Integrating computational tools and human cell-based NAMs for human-relevant risk assessments

September 3, 2024

Our first September 2024 webinar focuses on novel methods to assess relevant risk in humans with Les Recio, PhD, DABT, ATS, and Rasim Barutcu, PhD. We believe these approaches are a positive and proven way forward for expediting research and reducing the use of animals. While we do not offer a training course for integrating these tools, we do offer consulting services. Feel free to email me directly for more information.

What you will learn:

  • Results from case studies performed using next generation toxicology tools. 
  • Scalable solution for managing the expanding volume of toxicogenomic data.
  • How to reduce the reliance on qualitative/hazard identification bacterial and rodent based assays with dose-response data on humans.

Watch the Recording

About our Speakers:

Rasim Barutcu, PhD.

Dr. Barutcu is a Senior Bioinformatician at ScitoVation LLC, specializing in toxicogenomics and computational biology. With over a decade of experience as a molecular biologist and as a data scientist, Dr. Barutcu has established himself as an expert in analyzing large-scale high-throughput omics data, particularly in the fields of RNA biology, genomics, and toxicology. Dr. Barutcu’s recent work has focused on applying advanced bioinformatics and machine learning techniques to toxicological research. His publications in the last two years demonstrate his expertise in integrating gene expression and splicing dynamics across dose-response studies, evaluating genotoxicity biomarkers, and investigating the mode of action for various toxicants using transcriptomics. He has made significant contributions to understanding the effects of chemicals such as TCDD and PFAS on liver toxicity and circadian disruption, as well as advancing new approach methodologies for inhalation risk assessment. While currently specializing in toxicogenomics, Dr.Barutcu’s skills are highly transferable across various omics disciplines. While specializing in toxicogenomics, Dr. Barutcu’s expertise extends broadly across various omics disciplines. His earlier work, published in high-impact journals, showcases his deep understanding of nuclear architecture, chromatin organization, and RNA biology. Dr. Barutcu has made significant contributions to mapping nuclear domain-associated transcripts, investigating the role chromosome organization in cancer, cellular differentiation and n various cellular contexts. This comprehensive background in genomics, epigenomics, and RNA biology, combined with his recent focus on toxicology, uniquely positions him to tackle complex challenges. His ability to integrate diverse omics datasets and apply advanced computational techniques allows for nuanced insights into biological mechanisms across different fields, from fundamental cell biology to applied toxicology.

Leslie Recio, PhD, DABT, ATS

Dr. Leslie Recio, DABT, Chief Scientific Officer at ScitoVation has thirty years of experience in investigative toxicology research in the areas of mutagenesis, toxicogenomics and regulatory based genotoxicity assessment using in vitro cell culture methods, in vivo studies in rodent models, and toxicogenomics. He received both his M.S. and PhD in Toxicology from the University of Kentucky. Dr. Recio has published more than 110 manuscripts in the peer-reviewed literature examining mode-of-action, risk assessment based genetic toxicology studies, identification of biomarkers of cytotoxicity, genotoxicity, and mutagenicity. Dr. Recio served on board of Councilors for the North Carolina Chapter of the Society of Toxicology (2006-2008), and in 2006 was the President of the Genetic and Environmental Mutagenesis Society. In 2010, he was appointed to the SOT Council on Diversity Initiatives and in 2012 elected President for the SOT’s Hispanic Organization for Toxicologist. In 2012- present serves on OECD Expert Group charged with revising OECD genetic toxicology test guidelines. Dr. Recio serves on the Editorial Board for Mutation Research – Reviews in Mutation Research and was an Editorial Board Member and an Associate Editor for Toxicological Sciences from 2010-2019.

Abstract:

The regulatory genetic toxicology test battery developed decades ago (1997) was developed as a set of screening short term bioassays for use as hazard identification and a qualitative assessment of genotoxicity. The in vitro genetic toxicology test battery uses DNA repair defective bacterial cells, p53 defective rodent cells, combined with a highly induced rat liver enzyme preparation that lacks Phase II metabolism, the primary mechanisms that terminates xenobiotic effects in humans. There is no requirement to assess gene mutation in human cells. Although in vitro results can be followed up by MTD hazard identification rodent studies, there is a concerted effort to reduce reliance on animals and in certain industries, animals cannot be used as a follow up. Bacterial and rodent cells combined with compromised a non-human xenobiotic metabolism enzyme source is not a useful approach to develop human-relevant dose-response data needed to identify BMD and POD for risk assessments. Although QSAR computational tools are highly predictive of bacterial mutagenicity, QSAR models are not as predictive for mammalian cell genotoxicity and mutagenicity.

ScitoVation is focusing its next generation genetic toxicology tools by integrating Artificial Intelligence (AI) twin networks to assess chemical similarity by analyzing dose-response transcriptional data over time. This method effectively captures complex relationships between chemical pairs within transcriptomics data, revealing biological similarities that traditional statistical methods might miss. By enhancing the sensitivity and specificity of our similarity assessments, this AI-driven strategy offers a scalable solution for managing the expanding volume of toxicogenomic data. Secondly, ScitoVation computational tools and human cell-based assay enable the interrogation of the human transcriptome for genotoxicity using the TGx DDI biomarker, combined with human-relevant metabolically competent cell-based assays to develop the dose-response data needed for in vitro to in vivo extrapolation (IVIVE) and risk assessments. The de novo alteration of the human genome by exposure to genotoxic agents can impact cancer risk and transmissible alterations of the human genome will impact generations of humans. The direct measure of key characteristics of carcinogens in human relevant biological systems are ready to reduce the reliance on qualitative/hazard identification bacterial and rodent based assays with dose-response data on the species of concern, humans.

About ScitoVation:

ScitoVation helps clients assess chemical compound safety using innovative science, next-generation technology, and professional expertise. ScitoVation is known for partnership, flexibility, and proven success in its work to develop safer and more effective pharmaceuticals, food ingredients, agricultural chemicals, commodity chemicals and consumer products. A spin-off of the former The CIIT and The Hammer Institutes for Chemical & Drug Safety Sciences, ScitoVation is an industry leader of New Approach Methods (NAMS) for chemical/drug discovery & development in the rapidly evolving global regulatory landscape.