12 (11), 167.

http://link.springer.com/article/10.1007/s11306-016-1117-3

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Article featured as Editor's Highlight in Toxicological Sciences

Judson R, Houck K, Martin M, Richard AM, Knudsen TB, Shah I, Little S,
Wambaugh J, Woodrow Setzer R, Kothya P, Phuong J, Filer D, Smith D, Reif D,
Rotroff D, Kleinstreuer N, Sipes N, Xia M, Huang R, Crofton K, Thomas RS.
Editor's Highlight: Analysis of the Effects of Cell Stress and Cytotoxicit…

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Advancing toxicology research using in vivo high throughput toxicology with small fish models (2016) ALTEX

Planchart A, Mattingly CJ, Allen D, Ceger P, Casey W, Hinton D, Kanungo J,
Kullman SW, Tal T, Bondesson M, Burgess SM, Sullivan C, Kim C, Behl M, Padilla S,
Reif DM, Tanguay RL, Hamm J. Advancing toxicology research using in vivo high
throughput toxicology with small fish models. ALTEX. 2016 Ju…

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Analysis of the Effects of Cell Stress and Cytotoxicity on In Vitro Assay Activity Across a Diverse Chemical and Assay Space (2016) Toxicological Sciences

Judson R, Houck K, Martin M, Richard AM, Knudsen TB, Shah I, Little S,
Wambaugh J, Woodrow Setzer R, Kothya P, Phuong J, Filer D, Smith D, Reif D,
Rotroff D, Kleinstreuer N, Sipes N, Xia M, Huang R, Crofton K, Thomas RS.
Analysis of the Effects of Cell Stress and Cytotoxicity on In Vitro Assay
…

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A chemical-biological similarity-based grouping of complex substances as a prototype approach for evaluating chemical alternatives (2016) Green Chemistry

F. A. Grimm, Y. Iwata, O. Sirenko, G. A. Chappell, F. A. Wright, D. M. Reif, J. Braisted, D. L. Gerhold, J. M. Yeakley, P. Shepard, B. Seligmann, T. Roy, P. J. Boogaard, H. B. Ketelslegers, A. M. Rohde and I. Rusyn, Green Chem., 2016, DOI: 10.1039/C6GC01147K.

Open Access / Freely-available:

ht…

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Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database (2016) Environmental Health Perspectives

Grondin CJ, Davis AP, Wiegers TC, King BL, Wiegers JA, Reif DM, Hoppin JA,
Mattingly CJ. Advancing Exposure Science through Chemical Data Curation and
Integration in the Comparative Toxicogenomics Database. Environ Health Perspect. 
2016 May 12. [Epub ahead of print] PubMed PMID: 27170236.

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Aggregate entropy scoring for quantifying activity across endpoints with irregular correlation structure (2016) Reproductive Toxicology

Zhang G, Marvel S, Truong L, Tanguay RL, Reif DM. Aggregate entropy scoring
for quantifying activity across endpoints with irregular correlation structure.
Reprod Toxicol. 2016 Apr 27;62:92-99. doi: 10.1016/j.reprotox.2016.04.012. [Epub 
ahead of print] PubMed PMID: 27132190.

Selected as cov…

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Prioritizing Environmental Chemicals for Obesity and Diabetes Outcomes Research: A Screening Approach Using ToxCast High Throughput Data (2016) Environmental Health Perspectives

Auerbach S, Filer D, Reif D, Walker V, Holloway AC, Schlezinger J, Srinivasan 
S, Svoboda D, Judson R, Bucher JR, Thayer KA. Prioritizing Environmental
Chemicals for Obesity and Diabetes Outcomes Research: A Screening Approach Using 
ToxCast High Throughput Data. Environ Health Perspect. 2016 M…

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Using ToxCastâ„¢ Data to Reconstruct Dynamic Cell State Trajectories and Estimate Toxicological Points of Departure (2015) EHP

Shah I, Setzer RW, Jack J, Houck KA, Judson RS, Knudsen TB, Liu J, Martin MT, Reif DM, Richard AM, Thomas RS, Crofton KM, Dix DJ, Kavlock RJ. Using ToxCast™ Data to Reconstruct Dynamic Cell State Trajectories and Estimate Toxicological Points of Departure. (2015) Environ Health Perspect; http://d…

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20 blog posts