Reif Lab

A picture is worth a thousand data points

header photo

Blog posts : "computational toxicology"

Reif presents at OpenTox conference

July 12, 2017

David Reif presented at the 2017 OpenTox USA meeting. Thanks to Barry Hardy and Noffisat Oki for the invitation to speak! 

His seminar was entitled "Implications of Population Genetic Diversity for Safety Assessment."  

Read more

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

April 3, 2017

Reif presents in Systematic Evaluation of the Application of Zebrafish in Toxicology (SEAZIT) series

February 1, 2017

David Reif presented as part of the ongoing Systematic Evaluation of the Application of Zebrafish in Toxicology (SEAZIT) webinar series. 

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

January 18, 2017

Read more

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

November 21, 2016
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 …

Read more

Article featured as Editor's Highlight in Toxicological Sciences

August 1, 2016
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…

Read more

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

May 20, 2016
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
…

Read more

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

May 16, 2016

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…

Read more

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

May 12, 2016
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.

Read more

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

April 27, 2016
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…

Read more

European Chemicals Agency workshop on "New Approach Methodologies in Regulatory Science"

April 18, 2016

David Reif presented at an invited workshop from the European Chemicals Agency (ECHA) in Helsinki, Finland on "New Approach Methodologies in Regulatory Science".

Read more

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

March 15, 2016
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…

Read more

Reif co-authors National Academy of Sciences (NAS) report "Application of Modern Toxicology Approaches for Predicting Acute Toxicity for Chemical Defense"

August 24, 2015

David Reif served as a member of an expert committee that authored the report "Application of Modern Toxicology Approaches for Predicting Acute Toxicity for Chemical Defense". 

The official citation is:

National Academies of Sciences, Engineering, and Medicine. Application of Modern Toxicolo…

Read more

Reif part of multi-institute research team awarded EPA grant

August 17, 2015

The Environmental Protection Agency (EPA) has awarded a $6 million grant to fund a multi-institutional collaboration between the Texas A&M College of Veterinary Medicine & Biomedical Sciences and the Bioinformatics Research Center at NCSU. 

More information is available from the BRC and from Tex…

Read more

Toxicity testing in the 21st century beyond environmental chemicals (2015) Altex

July 10, 2015

Costanza Rovida, Shoji Asakura, Mardas Daneshian, Hana Hofman-Huether, Marcel Leist, Leo Meunier, David Reif, Anna Rossi, Markus Schmutz, Jean-Pierre Valentin, Joanne Zurlo, Thomas Hartung.Toxicity testing in the 21st century beyond environmental chemicals. (2015) Altex 32 (3), 171-181.

http://w…

Read more

High-throughput characterization of chemical-associated embryonic behavioral changes predicts teratogenic outcomes (2015) Archives of Toxicology

July 1, 2015

High-throughput characterization of chemical-associated embryonic behavioral changes predicts teratogenic outcomes (2015) Archives of Toxicology

http://www.ncbi.nlm.nih.gov/pubmed/26126630

(NOTE: Full-text available for free via link above or here)

Read more

Computational Methods Used in Systems Biology (2015) Systems Biology in Toxicology and Environmental Health

June 21, 2015

Michele Meisner, David M Reif. "Computational Methods Used in Systems Biology" Systems Biology in Toxicology and Environmental Health: From the Genome to the Epigenome. Chapter 5, Pages 85-115. Elsevier.

http://store.elsevier.com/Systems-Biology-in-Toxicology-and-Environmental-Health/R…

Read more

Bioinformaticists at the bench

April 7, 2015

The Reif Lab packed up their laptops and journeyed to Robert Tanguay's lab for a scientific retreat at Oregon State University.

The retreat was packed with scientific presentations, discussion, and socializing. A highlight was seeing the amazing, custom-engineered setup of the laboratory. Li…

Read more

Use of Neural Models of Proliferation and Neurite Outgrowth to Screen Environmental Chemicals in the ToxCast Phase I Library (2015) Applied In Vitro Toxicology

February 10, 2015

http://online.liebertpub.com/doi/abs/10.1089/aivt.2014.0009

19 blog posts