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Who We Fund: Publication Detail

Project Title: GRADUATE TRAINING IN BIOINFORMATICS
PI: Wright, Fred A.
Institution: North Carolina State University Raleigh
Grant Number: T32ES007329

These search results have not been confirmed by NIEHS and are therefore, not official. They are to be used only for general information and to inform the public and grantees on the breadth of research funded by NIEHS.

Viewing 43 publications
Export to Excel (http://www.niehs.nih.gov//portfolio/index.cfm/portfolio/grantpubdetail/grant_number/T32ES007329/format/excel)
Publication Title Authors Grant Number(s) Journal (Pub date) PubMed Link Pub Year
Equiprobable discrete models of site-specific substitution rates underestimate the extent of rate va ...   Mannino, Frank; Wisotsky, Sadie; Kosakovsky Pond, Sergei L; Muse, Spencer V T32ES007329 PLoS One (2020) 32119689 Exiting the NIEHS site 2020 
Synonymous Site-to-Site Substitution Rate Variation Dramatically Inflates False Positive Rates of Se ...   Wisotsky, Sadie R; Kosakovsky Pond, Sergei L; Shank, Stephen D; Muse, Spencer V T32ES007329 Mol Biol Evol (2020 08 01) 32068869 Exiting the NIEHS site 2020 
Cheminformatics approach to exploring and modeling trait-associated metabolite profiles.   Ash, Jeremy R; Kuenemann, Melaine A; Rotroff, Daniel; Motsinger-Reif, Alison; Fourches, Denis T32ES007329 J Cheminform (2019 Jun 24) 31236709 Exiting the NIEHS site 2019 
Community assessment to advance computational prediction of cancer drug combinations in a pharmacoge ...   Menden, Michael P; Wang, Dennis; Mason, Mike J; Szalai, Bence; Bulusu, Krishna C; Guan, Yuanfa ... T32ES007329 Nat Commun (2019 06 17) 31209238 Exiting the NIEHS site 2019 
Multivariate modeling of engineered nanomaterial features associated with developmental toxicity.   To, Kimberly T; Truong, Lisa; Edwards, Sabrina; Tanguay, Robert L; Reif, David M P30ES025128, R56ES030007, T32ES007329, U01ES027294, U24ES026946 NanoImpact (2019 Apr) 32133425 Exiting the NIEHS site 2019 
RiboStreamR: a web application for quality control, analysis, and visualization of Ribo-seq data.   Perkins, Patrick; Mazzoni-Putman, Serina; Stepanova, Anna; Alonso, Jose; Heber, Steffen T32ES007329 BMC Genomics (2019 Jun 06) 31167636 Exiting the NIEHS site 2019 
Synergistic Chemotherapy Drug Response Is a Genetic Trait in Lymphoblastoid Cell Lines.   Roell, Kyle R; Havener, Tammy M; Reif, David M; Jack, John; McLeod, Howard L; Wiltshire, Tim; ... P30ES025128, T32ES007329 Front Genet (2019) 31681399 Exiting the NIEHS site 2019 
Characterizing the activity of abundant, diverse and active CRISPR-Cas systems in lactobacilli.   Crawley, Alexandra B; Henriksen, Emily D; Stout, Emily; Brandt, Katelyn; Barrangou, Rodolphe T32ES007329 Sci Rep (2018 08 01) 30068963 Exiting the NIEHS site 2018 
Characterizing the effects of missing data and evaluating imputation methods for chemical prioritiza ...   To, Kimberly T; Fry, Rebecca C; Reif, David M P30ES025128, T32ES007329 BioData Min (2018) 29942350 Exiting the NIEHS site 2018 
chemmodlab: a cheminformatics modeling laboratory R package for fitting and assessing machine learni ...   Ash, Jeremy R; Hughes-Oliver, Jacqueline M T32ES007329 J Cheminform (2018 Nov 28) 30488298 Exiting the NIEHS site 2018 
Confirmation of high-throughput screening data and novel mechanistic insights into VDR-xenobiotic in ...   Mahapatra, Debabrata; Franzosa, Jill A; Roell, Kyle; Kuenemann, Melaine Agnes; Houck, Keith A; ... P30ES025128, T32ES007329 Sci Rep (2018 06 11) 29891985 Exiting the NIEHS site 2018 
Elucidating Gene-by-Environment Interactions Associated with Differential Susceptibility to Chemical ...   Balik-Meisner, Michele; Truong, Lisa; Scholl, Elizabeth H; La Du, Jane K; Tanguay, Robert L; Re ... P30ES025128, P42ES016465, T32ES007329, U01ES027294 Environ Health Perspect (2018 06) 29968567 Exiting the NIEHS site 2018 
Population genetic diversity in zebrafish lines.   Balik-Meisner, Michele; Truong, Lisa; Scholl, Elizabeth H; Tanguay, Robert L; Reif, David M P30ES025128, P42ES016465, T32ES007329, U01ES027294 Mamm Genome (2018 02) 29368091 Exiting the NIEHS site 2018 
ToxPi Graphical User Interface 2.0: Dynamic exploration, visualization, and sharing of integrated da ...   Marvel, Skylar W; To, Kimberly; Grimm, Fabian A; Wright, Fred A; Rusyn, Ivan; Reif, David M P30ES025128, P42ES027704, T32ES007329 BMC Bioinformatics (2018 03 05) 29506467 Exiting the NIEHS site 2018 
Using glycolysis enzyme sequences to inform Lactobacillus phylogeny.   Brandt, Katelyn; Barrangou, Rodolphe T32ES007329 Microb Genom (2018 06) 29932393 Exiting the NIEHS site 2018 
A data-driven weighting scheme for multivariate phenotypic endpoints recapitulates zebrafish develop ...   Zhang, Guozhu; Roell, Kyle R; Truong, Lisa; Tanguay, Robert L; Reif, David M P30ES025128, P42ES016465, T32ES007329, U01ES027294 Toxicol Appl Pharmacol (2017 Jan 01) 27884602 Exiting the NIEHS site 2017 
A New Statistical Approach to Characterize Chemical-Elicited Behavioral Effects in High-Throughput S ...   Zhang, Guozhu; Truong, Lisa; Tanguay, Robert L; Reif, David M P30ES025128, P42ES016465, T32ES007329, U01ES027294 PLoS One (2017) 28099482 Exiting the NIEHS site 2017 
Characterizing the Chemical Space of ERK2 Kinase Inhibitors Using Descriptors Computed from Molecula ...   Ash, Jeremy; Fourches, Denis T32ES007329 J Chem Inf Model (2017 06 26) 28471171 Exiting the NIEHS site 2017 
Aggregate entropy scoring for quantifying activity across endpoints with irregular correlation struc ...   Zhang, Guozhu; Marvel, Skylar; Truong, Lisa; Tanguay, Robert L; Reif, David M P30ES025128, P42ES016465, T32ES007329 Reprod Toxicol (2016 07) 27132190 Exiting the NIEHS site 2016 
Evolutionary and Functional Diversification of the Vitamin D Receptor-Lithocholic Acid Partnership.   Kollitz, Erin M; Zhang, Guozhu; Hawkins, Mary Beth; Whitfield, G Kerr; Reif, David M; Kullman, ... P30ES025128, T32ES007046, T32ES007329 PLoS One (2016) 27942020 Exiting the NIEHS site 2016 
Genetic Architecture of Domestication-Related Traits in Maize.   Xue, Shang; Bradbury, Peter J; Casstevens, Terry; Holland, James B T32ES007329 Genetics (2016 09) 27412713 Exiting the NIEHS site 2016 
An investigation of gene-gene interactions in dose-response studies with Bayesian nonparametrics.   Beam, Andrew L; Motsinger-Reif, Alison A; Doyle, Jon T32ES007329 BioData Min (2015) 25691918 Exiting the NIEHS site 2015 
Molecular cloning, functional characterization, and evolutionary analysis of vitamin D receptors iso ...   Kollitz, Erin M; Zhang, Guozhu; Hawkins, Mary Beth; Whitfield, G Kerr; Reif, David M; Kullman, ... P30ES025128, T32ES007046, T32ES007329 PLoS One (2015) 25855982 Exiting the NIEHS site 2015 
Bayesian neural networks for detecting epistasis in genetic association studies.   Beam, Andrew L; Motsinger-Reif, Alison; Doyle, Jon T32ES007329 BMC Bioinformatics (2014) 25413600 Exiting the NIEHS site 2014 
Mapping epistatic quantitative trait loci.   Laurie, Cecelia; Wang, Shengchu; Carlini-Garcia, Luciana Aparecida; Zeng, Zhao-Bang T32ES007329 BMC Genet (2014 Nov 04) 25367219 Exiting the NIEHS site 2014 
Mobyle SNAP Workbench: a web-based analysis portal for population genetics and evolutionary genomics ...   Monacell, James T; Carbone, Ignazio T32ES007329 Bioinformatics (2014 May 15) 24489366 Exiting the NIEHS site 2014 
Structural properties of the minimum cut of partially-supplied graphs.   Griffing, Alexander R; Lynch, Benjamin R; Stone, Eric A T32ES007329 Discrete Appl Math (2014 Nov 20) 25400306 Exiting the NIEHS site 2014 
An eigenvector interlacing property of graphs that arise from trees by Schur complementation of the ...   Griffing, Alexander R; Lynch, Benjamin R; Stone, Eric A T32ES007329 Linear Algebra Appl (2013 Feb 01) 23378671 Exiting the NIEHS site 2013 
High-throughput RNA sequencing of pseudomonas-infected Arabidopsis reveals hidden transcriptome comp ...   Howard, Brian E; Hu, Qiwen; Babaoglu, Ahmet Can; Chandra, Manan; Borghi, Monica; Tan, Xiaoping ... T32ES007329 PLoS One (2013) 24098335 Exiting the NIEHS site 2013 
A genome-wide association analysis of temozolomide response using lymphoblastoid cell lines shows a ...   Brown, Chad C; Havener, Tammy M; Medina, Marisa W; Auman, J Todd; Mangravite, Lara M; Krauss, ... T32ES007329 Pharmacogenet Genomics (2012 Nov) 23047291 Exiting the NIEHS site 2012 
Confidence interval of the likelihood ratio associated with mixed stain DNA evidence.   Beecham, Gary W; Weir, Bruce S T32ES007329 J Forensic Sci (2011 Jan) 21198611 Exiting the NIEHS site 2011 
Ex-Vivo Modeling for Heritability Assessment and Genetic Mapping in Pharmacogenomics.   Motsinger-Reif, Alison; Brown, Chad; Havener, Tammy; Hardison, Nicholas; Peters, Eric; Beam, A ... T32ES007329 Proc Am Stat Assoc (2011 Jul-Aug) 30627054 Exiting the NIEHS site 2011 
Genomic profiling in CEPH cell lines distinguishes between the camptothecins and indenoisoquinolines ...   Watson, Venita Gresham; Hardison, Nicholas E; Harris, Tyndall; Motsinger-Reif, Alison; McLeod, ... T32ES007329 Mol Cancer Ther (2011 Oct) 21750217 Exiting the NIEHS site 2011 
Identification and replication of loci involved in camptothecin-induced cytotoxicity using CEPH pedi ...   Watson, Venita Gresham; Motsinger-Reif, Alison; Hardison, Nicholas E; Peters, Eric J; Havener, ... T32ES007329 PLoS One (2011 May 05) 21573211 Exiting the NIEHS site 2011 
Optimization of nonlinear dose- and concentration-response models utilizing evolutionary computation ...   Beam, Andrew L; Motsinger-Reif, Alison A T32ES007329 Dose Response (2011) 22013401 Exiting the NIEHS site 2011 
Pharmacogenomic characterization of US FDA-approved cytotoxic drugs.   Peters, Eric J; Motsinger-Reif, Alison; Havener, Tammy M; Everitt, Lorraine; Hardison, Nicholas ... T32ES007329 Pharmacogenomics (2011 Oct) 22008047 Exiting the NIEHS site 2011 
Synthesizing and databasing fossil calibrations: divergence dating and beyond.   Ksepka, Daniel T; Benton, Michael J; Carrano, Matthew T; Gandolfo, Maria A; Head, Jason J; Herm ... T32ES007329 Biol Lett (2011 Dec 23) 21525049 Exiting the NIEHS site 2011 
Amide isosteres of oroidin: assessment of antibiofilm activity and C. elegans toxicity.   Richards, Justin J; Reyes, Samuel; Stowe, Sean D; Tucker, Ashley T; Ballard, T Eric; Mathies, ... T32ES007329 J Med Chem (2009 Aug 13) 19719234 Exiting the NIEHS site 2009 
From classical genetics to quantitative genetics to systems biology: modeling epistasis.   Aylor, David L; Zeng, Zhao-Bang T32ES007329 PLoS Genet (2008 Mar 14) 18369448 Exiting the NIEHS site 2008 
eQTL Viewer: visualizing how sequence variation affects genome-wide transcription.   Zou, Wei; Aylor, David L; Zeng, Zhao-Bang T32ES007329 BMC Bioinformatics (2007 Jan 09) 17212828 Exiting the NIEHS site 2007 
Evaluation of DNA pooling for the estimation of microsatellite allele frequencies: a case study usin ...   Skalski, Garrick T; Couch, Charlene R; Garber, Amber F; Weir, Bruce S; Sullivan, Craig V T32ES007329 Genetics (2006 Jun) 16582444 Exiting the NIEHS site 2006 
SNAP: Combine and Map modules for multilocus population genetic analysis.   Aylor, David L; Price, Eric W; Carbone, Ignazio T32ES007329 Bioinformatics (2006 Jun 01) 16601003 Exiting the NIEHS site 2006 
The diffusive spread of alleles in heterogeneous populations.   Skalski, Garrick T T32ES007329 Evolution (2004 Mar) 15119431 Exiting the NIEHS site 2004 
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