Interp-ML
FAPERGS 09/2023 - PqG / CNPq 04/2021 - PQ
Machine Learning Interpretability Methods for Analysis of High-Dimensional Biological Data
Advances in the field of Biotechnology are increasingly reliant on the widespread use of large-scale biological data generated by various technologies, such as second, third, and fourth-generation sequencers, as well as gene expression analysis platforms, proteomics, and molecular simulation. The abundance of data creates opportunities for both researchers to deepen scientific knowledge and for Biotechnology companies. However, given the immense amount of information from these technologies and the high dimensionality of the data, conducting cutting-edge research in Biotechnology becomes largely unfeasible without the use of Data Science-based analysis, both in the generation and processing, analysis, and construction of hypotheses and models based on this data. This research project involves four major areas: Computer Science, Molecular Biology, Bioinformatics, and Computational Mathematics. The general objective of this project is the development of feature selection approaches in Machine Learning based on interpretability strategies such as Attention Mechanism and Layer-wise Relevance Propagation and multi-objective and self-adaptive optimization techniques.
Researchers/Colaborators
Publications
- Analysis and comparison of feature selection methods towards performance and stability BARBIERI, M. C.; GRISCI, B. I.; DORN, M. Expert Systems with Applications, v. 241, p. 1-30, 2024.
- Enhancing classification with hybrid feature selection: A multi-objective genetic algorithm for high-dimensional data BOHRER, J. S.; DORN, M. Expert Systems with Applications, v. 255, p. 124518, 2024.
- Assessing feature scorer results on high-dimensional datasets with t-SNE GRISCI, B.; INOSTROZA-PONTA, M.; DORN, M. Neurocomputing, v. 652, p. 130561, 2025.
- BR-FDP-EYE: Brazilian Forensic DNA eye phenotyping BEHRENS, L. M. P.; GONCALVES, C. E. I.; FERNANDES, G. S.; BOIANI, M.; SILVA, E. F. A.; BICALHO, M. G.; ALHO, C. S.; DORN, M. Forensic Science International, v. 377, p. 112593, 2025.
- Mitochondrial haplogroup A2 is associated with increased COVID-19 mortality in an admixed Brazilian population TAVARES, G. M.; MISSAGGIA, B. O.; CADORE, N. A.; SBRUZZI, R. C.; FEIRA, M. F.; GIUDICELLI, G. C.; DE OLIVEIRA FAM, B. S.; RODRIGUES, M.; DORN, M.; HÜNEMEIER, T.; VIANNA, F. S. L.; BORTOLINI, M. C. Scientific Reports, v. 15, p. 22391, 2025.
- CRYPTOMICSDB: Revealing the Molecular Landscape of 3 Cryptococcosis CALEGARI-ALVES, Y. P.; INNOCENTE-ALVES, C.; COSTA, R. P.; FAUSTINO, A. M.; FARIAS, K. S. S.; BOIANI, M.; GONCALVES, B. S. A.; DORN, M.; BEYS-DA-SILVA, W. O.; SANTI, L. Journal of Fungi, v. 11, p. 425, 2025.
- Deep learning methods and applications in single-cell multimodal data integration NUNES, F. V. M.; BEHRENS, L. M. P.; WEIMER, R. D.; GONÇALVES, G. F.; DA SILVA FERNANDES, G.; DORN, M. Molecular Omics, v. 21, p. 1-15, 2025.
- Exploring students? understanding of evolutionary biology through large-scale national university entrance examinations TAVARES, G. M.; DORN, M.; BORTOLINI, M. C. International Journal of Science Education, v. 48, p. 1-14, 2025.
- Overview of the microbiome and resistome of swine manure in commercial piglet farms and its application in grazing soils DIAS, M.; BREYER, G. M.; TORRES, M. C.; WUADEN, C.; REBELATTO, R.; KICH, J. D.; DORN, M.; SIQUEIRA, F. M. Environmental Technology, v. 46, p. 1-11, 2025.
- Expanding acute stroke care coverage in resource-limited settings: A multi-objective approach based on facility location problems and NSGA-II DORNELES, L. D.; BOIANI, M.; CARBONERA, L. A.; DORN, M. Operations Research, Data Analytics and Logistics, v. 45, p. 200488, 2026.
- The MAPSTROKE project: A computational strategy to improve access to acute stroke care CARBONERA, L. A.; RIVILLAS, J. A.; PERUE, G. G.; DORNELES, L. L.; BOIANI, M.; SOUZA, A. C.; SILVA, G. S.; DORN, M.; MARTINS, S. C. O. International Journal of Stroke, v. 19, p. 747-753, 2024.
- Sodium propionate oral supplementation ameliorates depressive-like behavior through gut microbiome and histone 3 epigenetic regulation BEHRENS, L. M. P.; GASPAROTTO, J.; RAMPELOTTO, P. H.; ESCALONA, M. A. R.; SILVA, L. S.; CARAZZA-KESSLER, F. G.; BARBOSA, C. P.; CAMPOS, M. S.; DORN, M.; GELAIN, D. P.; MOREIRA, J. C. F. The Journal of Nutritional Biochemistry, v. 130, p. 109660, 2024.
- Exploring bacterial diversity and antimicrobial resistance gene on a southern Brazilian swine farm TORRES, M. C.; BREYER, G. M.; ESCALONA, M. A. R.; MAYER, F. Q.; VARELA, A. P. M.; AZEVEDO, V. A. C.; DA COSTA, M. M.; ABURJAILE, F. G.; DORN, M.; BRENING, B.; CARDOSO, M. R. I.; SIQUEIRA, F. M. Environmental Pollution, v. 352, p. 124146, 2024.
- Molecular Basis of MC1R Activation: Mutation-Induced Alterations in Structural Dynamics CAVATAO, F. G.; PINTO, E. S. M.; KRAUSE, M. J.; ALHO, C. S.; DORN, M. PROTEINS: Structure, Function, and Bioinformatics, v. 92, p. 1-15, 2024.
Tools
Datasets