Edward Perkins

Environmental Processes Branch, US Army Engineer Research & Development Center, Vicksburg, MS

Affiliated withUS Army Engineer Research & Development Center, Vicksburg, MS

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JoVE Journal Publications

ArticleTotal : 1	Year
Publication title Cited by 8	2016

Other Publications

Article	Year
Piwi induces piRNA-guided transcriptional silencing and establishment of a repressive chromatin state. Genes & development\| PubMed ID: 23392610	2013
Playing in the mud-using gene expression to assess contaminant effects on sediment dwelling invertebrates. Ecotoxicology (London, England)\| PubMed ID: 14680323	2003
Dnm1 forms spirals that are structurally tailored to fit mitochondria. The Journal of cell biology\| PubMed ID: 16186251	2005
Disruption of nucleocytoplasmic trafficking of cyclin D1 and topoisomerase II by sanguinarine. BMC cell biology\| PubMed ID: 16512916	2006
Toxicogenomics in regulatory ecotoxicology. Environmental science & technology\| PubMed ID: 16856717	2006
Gene expression profiles in fathead minnow exposed to 2,4-DNT: correlation with toxicity in mammals. Toxicological sciences : an official journal of the Society of Toxicology\| PubMed ID: 16917068	2006
Comparison of transcriptional responses in liver tissue and primary hepatocyte cell cultures after exposure to hexahydro-1, 3, 5-trinitro-1, 3, 5-triazine. BMC bioinformatics\| PubMed ID: 17217515	2006
Daphnia magna ecotoxicogenomics provides mechanistic insights into metal toxicity. Environmental science & technology\| PubMed ID: 17328222	2007
Comparative neurotoxicity of two energetic compounds, hexanitrohexaazaisowurtzitane and hexahydro-1,3,5-trinitro-1,3,5-triazine, in the earthworm Eisenia fetida. Environmental toxicology and chemistry / SETAC\| PubMed ID: 17521142	2007
The N terminus of the herpes simplex virus type 1 triplex protein, VP19C, cannot be detected on the surface of the capsid shell by using an antibody (hemagglutinin) epitope tag. Journal of virology\| PubMed ID: 17522217	2007
Structural features of the scaffold interaction domain at the N terminus of the major capsid protein (VP5) of herpes simplex virus type 1. Journal of virology\| PubMed ID: 17581992	2007
Subacute toxicity of oral 2,6-dinitrotoluene and 1,3,5-trinitro-1,3,5-triazine (RDX) exposure to the northern bobwhite (Colinus virginianus). Environmental toxicology and chemistry / SETAC\| PubMed ID: 17665690	2007
Mitochondrially targeted effects of berberine [Natural Yellow 18, 5,6-dihydro-9,10-dimethoxybenzo(g)-1,3-benzodioxolo(5,6-a) quinolizinium] on K1735-M2 mouse melanoma cells: comparison with ... The Journal of pharmacology and experimental therapeutics\| PubMed ID: 17704354	2007
Dielectrophoretic manipulation and real-time electrical detection of single-nanowire bridges in aqueous saline solutions. Small (Weinheim an der Bergstrasse, Germany)\| PubMed ID: 17705314	2007
Effects of subchronic exposure to 2,6-dinitrotoluene in the northern bobwhite (Colinus virginianus). Environmental toxicology and chemistry / SETAC\| PubMed ID: 17867889	2007
Uptake of hexanitrohexaazaisowurtzitane (CL-20) by the earthworm Eisenia fetida through dermal contact. The Science of the total environment\| PubMed ID: 17996277	2008
Toxicogenomic assessment of the population level impacts of contaminants. Integrated environmental assessment and management\| PubMed ID: 18046807	2007
Comparison of probabilistic Boolean network and dynamic Bayesian network approaches for inferring gene regulatory networks. BMC bioinformatics\| PubMed ID: 18047712	2007
Cloning, analysis and functional annotation of expressed sequence tags from the Earthworm Eisenia fetida. BMC bioinformatics\| PubMed ID: 18047730	2007
Toxicogenomic analysis provides new insights into molecular mechanisms of the sublethal toxicity of 2,4,6-trinitrotoluene in Eisenia fetida. Environmental science & technology\| PubMed ID: 18186358	2007
Conventional and immunoelectron microscopy of mitochondria. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 18314746	2007
Transcriptomic analysis of RDX and TNT interactive sublethal effects in the earthworm Eisenia fetida. BMC genomics\| PubMed ID: 18366604	2008
Perturbation of gene expression and steroidogenesis with in vitro exposure of fathead minnow ovaries to ketoconazole. Marine environmental research\| PubMed ID: 18423573	2008
Interaction between Epsin/Yap180 adaptors and the scaffolds Ede1/Pan1 is required for endocytosis. Molecular biology of the cell\| PubMed ID: 18448668	2008
Small capsid protein pORF65 is essential for assembly of Kaposi's sarcoma-associated herpesvirus capsids. Journal of virology\| PubMed ID: 18463150	2008
Chemoselective nanowire fuses: chemically induced cleavage and electrical detection of carbon nanofiber bridges. Small (Weinheim an der Bergstrasse, Germany)\| PubMed ID: 18535991	2008
Sanguinarine cytotoxicity on mouse melanoma K1735-M2 cells--nuclear vs. mitochondrial effects. Biochemical pharmacology\| PubMed ID: 18692024	2008
GOfetcher: a database with complex searching facility for gene ontology. Bioinformatics (Oxford, England)\| PubMed ID: 18728045	2008
Gene expression profiling in Daphnia magna part I: concentration-dependent profiles provide support for the No Observed Transcriptional Effect Level. Environmental science & technology\| PubMed ID: 18767695	2008
Gene expression profiling in Daphnia magna, part II: validation of a copper specific gene expression signature with effluent from two copper mines in California. Environmental science & technology\| PubMed ID: 18767696	2008
Batch Blast Extractor: an automated blastx parser application. BMC genomics\| PubMed ID: 18831775	2008
ILOOP--a web application for two-channel microarray interwoven loop design. BMC genomics\| PubMed ID: 18831776	2008
Self-assembly of Epstein-Barr virus capsids. Journal of virology\| PubMed ID: 19158247	2009
Sublethal effects of subacute exposure to RDX (1,3,5-trinitro-1,3,5-triazine) in the northern bobwhite (Colinus virginianus). Environmental toxicology and chemistry / SETAC\| PubMed ID: 19173548	2009
Asymmetric enrichment of PIE-1 in the Caenorhabditis elegans zygote mediated by binary counterdiffusion. The Journal of cell biology\| PubMed ID: 19221192	2009
Global gene expression in rat brain and liver after oral exposure to the explosive hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX). Chemical research in toxicology\| PubMed ID: 19239275	2009
Endocrine disrupting chemicals in fish: developing exposure indicators and predictive models of effects based on mechanism of action. Aquatic toxicology (Amsterdam, Netherlands)\| PubMed ID: 19261338	2009
Neurochemical and electrophysiological diagnosis of reversible neurotoxicity in earthworms exposed to sublethal concentrations of CL-20. Environmental science and pollution research international\| PubMed ID: 19274471	2010
RDX and miRNA Expression in B6C3F1 Mice. Environmental health perspectives\| PubMed ID: 19337499	2009
Neurotoxicogenomic investigations to assess mechanisms of action of the munitions constituents RDX and 2,6-DNT in Northern bobwhite (Colinus virginianus). Toxicological sciences : an official journal of the Society of Toxicology\| PubMed ID: 19417177	2009
How does graphene grow? Easy access to well-ordered graphene films. Small (Weinheim an der Bergstrasse, Germany)\| PubMed ID: 19565616	2009
Biomarker discovery and transcriptomic responses in Daphnia magna exposed to munitions constituents. Environmental science & technology\| PubMed ID: 19569350	2009
Staphylococcal enterotoxin A induces small clusters of HLA-DR1 on B cells. PloS one\| PubMed ID: 19587800	2009
An ensemble learning approach to reverse-engineering transcriptional regulatory networks from time-series gene expression data. BMC genomics\| PubMed ID: 19594885	2009
Gene expression responses in male fathead minnows exposed to binary mixtures of an estrogen and antiestrogen. BMC genomics\| PubMed ID: 19594897	2009
I. Effects of a dopamine receptor antagonist on fathead minnow, Pimephales promelas, reproduction. Ecotoxicology and environmental safety\| PubMed ID: 19783049	2010
II: Effects of a dopamine receptor antagonist on fathead minnow dominance behavior and ovarian gene expression in the fathead minnow and zebrafish. Ecotoxicology and environmental safety\| PubMed ID: 19896709	2010
Differentiation of pluripotent stem cells on multiwalled carbon nanotubes. Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual Conference\| PubMed ID: 19964415	2009
Supramolecular assemblies formed on an epitaxial graphene superstructure. Angewandte Chemie (International ed. in English)\| PubMed ID: 20135656	2010
Influence of ovarian stage on transcript profiles in fathead minnow (Pimephales promelas) ovary tissue. Aquatic toxicology (Amsterdam, Netherlands)\| PubMed ID: 20363515	2010
From raw materials to validated system: the construction of a genomic library and microarray to interpret systemic perturbations in Northern bobwhite. Physiological genomics\| PubMed ID: 20406850	2010
A novel gene network inference algorithm using predictive minimum description length approach. BMC systems biology\| PubMed ID: 20522257	2010
Fathead minnow steroidogenesis: in silico analyses reveals tradeoffs between nominal target efficacy and robustness to cross-talk. BMC systems biology\| PubMed ID: 20579396	2010
MEX-5 enrichment in the C. elegans early embryo mediated by differential diffusion. Development (Cambridge, England)\| PubMed ID: 20627961	2010
Dimethylaminopyridine derivatives of lupane triterpenoids are potent disruptors of mitochondrial structure and function. Bioorganic & medicinal chemistry\| PubMed ID: 20673631	2010
Proceedings of the 2010 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. BMC bioinformatics\| PubMed ID: 20946592	2010
Quail Genomics: a knowledgebase for Northern bobwhite. BMC bioinformatics\| PubMed ID: 20946596	2010
Time lagged information theoretic approaches to the reverse engineering of gene regulatory networks. BMC bioinformatics\| PubMed ID: 20946602	2010
Reverse engineering adverse outcome pathways. Environmental toxicology and chemistry / SETAC\| PubMed ID: 20963852	2011
Investigations of transcript expression in fathead minnow (Pimephales promelas) brain tissue reveal toxicological impacts of RDX exposure. Aquatic toxicology (Amsterdam, Netherlands)\| PubMed ID: 20965580	2011
In silico identification of conserved microRNAs and their target transcripts from expressed sequence tags of three earthworm species. Computational biology and chemistry\| PubMed ID: 21030313	2010
Generation, analysis and functional annotation of expressed sequence tags from the sheepshead minnow (Cyprinodon variegatus). BMC genomics\| PubMed ID: 21047385	2010
Identification and optimization of classifier genes from multi-class earthworm microarray dataset. PloS one\| PubMed ID: 21060837	2010
Systems biology: leading the revolution in ecotoxicology. Environmental toxicology and chemistry / SETAC\| PubMed ID: 21072840	2011
In vitro gene regulatory networks predict in vivo function of liver. BMC systems biology\| PubMed ID: 21073692	2010
A new approach to construct pathway connected networks and its application in dose responsive gene expression profiles of rat liver regulated by 2,4DNT. BMC genomics\| PubMed ID: 21143786	2010
Design, validation and annotation of transcriptome-wide oligonucleotide probes for the oligochaete annelid Eisenia fetida. PloS one\| PubMed ID: 21170345	2010
Analysis of common and specific mechanisms of liver function affected by nitrotoluene compounds. PloS one\| PubMed ID: 21346803	2011
Predictive minimum description length principle approach to inferring gene regulatory networks. Advances in experimental medicine and biology\| PubMed ID: 21431544	2011
Downstream bioengineering of ACE chromosomes for incorporation of site-specific recombination cassettes. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 21431724	2011
Effects of a short-term exposure to the fungicide prochloraz on endocrine function and gene expression in female fathead minnows (Pimephales promelas). Aquatic toxicology (Amsterdam, Netherlands)\| PubMed ID: 21470553	2011
Conserved toxic responses across divergent phylogenetic lineages: a meta-analysis of the neurotoxic effects of RDX among multiple species using toxicogenomics. Ecotoxicology (London, England)\| PubMed ID: 21516383	2011
Genomic investigation of year-long and multigenerational exposures of fathead minnow to the munitions compound RDX. Environmental toxicology and chemistry / SETAC\| PubMed ID: 21538488	2011
Evaluation of natural and nitramine binding energies to 3-D models of the S1S2 domains in the N-methyl-D-aspartate receptor. Journal of molecular modeling\| PubMed ID: 21735122	2012
Assessment of chemical mixtures and groundwater effects on Daphnia magna transcriptomics. Environmental science & technology\| PubMed ID: 21744839	2012
Building quantitative prediction models for tissue residue of two explosives compounds in earthworms from microarray gene expression data. Environmental science & technology\| PubMed ID: 21776976	2012
Ecotoxicogenomics to support ecological risk assessment: a case study with bisphenol A in fish. Environmental science & technology\| PubMed ID: 21786754	2012
First-passage time analysis of a one-dimensional diffusion-reaction model: application to protein transport along DNA. BMC bioinformatics\| PubMed ID: 22165905	2011
Proceedings of the 2011 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. Introduction. BMC bioinformatics\| PubMed ID: 22165918	2011
RefNetBuilder: a platform for construction of integrated reference gene regulatory networks from expressed sequence tags. BMC bioinformatics\| PubMed ID: 22166047	2011
Gene expression analysis of CL-20-induced reversible neurotoxicity reveals GABA(A) receptors as potential targets in the earthworm Eisenia fetida. Environmental science & technology\| PubMed ID: 22191394	2012
A graphical systems model and tissue-specific functional gene sets to aid transcriptomic analysis of chemical impacts on the female teleost reproductive axis. Mutation research\| PubMed ID: 22227403	2012
CAPRG: sequence assembling pipeline for next generation sequencing of non-model organisms. PloS one\| PubMed ID: 22319566	2012
Phase I trial of the combination of flavopiridol and imatinib mesylate in patients with Bcr-Abl+ hematological malignancies. Cancer chemotherapy and pharmacology\| PubMed ID: 22349810	2012
Learning the structure of gene regulatory networks from time series gene expression data. BMC genomics\| PubMed ID: 22369588	2011
A systems toxicology approach to elucidate the mechanisms involved in RDX species-specific sensitivity. Environmental science & technology\| PubMed ID: 22697906	2012
Short-term study investigating the estrogenic potency of diethylstilbesterol in the fathead minnow (Pimephales promelas). Environmental science & technology\| PubMed ID: 22708615	2012
State Space Model with hidden variables for reconstruction of gene regulatory networks. BMC systems biology\| PubMed ID: 22784622	2011
Transfer-free electrical insulation of epitaxial graphene from its metal substrate. Nano letters\| PubMed ID: 22871144	2012
Multiple environmental stressors elicit complex interactive effects in the western fence lizard (Sceloporus occidentalis). Ecotoxicology (London, England)\| PubMed ID: 22975894	2012
Motif Participation by Genes in E. coli Transcriptional Networks. Frontiers in physiology\| PubMed ID: 23055976	2012
Interspecific effects of 4A-DNT (4-amino-2,6-dinitrotoluene) and RDX (1,3,5-trinitro-1,3,5-triazine) in Japanese quail, Northern bobwhite, and Zebra finch. Ecotoxicology (London, England)\| PubMed ID: 23161369	2013
Delayed myelosuppression with acute exposure to hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) and environmental degradation product hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX) in ra... Toxicology and applied pharmacology\| PubMed ID: 23219714	2013
The mitochondrial fission adaptors Caf4 and Mdv1 are not functionally equivalent. PloS one\| PubMed ID: 23300936	2012
A phase I trial of vorinostat and alvocidib in patients with relapsed, refractory, or poor prognosis acute leukemia, or refractory anemia with excess blasts-2. Clinical cancer research : an official journal of the American Association for Cancer Research\| PubMed ID: 23515411	2013
Surface-sensitive conductivity measurement using a micro multi-point probe approach. The Review of scientific instruments\| PubMed ID: 23556824	2013
Current Perspectives on the Use of Alternative Species in Human Health and Ecological Hazard Assessments. Environmental health perspectives\| PubMed ID: 23771518	2013
The good, the bad, and the toxic: approaching hormesis in Daphnia magna exposed to an energetic compound. Environmental science & technology\| PubMed ID: 23898970	2013
Vital imaging of multicellular spheroids. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 24052355	2014
Differential reconstructed gene interaction networks for deriving toxicity threshold in chemical risk assessment. BMC bioinformatics\| PubMed ID: 24268022	2013
Effects of BDE-209 contaminated sediments on zebrafish development and potential implications to human health. Environment international\| PubMed ID: 24317228	2014
Using transcriptomic tools to evaluate biological effects across effluent gradients at a diverse set of study sites in Minnesota, USA. Environmental science & technology\| PubMed ID: 24433150	2014
Identification of biomarkers that distinguish chemical contaminants based on gene expression profiles. BMC genomics\| PubMed ID: 24678894	2014
Differential effects and potential adverse outcomes of ionic silver and silver nanoparticles in vivo and in vitro. Environmental science & technology\| PubMed ID: 24684273	2014
Integrated approach to explore the mechanisms of aromatase inhibition and recovery in fathead minnows (Pimephales promelas). General and comparative endocrinology\| PubMed ID: 24704562	2014
Endocrinology: advances through omics and related technologies. General and comparative endocrinology\| PubMed ID: 24726988	2014
M13 bacteriophage production for large-scale applications. Bioprocess and biosystems engineering\| PubMed ID: 24728964	2014
Validation of a genomics-based hypothetical adverse outcome pathway: 2,4-dinitrotoluene perturbs PPAR signaling thus impairing energy metabolism and exercise endurance. Toxicological sciences : an official journal of the Society of Toxicology\| PubMed ID: 24893713	2014
Coral-zooxanthellae meta-transcriptomics reveals integrated response to pollutant stress. BMC genomics\| PubMed ID: 25016412	2014
DNA binding and condensation properties of the herpes simplex virus type 1 triplex protein VP19C. PloS one\| PubMed ID: 25121591	2014
New derivatives of lupane triterpenoids disturb breast cancer mitochondria and induce cell death. Bioorganic & medicinal chemistry\| PubMed ID: 25245673	2014
Top-level dynamics and the regulated gene response of feed-forward loop transcriptional motifs. Physical review. E, Statistical, nonlinear, and soft matter physics\| PubMed ID: 25314472	2014
Natural Variation in Fish Transcriptomes: Comparative Analysis of the Fathead Minnow (Pimephales promelas) and Zebrafish (Danio rerio). PloS one\| PubMed ID: 25493933	2014
Systematic Omics Analysis Review (SOAR) tool to support risk assessment. PloS one\| PubMed ID: 25531884	2014
MicroRNA and messenger RNA profiling reveals new biomarkers and mechanisms for RDX induced neurotoxicity. BMC genomics\| PubMed ID: 25559034	2014
Systems toxicology identifies mechanistic impacts of 2-amino-4,6-dinitrotoluene (2A-DNT) exposure in Northern Bobwhite. BMC genomics\| PubMed ID: 26251320	2015
Aub and Ago3 Are Recruited to Nuage through Two Mechanisms to Form a Ping-Pong Complex Assembled by Krimper. Molecular cell\| PubMed ID: 26295961	2015
Ecotoxicogenomics: Microarray interlaboratory comparability. Chemosphere\| PubMed ID: 26363320	2016
Adverse Outcome Pathways for Regulatory Applications: Examination of Four Case Studies With Different Degrees of Completeness and Scientific Confidence. Toxicological sciences : an official journal of the Society of Toxicology\| PubMed ID: 26500288	2015
Ionotropic GABA receptor antagonism-induced adverse outcome pathways for potential neurotoxicity biomarkers. Biomarkers in medicine\| PubMed ID: 26508561	2015
Transcriptional Network Growing Models Using Motif-Based Preferential Attachment. Frontiers in bioengineering and biotechnology\| PubMed ID: 26528473	2015
Relating suborganismal processes to ecotoxicological and population level endpoints using a bioenergetic model. Ecological applications : a publication of the Ecological Society of America\| PubMed ID: 26552275	2015
A weight of evidence assessment approach for adverse outcome pathways. Regulatory toxicology and pharmacology : RTP\| PubMed ID: 26724267	2016
Predicting Fecundity of Fathead Minnows (Pimephales promelas) Exposed to Endocrine-Disrupting Chemicals Using a MATLAB®-Based Model of Oocyte Growth Dynamics. PloS one\| PubMed ID: 26756814	2016
Fish connectivity mapping: linking chemical stressors by their mechanisms of action-driven transcriptomic profiles. BMC genomics\| PubMed ID: 26822894	2016
Tissue explant co-culture model of the hypothalamic-pituitary-gonadal-liver axis of the fathead minnow (Pimephales promelas) as a predictive tool for endocrine disruption. Environmental toxicology and chemistry / SETAC\| PubMed ID: 26931821	2016
Predicting chemical bioavailability using microarray gene expression data and regression modeling: A tale of three explosive compounds. BMC genomics\| PubMed ID: 26956490	2016
The Next Generation of Risk Assessment Multiyear Study- Highlights of Findings, Applications to Risk Assessment and Future Directions. Environmental health perspectives\| PubMed ID: 27091369	2016
Daphnia magna's sense of competition: intra-specific interactions (ISI) alter life history strategies and increase metals toxicity. Ecotoxicology (London, England)\| PubMed ID: 27151402	2016
Effects of the anti-microbial contaminant triclocarban, and co-exposure with the androgen 17β-trenbolone, on reproductive function and ovarian transcriptome of the fathead minnow (Pimephales... Environmental toxicology and chemistry / SETAC\| PubMed ID: 27312088	2016
Novel enhanced applications of QSPR models: Temperature dependence of aqueous solubility. Journal of computational chemistry\| PubMed ID: 27338156	2016