Using what we already have: uncovering new drug repurposing strategies in existing omics data

JM Pulley, JP Rhoads, RN Jerome… - Annual review of …, 2020 - annualreviews.org
The promise of drug repurposing is to accelerate the translation of knowledge to treatment of
human disease, bypassing common challenges associated with drug development to be …

Advancing drug safety science by integrating molecular knowledge with post‐marketing adverse event reports

TG Soldatos, S Kim, S Schmidt… - CPT …, 2022 - Wiley Online Library
Promising drug development efforts may frequently fail due to unintended adverse reactions.
Several methods have been developed to analyze such data, aiming to improve …

A network paradigm predicts drug synergistic effects using downstream protein–protein interactions

JL Wilson, E Steinberg, R Racz… - CPT …, 2022 - Wiley Online Library
In some cases, drug combinations affect adverse outcome phenotypes by binding the same
protein; however, drug‐binding proteins are associated through protein–protein interaction …

From random to predictive: a context-specific interaction framework improves selection of drug protein–protein interactions for unknown drug pathways

JL Wilson, A Gravina, K Grimes - Integrative Biology, 2022 - academic.oup.com
With high drug attrition, protein–protein interaction (PPI) network models are attractive as
efficient methods for predicting drug outcomes by analyzing proteins downstream of drug …

Leveraging human genetics to identify safety signals prior to drug marketing approval and clinical use

RN Jerome, MM Joly, N Kennedy, JK Shirey-Rice… - Drug safety, 2020 - Springer
Introduction When a new drug or biologic product enters the market, its full spectrum of side
effects is not yet fully understood, as use in the real world often uncovers nuances not …

Preclinical side effect prediction through pathway engineering of protein interaction network models

M Alidoost, JL Wilson - CPT: Pharmacometrics & Systems …, 2024 - Wiley Online Library
Modeling tools aim to predict potential drug side effects, although they suffer from imperfect
performance. Specifically, protein–protein interaction models predict drug effects from …

Beta-2 adrenergic receptor agonism alters astrocyte phagocytic activity and has potential applications to psychiatric disease

ER Bowen, P DiGiacomo, HP Fraser, K Guttenplan… - Discover Mental …, 2023 - Springer
Schizophrenia is a debilitating condition necessitating more efficacious therapies. Previous
studies suggested that schizophrenia development is associated with aberrant synaptic …

Drug target, class level, and PathFX pathway information share utility for machine learning prediction of common drug-induced side effects

HJ Liu, JL Wilson - Frontiers in Drug Safety and Regulation, 2023 - frontiersin.org
Introduction: Development of drugs often fails due to toxicity and intolerable side effects.
Recent advancements in the scientific community have rendered it possible to leverage …

PhenClust, a standalone tool for identifying trends within sets of biological phenotypes using semantic similarity and the Unified Medical Language System …

JL Wilson, M Wong, N Stepanov, D Petkovic… - JAMIA …, 2021 - academic.oup.com
Objectives We sought to cluster biological phenotypes using semantic similarity and create
an easy-to-install, stable, and reproducible tool. Materials and Methods We generated …

PathFXweb: a web application for identifying drug safety and efficacy phenotypes

JL Wilson, M Wong, A Chalke, N Stepanov… - …, 2019 - academic.oup.com
Limited efficacy and intolerable safety limit therapeutic development and identification of
potential liabilities earlier in development could significantly improve this process …