Welcome to BioAutoML

Democratizing Machine Learning in Life Sciences

About

Find Out More About Us

We have been working on developing solutions to democratize AI, specifically Machine Learning (ML) in biology. So far, our studies have generated solutions that can be applied in the study of biological data, having a high potential to significantly reduce the experience required to use AI/ML pipelines, helping researchers in combating various problems, such as diseases that directly impact people's lives, mainly in low- and middle-income countries, giving biologists and other stakeholders, an opportunity for widespread use of these techniques.


BioAutoML

BioAutoML (a comprehensive suite of solutions) automates the entire ML pipeline, making it fully accessible to non-experts. It comprises two main components, each divided into four modules: (1) Automated Feature Engineering, which covers feature extraction and selection, and (2) Meta-Learning, which focuses on algorithm recommendation and hyperparameter tuning. BioAutoML can automatically extract features from diverse biological datasets, recommend suitable algorithms, and fine-tune them for both binary and multiclass classification tasks. Our solutions operate without the need for specialized human intervention — all that is required is a training dataset to execute a complete ML experiment. BioAutoML lowers the barriers for non-experts to apply advanced ML techniques to biological data, fostering the democratization of AI in the life sciences.


Publications

Our contributions have resulted in awards and published scientific articles, showcasing our commitment to advancing AI in biology - See FAQ.

Awards and Recognitions

BioAutoML has been recognized globally for its innovation and impact

Access to our solutions and articles

Awards and Recognitions

Stars - All Solutions

Citations - All Articles



Google Latin America Research Awards (LARA)

BioAutoML was selected among the 24 most promising ideas in Latin America, from a base of 700 submissions.

Prototypes for Humanity 2024

BioAutoML was selected to participate in Prototypes for Humanity 2024, chosen from 2700 entries, from more than 100 countries, standing out among the 100 best in the world.

IRCAI – UNESCO

Top 100 Global AI Solutions for the SDGs (2025). BioAutoML was selected among the world’s most impactful AI initiatives addressing the United Nations Sustainable Development Goals. Rated Outstanding (highest distinction) by international reviewers and included in the IRCAI Global Index of AI Innovations. One of only three Brazilian solutions featured in the 2025 global selection.

USP Outstanding Thesis Award 2025

Granted to the best doctoral thesis of the year in Exact and Earth Sciences by the University of São Paulo. This award recognizes research of excellence and high academic impact, and is one of the most prestigious distinctions from Brazil's leading public university and a reference in Latin America.

V Academic Recognition Award in Human Rights

Granted by the University of Campinas (Unicamp) and the Vladimir Herzog Institute, in the category Exact Sciences, Engineering, and Technology – Doctorate. The award recognizes research that makes a significant contribution to the promotion of human rights through social impact, innovation, and scientific relevance.

IRCAI – UNESCO

Top 100 Global AI Solutions for the SDGs (2025). BioPrediction was selected among the world’s most impactful AI initiatives addressing the United Nations Sustainable Development Goals. Rated Promising by international reviewers and included in the IRCAI Global Index of AI Innovations. One of only three Brazilian solutions featured in the 2025 global selection.

CAPES Thesis Award

Honorable Mention – CAPES Thesis Award (2025). Recognized as one of the best doctoral theses in Brazil in the field of Computer Science and Mathematics. CAPES is Brazil’s top national award for PhD theses (Honorable Mention indicates recognition among the best theses in the country).

Santander X Brazil Award

BioAutoML was selected among the top 10 university projects (from over 200 entries) in Brazil in the national innovation competition promoted by Banco Santander.

Global Undergraduate Awards

BioPrediction (Bruno, André, and Robson) was awarded as the best undergraduate project in the world in computer science by the Global Undergraduate Awards 2024, marking the first time this award in the field has been given to Latin America.

Young Bioinformatics Award

BioAutoML received an honorable mention from the Young Bioinformatics Award 2024, being chosen among the best theses in Bioinformatics and Computational Biology in Brazil.

Artur Ziviani Thesis Award (SBCAS)

BioAutoML project received third place in the Artur Ziviani Thesis Award (SBCAS), being chosen among the best theses in computing applied to health in Brazil, 2024.

Global South Network - AI4PEP

AutoAI-Pandemics was selected as one of the most promising proposals (a total of 221 proposals from 47 countries) in a global competition.

Acceleration Program by ACE Cortex

BioAutoML received an intensive acceleration program by ACE Cortex (one of the largest in Latin America), focusing on innovation, scalability, and business development, as part of the Santander X Brazil Award.

Prototypes for Humanity - COP28-Dubai

Project selected (BioPrediction) to participate in Prototypes for Humanity 2023, during COP28-Dubai, chosen from 3000 entries, from more than 100 countries, standing out among the 100 best.

FEMS Research & Training Grant/Award

Federation of European Microbiological Societies (FEMS)

Helmholtz Visiting Researcher Grant/Award

Helmholtz Information & Data Science Academy (HIDA)

Falling Walls Lab Brazil

Finalists (Ideas Contest - Top 15 of 82), Falling Walls Lab Brazil 2022, DWIH São Paulo, Falling Walls Foundation, DAAD, The German Center for Research and Innovation.

Editor's Choice Article, Entropy

Recognized by the journal's Academic Editor as an exceptional contribution to the field. The article is featured in Entropy's special edition dedicated to showcasing groundbreaking research.

Scientific Initiation Competition (SBCAS)

Second place (BioPrediction) in the Scientific Initiation Competition (SBCAS), being chosen among the best works in computing applied to health in Brazil, 2024.

Our Solutions

Explore Our Innovative Tools

Empowering researchers with cutting-edge tools in Life Sciences and beyond.

BioAutoML

End-to-End Machine Learning Package for Life Sciences

BioAutoML-FAST

Empowering Breakthroughs in Life Sciences with End-to-End Machine Learning - Launching soon!

BioDeepFuse

Empowering Researchers in Life Sciences with Deep Learning

MathFeature

Feature Extraction Package for Biological Sequences

MathFeature-WebServer

Feature Extraction Package for Biological Sequences

BioPrediction-RPI

Democratizing Machine Learning in the Study of Molecular Interactions

BioPrediction-PPI

Democratizing Machine Learning in the Study of Molecular Interactions

ChemAutoML

Democratizing Machine Learning to Drug-Like Molecule Problems - Launching soon!

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Case Studies

Success Stories from Our Solutions

Explore how our solutions have made contributions to Life Sciences.

Non-Coding Sequences

Comprehensive analysis and prediction of functional non-coding RNA sequences

Anticancer Peptides

Utilization of advanced machine learning models to predict and analyze peptide sequences with potential anticancer properties

Long Non-Coding RNAs (lncRNAs)

Advanced classification and analysis of long non-coding RNAs (lncRNAs)

Proinflammatory Peptides

Classification and analysis of proinflammatory peptide sequences

SARS-CoV-2 Sequences

Comprehensive analysis and prediction of SARS-CoV-2 sequences

Phage Virion Proteins

Classification of Phage Virion Protein Sequences

Contact

Contact Us

Robson P Bonidia

rpbonidia@gmail.com

Breno de Almeida

brenoslivio@pm.me

Bruno Florentino

brunorf1204@usp.br

Ulisses N da Rocha

ulisses.rocha@ufz.de

André C P L F de Carvalho

andre@icmc.usp.br