The NIH Comparative Genomics Resource: addressing the promises and challenges of comparative genomics on human health

K Bornstein, G Gryan, ES Chang, A Marchler-Bauer… - BMC genomics, 2023 - Springer
Comparative genomics is the comparison of genetic information within and across
organisms to understand the evolution, structure, and function of genes, proteins, and non …

Weight of evidence for cross-species conservation of androgen receptor-based biological activity

SMF Vliet, KJ Markey, SG Lynn, A Adetona… - Toxicological …, 2023 - academic.oup.com
Abstract The US Environmental Protection Agency's Endocrine Disruptor Screening
Program (EDSP) is tasked with assessing chemicals for their potential to perturb endocrine …

Evidence for cross species extrapolation of mammalian-based high-throughput screening assay results

CA LaLone, DL Villeneuve, JA Doering… - … science & technology, 2018 - ACS Publications
High-throughput screening (HTS) and computational technologies have emerged as
important tools for chemical hazard identification. The US Environmental Protection Agency …

Neuropathy target esterase (NTE/PNPLA6) and organophosphorus compound-induced delayed neurotoxicity (OPIDN)

RJ Richardson, JK Fink, P Glynn, RB Hufnagel… - Advances in …, 2020 - Elsevier
Systemic inhibition of neuropathy target esterase (NTE) with certain organophosphorus (OP)
compounds produces OP compound-induced delayed neurotoxicity (OPIDN), a distal …

Repertoire-scale measures of antigen binding

R Arora, R Arnaout - … of the National Academy of Sciences, 2022 - National Acad Sciences
Antibodies and T cell receptors (TCRs) are the fundamental building blocks of adaptive
immunity. Repertoire-scale functionality derives from their epitope-binding properties, just as …

Defining the biologically plausible taxonomic domain of applicability of an adverse outcome pathway: A case study linking nicotinic acetylcholine receptor activation to …

MA Jensen, DJ Blatz, CA LaLone - … Toxicology and Chemistry, 2023 - Wiley Online Library
For the majority of developed adverse outcome pathways (AOPs), the taxonomic domain of
applicability (tDOA) is typically narrowly defined with a single or a handful of species …

Explainablefold: Understanding alphafold prediction with explainable ai

J Tan, Y Zhang - Proceedings of the 29th ACM SIGKDD Conference on …, 2023 - dl.acm.org
This paper presents ExplainableFold (xFold), which is an Explainable AI framework for
protein structure prediction. Despite the success of AI-based methods such as AlphaFold …

Integrative computational approaches to inform relative bioaccumulation potential of per-and polyfluoroalkyl substances across species

W Cheng, JA Doering, C LaLone, C Ng - Toxicological Sciences, 2021 - academic.oup.com
Predictive toxicology is increasingly reliant on innovative computational methods to address
pressing questions in chemicals assessment. Of importance is the evaluation of contaminant …

Synthesis, molecular docking, and biological evaluation of 3-oxo-2-tolylhydrazinylidene-4, 4, 4-trifluorobutanoates bearing higher and natural alcohol moieties as new …

GF Makhaeva, NA Elkina, EV Shchegolkov… - Bioorganic …, 2019 - Elsevier
To search for effective and selective inhibitors of carboxylesterase (CES), a series of 3-oxo-2-
tolylhydrazinylidene-4, 4, 4-trifluorobutanoates bearing higher or natural alcohol moieties …

[HTML][HTML] Homology models of mouse and rat estrogen receptor-α ligand-binding domain created by in silico mutagenesis of a human template: molecular docking with …

TL Gonzalez, JM Rae, JA Colacino… - Computational …, 2019 - Elsevier
Crystal structures exist for human, but not rodent, estrogen receptor-α ligand-binding domain
(ERα-LBD). Consequently, rodent studies involving binding of compounds to ERα-LBD are …