Works Published in 2023
Displaying all 20 works
Sorted by most recent date added to the index first, which may not be the same as publication date order.
2023 journal article
CTD tetramers: a new online tool that computationally links curated chemicals, genes, phenotypes, and diseases to inform molecular mechanisms for environmental health
TOXICOLOGICAL SCIENCES, 195(2), 155–168.
author keywords: database tool; chemical-disease pathway; molecular mechanisms; environmental health; knowledge gaps; adverse outcome pathway
academic.oup.com (publisher PDF)
Source: Web Of Science
Added: April 1, 2024
2023 article
Ten years of using key characteristics of human carcinogens to organize and evaluate mechanistic evidence in IARC Monographs on the identification of carcinogenic hazards to humans: Patterns and associations
Rusyn, I., & Wright, F. A. (2023, December 23). TOXICOLOGICAL SCIENCES.
author keywords: cancer risk assessment; risk assessment; safety evaluation
TL;DR:
Increased availability of systemized data streams, such as human in vitro data, would provide the basis for confident conclusions about both positive and negative associations and constitute relative contributions of various sources of weight in expert judgments.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
16. Peace, Justice and Strong Institutions
(OpenAlex)
Source: Web Of Science
Added: January 29, 2024
2023 journal article
Uncovering the common factors of chemical exposure and behavior: Evaluating behavioral effects across a testing battery using factor analysis
NEUROTOXICOLOGY, 99, 264–273.
author keywords: EDCs; Endocrine disruptors; Neurodevelopment; Neurotoxicology; Organophosphate; Flame retardants; Vole; Behavior
Sources: Web Of Science, NC State University Libraries
Added: December 18, 2023
2023 article
From big data to big insights: statistical and bioinformatic approaches for exploring the lipidome
Chappel, J. R., Kirkwood-Donelson, K. I., Reif, D. M., & Baker, E. S. (2023, October 25). ANALYTICAL AND BIOANALYTICAL CHEMISTRY, Vol. 10.
author keywords: Lipidomics; Univariate; Multivariate; Pathway; Enrichment
TL;DR:
A framework for guiding lipidomic data analysis to promote a greater assessment of lipidomic results, while understanding potential advantages and weaknesses along the way is provided.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy
(OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: November 20, 2023
2023 journal article
Estimation of the Half-Lives of Recently Detected Per- and Polyfluorinated Alkyl Ethers in an Exposed Community
ENVIRONMENTAL SCIENCE & TECHNOLOGY, 57(41), 15348–15355.
author keywords: exposure; PFAS; water; humans; environment; toxicokinetic modeling
TL;DR:
These fluoroethers had biological half-Lives longer than published half-lives for PFHxA and PFHpA but shorter than those for PFOA andPFOS (800-1200 days).
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: November 6, 2023
2023 article
Deep autoencoder-based behavioral pattern recognition outperforms standard statistical methods in high-dimensional zebrafish studies
Green, A. J., Truong, L., Thunga, P., Leong, C., Hancock, M., Tanguay, R. L., & Reif, D. M. (2023, September 17).
TL;DR:
It is demonstrated that a deep autoencoder using raw behavioral tracking data from zebrafish toxicity screens outperforms conventional statistical methods, resulting in a comprehensive evaluation of behavioral data.
(via Semantic Scholar)
Source: ORCID
Added: September 18, 2023
2023 article
Application of Ion Mobility Spectrometry-Mass Spectrometry for Compositional Characterization and Fingerprinting of a Library of Diverse Crude Oil Samples
Cordova, A. C., Dodds, J. N., Tsai, H.-H. D., Lloyd, D. T., Roman-Hubers, A. T., Wright, F. A., … Rusyn, I. (2023, August 22). ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY.
author keywords: Analytical chemistry; Environmental chemistry; Hazard; risk assessment; Mixtures; Oil spills
TL;DR:
It is found that IMS-MS data has complementary advantages for fingerprinting and characterization of diverse crude oils and that the proposed polycyclic aromatic hydrocarbon (PAH) biomarkers can be used for rapid exposure characterization.
(via Semantic Scholar)
Source: Web Of Science
Added: September 5, 2023
2023 journal article
Analysis of reproducibility and robustness of a renal proximal tubule microphysiological system OrganoPlate 3-lane 40 for in vitro studies of drug transport and toxicity
TOXICOLOGICAL SCIENCES.
author keywords: kidney; in vitro models; validation
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(OpenAlex)
Source: Web Of Science
Added: September 5, 2023
2023 article
Aggregated Molecular Phenotype Scores: Enhancing Assessment and Visualization of Mass Spectrometry Imaging Data for Tissue-Based Diagnostics
Chappel, J. R., King, M. E., Fleming, J., Eberlin, L. S., Reif, D. M., & Baker, E. S. (2023, August 14). ANALYTICAL CHEMISTRY, Vol. 8.
TL;DR:
Initial comparisons of cancerous human tissues to their normal or benign counterparts illustrated that AMP scores distinguished phenotypes with high accuracy, sensitivity, and specificity, leading to high diagnostic accuracy and interpretability.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID
Added: August 28, 2023
2023 journal article
Integrative Chemical-Biological Grouping of Complex High Production Volume Substances from Lower Olefin Manufacturing Streams
TOXICS, 11(7).
author keywords: UVCB; petroleum; regulatory risk assessment; read-across; ion mobility spectrometry
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
11. Sustainable Cities and Communities
(Web of Science)
Source: Web Of Science
Added: August 14, 2023
2023 article
Simultaneous modeling of multivariate heterogeneous responses and heteroskedasticity via a two-stage composite likelihood
Ting, B. W. W., Wright, F. A., & Zhou, Y.-H. (2023, May 22). BIOMETRICAL JOURNAL.
author keywords: heterogeneity; heteroskedasticity; multivariate statistics; precision medicine; prediction
TL;DR:
A previous method for multivariate probit estimation is built upon using a two‐stage composite likelihood that exhibits favorable computational time while retaining attractive parameter estimation properties and has the potential to better leverage genomics data and provide interpretable inference for pleiotropy.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: June 12, 2023
2023 journal article
Genetic Modifiers of Cystic Fibrosis Lung Disease Severity
AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE, 207(10), 1324–1333.
author keywords: cystic fibrosis; whole-genome sequencing; lung disease severity; GWAS/TWAS; pathway analyses
MeSH headings : Humans; Cystic Fibrosis / genetics; Genome-Wide Association Study / methods; Cystic Fibrosis Transmembrane Conductance Regulator / genetics; Patient Acuity; Lung; Microtubule-Associated Proteins / genetics
TL;DR:
This pre- modulator genomic, transcriptomic, and pathway association study of 7,840 pwCF will facilitate mechanistic and post-modulator genetic studies and, development of novel therapeutics for CF lung disease.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Source: Web Of Science
Added: June 12, 2023
2023 journal article
Pharmacogenomic Analyses Implicate B Cell Developmental Status and MKL1 as Determinants of Sensitivity toward Anti-CD20 Monoclonal Antibody Therapy
CELLS, 12(12).
author keywords: rituximab (Rituxan (R)); ofatumumab (Arzerra (R),& nbsp;Kesimpta (R)); obinutuzumab (Gazyva (R)); CD20 (MS4A1); MKL1 (MRTFA); TGFB1
TL;DR:
Results suggest that the efficacy of anti-CD20 mAb therapy may be influenced by B cell developmental status as well as polymorphism in the MKL1 gene.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: June 8, 2023
2023 article
Utilizing Aggregated Molecular Phenotype (AMP) Scores to Visualize Simultaneous Molecular Changes in Mass Spectrometry Imaging Data
Chappel, J. R., King, M. E., Fleming, J., Eberlin, L. S., Reif, D. M., & Baker, E. S. (2023, June 5).
TL;DR:
Initial comparisons of cancerous human tissues to normal or benign counterparts illustrated that AMP scores distinguished phenotypes with high accuracy, sensitivity, and specificity, leading to high diagnostic accuracy and interpretability of predictive models.
(via Semantic Scholar)
Source: ORCID
Added: June 6, 2023
2023 article
A tiered testing strategy based on in vitro phenotypic and transcriptomic data for selecting representative petroleum UVCBs for toxicity evaluation in vivo
Tsai, H.-H. D., House, J. S., Wright, F. A., Chiu, W. A., & Rusyn, I. (2023, April 20). TOXICOLOGICAL SCIENCES.
author keywords: transcriptomic; petroleum; grouping; dose-response; HTTr; NAMs
MeSH headings : Humans; Transcriptome; Petroleum / toxicity; Endothelial Cells; Gene Expression Profiling; Cell Line
TL;DR:
This study found that two cell types-iPSC-derived-hepatocytes and -cardiomyocytes-contributed the most informative and protective PODs and may be used to inform selection of representative petroleum UVCBs for further toxicity evaluation in vivo.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
11. Sustainable Cities and Communities
(Web of Science)
Source: Web Of Science
Added: May 22, 2023
2023 journal article
MKX-AS1 Gene Expression Associated with Variation in Drug Response to Oxaliplatin and Clinical Outcomes in Colorectal Cancer Patients
PHARMACEUTICALS, 16(5).
author keywords: precision medicine; colorectal cancer; pharmacogenomics; oxaliplatin; lncRNA's; antisense
TL;DR:
An association between MKX-AS1 and MKX expression status that could be useful as a prognostic marker of response to OXAL and potential patient outcomes in CRC is suggested.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: May 19, 2023
2023 journal article
RYK Gene Expression Associated with Drug Response Variation of Temozolomide and Clinical Outcomes in Glioma Patients
PHARMACEUTICALS, 16(5).
author keywords: GWAS; chemotherapy; sensitivity; resistance; glioma; drug response; temozolomide; knockdown; overexpression; pharmacogenomics; gene expression; RYK
TL;DR:
The findings suggest that RYK expression may serve as an important prognostic or predictor of TMZ response and survival for glioma patients and a combination of RyK expression and MGMT status could serve as a additional biomarker for improved survival.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Sources: ORCID, Web Of Science
Added: May 12, 2023
2023 journal article
Legacy and emerging per- and polyfluoroalkyl substances suppress the neutrophil respiratory burst
JOURNAL OF IMMUNOTOXICOLOGY, 20(1).
author keywords: Innate immunity; neutrophils; per- and polyfluoroalkyl substances (PFAS); reactive oxygen species; zebrafish
MeSH headings : Animals; Humans; Zebrafish; Neutrophils; Reactive Oxygen Species; Respiratory Burst; Fluorocarbons / toxicity; Alkanesulfonic Acids / toxicity; Environmental Pollutants
TL;DR:
This report is the first to demonstrate that these PFASs suppress neutrophil function and support the utility of employing zebrafish larvae and a human cell line as screening tools to identify chemicals that may suppress human immune function.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: February 15, 2023
2023 article
Bayesian matrix completion for hypothesis testing
Jin, B., Dunson, D. B., Rager, J. E., Reif, D. M., Engel, S. M., & Herring, A. H. (2023, March 15). JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES C-APPLIED STATISTICS, Vol. 3.
author keywords: Bayesian hierarchical model; bioactivity profiles; chemical screening; heteroscedasticity; latent factor models; ToxCast; Tox21
TL;DR:
This paper makes a novel attempt in toxicology to simultaneously model heteroscedastic errors and a nonparametric mean function, leading to a broader definition of activity whose need has been suggested by toxicologists.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
11. Sustainable Cities and Communities
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: January 4, 2023
2023 journal article
TCDD alters essential transcriptional regulators of osteogenic differentiation in multipotent mesenchymal stem cells
Toxicological Sciences.
author keywords: mesenchymal stem cell; AhR; cell differentiation
MeSH headings : Humans; Osteogenesis / genetics; Polychlorinated Dibenzodioxins / toxicity; Cell Differentiation; Fibroblast Growth Factors / metabolism; Mesenchymal Stem Cells / metabolism; Cells, Cultured; Osteoblasts
TL;DR:
A global transcriptomic landscape during early, intermediate, and apical stages of osteogenic differentiation in vitro in response to TCDD is established to identify novel pathways and transcription factors that may facilitate a better understanding of the osteoblast differentiation process, perturbation by exogenous agents, and potential intervention strategies targeting those specific pathways.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: ORCID
Added: November 12, 2022
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