Eduardo Esteves
With 5+ years of experience using machine learning models and statistical analysis to develop predictive models, optimise data handling processes and create meaningful visualisations. Proficient in Python and cloud technologies with an interest in data analysis.
Senior Science Officer
Aveiro, Portugal 🇵🇹 | Chelmsford, England 🏴
EXPERIENCE
Senior Science Officer - ELIXIR Hub
January 2025 - Present
- Support the ELIXIR Compute and Data Platforms by delivering technical contributions to the ELIXIR Scientific Programme and externally funded projects.
- Facilitate Open Science, data reproducibility, and software reusability across European life sciences by engaging with ELIXIR Nodes and stakeholders.
- Conduct background research on emerging technologies, contribute to grant proposals, and provide scientific insights for ELIXIR’s research infrastructure.
- Participate in designing, developing, and maintaining databases, metadata, and computational resources supporting FAIR (Findable, Accessible, Interoperable, Reusable) principles.
- Contribute to shaping policies and best practices for life science data management, ensuring interoperability and alignment with European and global bioinformatics standards.
Bioinformatician / Data Scientist - Prana-Tech, Ltd
September 2023 - December 2024
- Developed machine learning models to predict health outcomes.
- Analysed health questionnaires and blood data to generate actionable insights.
- Evaluated the feasibility of modelling approaches optimised for health data characteristics.
- Integrated ML models into healthcare applications, ensuring functionality and usability.
- Designed and implemented visualisation dashboards to improve data interpretability.
Project Manager / Junior Software Developer - PromptEquation, Lda
September 2021 - December 2024
- Managed projects through requirements analysis, budget optimisation and accurate documentation of customer requirements.
- Developed and adapted Python scripts and the Odoo framework.
- Performed advanced database queries in PostgreSQL for data management and analysis.
- Used BI tools and dashboards to produce detailed reports for decision making.
Research Fellow - Catholic University of Portugal
September 2015 - August 2021
- Performed MS-based proteomic analysis to characterise protein responses to SARS-CoV-2.
- Performed advanced data analysis and visualisation using Python and R on genomic and proteomic datasets.
- Developed custom software to store, analyse and visualise clinical data from NGS and MS sources.
- Implemented COVID-19 saliva-based diagnostic protocols integrating genomic and proteomic data.
Research Assistant Lecturer - Catholic University of Portugal
September 2017 - August 2018
Spetember 2020 - August 2021
- Helped students develop critical thinking and research skills.
- Led laboratory sessions that combined hands-on work with computer-based learning.
- Established new partnerships between industry and academia to ensure students are ready for the world of work.
Technical Skills
| Programming | Python, R, Julia, Bash/Shell scripting |
| Data Analysis | Genomic and proteomic data processing |
| Statistics & Machine Learning | Biostatistics, scikit-learn, PyTorch, Bioconductor |
| Visualization | Matplotlib, ggplot2, Seaborn, Cytoscape |
| Database Management | SQL, PostgreSQL |
| Cloud & Containers | Google Cloud, Docker |
| Version Control | Git, GitHub, GitLab |
| Operating Systems | Linux, UNIX |
| Proteomics | Protein quantitation, identification (MS), purification (HPLC/FPLC) |
| Genomics | DNA isolation, PCR, RT-PCR, sequence alignment, NGS analysis |
| Interactomics | Host-pathogen interactions, Cytoscape, GO enrichment |
| Network & Pathway Analysis | Gene regulatory networks, KEGG, Reactome |
Talks & Lectures
| Course | Position | Institution | Start Date | End Date |
|---|---|---|---|---|
| Biomolecular Laboratories II | Assistant Lecturer | Catholic University of Portugal | September 2020 | August 2021 |
| Molecular Biology | Assistant Lecturer | Catholic University of Portugal | September 2020 | August 2021 |
| Seminars Projects | Assistant Lecturer | Catholic University of Portugal | September 2020 | August 2021 |
Education
| PhD in Biomedicine | University of Beira Interior (July 2023) |
| MSc in Cell and Molecular Biology | University of Aveiro (December 2014) |
| BSc in Biomedical Sciences | Catholic University of Portugal (July 2012) |
Advanced Courses
2024 - Bioinformatics for P2x Single-cell Genomics
- Focus: Single-cell analysis, wet lab techniques, data analysis in Python and R.
- Skills: Single-cell RNA sequencing, data visualization, bioinformatics pipeline development, Python and R programming.
- Certificate: Bioinformatics for P2x Single-cell Genomics
2024 - Statistical Learning with Python
- Focus: Supervised learning, regression, classification, tree-based methods.
- Skills: Ridge/Lasso, splines, SVMs, neural networks, PCA, clustering.
- Certificate: Statistical Learning with Python
2022 - Data Science
- Focus: Data preparation, machine learning, and deep learning.
- Skills: Model evaluation, comparison, Industry 4.0 applications.
- Certificate: Data Science
2019 - Data Analysis Using R
- Focus: Data analysis in R.
- Skills: Data manipulation, visualization, using R libraries.
- Certificate: Data Analysis Using R
2019 - Experimental Design and Analysis of Multivariate Data
- Focus: Multivariate data analysis and experimental design.
- Skills: Clustering, hypothesis testing, using PRIMER v6 and PERMANOVA+.
- Certificate: Experimental Design and Analysis of Multivariate Data
2018 - Computational Biology
- Focus: Computational biology for biologists and exact scientists.
- Skills: Applied mathematics, physics for biology, mini-research projects.
- Certificate: Computational Biology
2015 - Clinical Investigator Certification
- Focus: Standardizing clinical research training in Europe.
- Skills: Pharmaceutical medicine, clinical research infrastructure.
- Certificate: CLIC Certificate
Projects
Disease risk prediction in the tip of the finger 👨🏽💻🥼
Alongside Prana-Tech we aim to develop and apply Machine-Learning methods to multiple disease cnditions and merge into a user-centric health app.
| Technologies | Data analysis, Biostatistics, Machine-Learning. |
| Roles | Bioinformatician |
| Status | Ongoing since September 2023 |
Oral e-Health Monitoring Platform - Co Founder 🦷🩺
Project funded by CENTRO2020 and the European Regional Development Fund (ERDF), this platform will allow patients to access their oral health history, including diagnoses and treatments carried out, in a clear and objective way. This record can be shared with the new dentist, contributing to correct clinical decision making.
| Technologies | Django (backend) and Vue (frontend). |
| Role | Project Manager |
| Status | Complete July 2023 |
| Project Home page | Project on the media |
Oral Microbiome profile in Clear Aligner Patients During Treatment 👨🏽💻🦷
The analysis of NGS microbial hypervariable regions of 16S rDNA focused on evaluating bacterial species diversity within samples using alpha diversity metrics like Shannon, Simpson, and Chao1. These metrics assess species richness and evenness (Shannon and Simpson) or species richness alone (Chao1). The study compared diversity in different sample types (saliva and biofilm) and between initial (T0) and final (T2 or T3) treatment time points to observe changes in microbial communities over time.
- Output: PhD thesis presented by Dr. Pedro C. Lopes’, titled “Oral Microbiota in Caries Prevention, Diagnosis and Management - Challenges and Opportunities”
| Technologies | Genomic Data analysis (NGS), Biostatistics |
| Roles | Bioinformatician |
| Status | Complete March 2024 |
COVID-19 Salivary Protein Profile 🥼👨🏽💻
This study combined proteomics and in silico interactomics to generate a salivary protein profile for COVID-19. Techniques such as partial least squares discriminant analysis and enrichment analysis with FunRich were used to narrow down the differential proteome. OralInt was used to investigate protein-protein interactions between the host and SARS-CoV-2. The analysis identified five dysregulated biological processes in COVID-19: apoptosis, energy pathways, immune response, protein metabolism and transport. Ten proteins not previously associated with SARS-CoV-2 were discovered, revealing new aspects of the virus’ effects. The study also showed that SARS-CoV-2 affects the host’s immune response, energy metabolism and apoptosis mechanisms.
| Technologies | Proteomic Data analysis, Biostatistics, Machine-Learning, Network & Pathway Analysis, Interactomics |
| Roles | Research Scientist, Bioinformatician |
| Status | Complete September 2022 |
CoVTec in Saliva - Diagnosis of COVID 19 in saliva 🥼👨🏽💻
The CoVTec project focuses on developing protocols for processing saliva, detecting SARS-CoV-2, and assessing the host immune response using saliva samples. It has established an R&DT platform to support healthcare institutions in the Viseu region of Portugal, enhancing diagnostic strategies for current and future pandemics. The project also created a platform for real-time data collection and randomization, enabling streamlined operations and controlled data access for medical staff and laboratory personnel based on pre-defined roles.
| Technologies | Python in software development and in data analysis. |
| Roles | Research Scientist, Bioinformatician |
| Status | Complete July 2020 |
How Odoo helped creating a saliva tests platform in record time
SalivaPRINT Toolkit – Protein profile evaluation and phenotype stratification 🥼👨🏽💻
SalivaPRINT Toolkit enables the analysis of protein profile patterns by the identification of molecular weight ranges altered in a particular condition and therefore potentially involved in the underlying dysregulated mechanisms. SalivaPRINT Toolkit is a CLI for electrophoretic protein profile evaluation.
| Technologies | Python in software development and in data analysis. |
| Roles | Research Scientist, Bioinformatician |
| Status | Complete January 2017 |
Publications
Memberships and event participation
| Member of Direction of Beira-Mar Squash team | Aveiro (September 2024) |
| Hackathon finalist | Aveiro (October 2024) |