# Biologically Informed Machine Learning Prioritizes Dietary Supplements That Protect Neural Crest Cells from Ethanol-Induced Epigenetic Dysregulation and Developmental Impairment

**Authors:** Xiaoqing Wang, Miao Bai, Shuoyang Wang, Hongjia Qian, Jie Liu, Wenke Feng, Huang-ge Zhang, Xiaoyang Wu, Shao-yu Chen

PMC · DOI: 10.3390/ijms27010295 · International Journal of Molecular Sciences · 2025-12-27

## TL;DR

This paper uses machine learning to find dietary supplements that protect neural cells from alcohol-related developmental issues.

## Contribution

A biologically informed machine learning framework is developed to prioritize supplements targeting epigenetic regulators affected by ethanol.

## Key findings

- The framework identified resveratrol, vitamin B12, emodin, quercetin, and broccoli sprout compounds as potential supplements.
- Models revealed structural features critical for mitigating ethanol-induced neural crest cell impairment through epigenetic mechanisms.

## Abstract

The impairment of neural crest cells (NCCs) plays a pivotal role in the pathogenesis of fetal alcohol spectrum disorders (FASD). Epigenetic regulators mediate ethanol-induced disruptions in NCC development and represent promising targets for nutritional interventions. Here, we developed a biologically informed machine learning framework to predict nutritional supplements that modulate five key epigenetic regulators (miR-34a, DNMT3a, HDAC, miR-125b, and miR-135a) and mitigate ethanol’s adverse effects on NCCs. The optimized models demonstrated robust predictive performance and identified a number of nutritional supplements that could attenuate ethanol-induced NCC impairment, including resveratrol, vitamin B12, emodin, quercetin, and broccoli sprout-derived compounds. Our optimized models also revealed structural features that are critical for mitigating ethanol-induced NCC impairment through specific epigenetic mechanisms. These findings support predictive modeling as a tool to prioritize nutritional supplements for further investigation and the development of dietary strategies to prevent or reduce the risk of FASD.

## Linked entities

- **Genes:** MIR34A (microRNA 34a) [NCBI Gene 407040], DNMT3A (DNA methyltransferase 3 alpha) [NCBI Gene 1788], HDAC9 (histone deacetylase 9) [NCBI Gene 9734], MIR125B (microRNA mir-125b) [NCBI Gene 100314821], MIR135A (microRNA mir-135a) [NCBI Gene 100034338]
- **Chemicals:** resveratrol (PubChem CID 5056), vitamin B12 (PubChem CID 73415824), emodin (PubChem CID 3220), quercetin (PubChem CID 5280343)
- **Diseases:** fetal alcohol spectrum disorders (MONDO:0000408), FASD (MONDO:0000408)

## Full-text entities

- **Genes:** MIR34A (microRNA 34a) [NCBI Gene 407040] {aka MIRN34A, miRNA34A, mir-34, mir-34a}, HDAC9 (histone deacetylase 9) [NCBI Gene 9734] {aka HD7, HD7b, HD9, HDAC, HDAC7B, HDAC9B}, DNMT3A (DNA methyltransferase 3 alpha) [NCBI Gene 1788] {aka DNMT3A2, HESJAS, M.HsaIIIA, TBRS}
- **Diseases:** Developmental Impairment (MESH:D007805), FASD (MESH:D063647)
- **Chemicals:** broccoli sprout (-), quercetin (MESH:D011794), resveratrol (MESH:D000077185), emodin (MESH:D004642), Ethanol (MESH:D000431), vitamin B12 (MESH:D014805)

## Full text

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## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12785273/full.md

## References

95 references — full list in the complete paper: https://tomesphere.com/paper/PMC12785273/full.md

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Source: https://tomesphere.com/paper/PMC12785273