Saez-Rodriguez Group

Systems Biomedicine

Francisca Gaspar Vieira

I am a PhD student supervised by Dr. Britta Velten (Centre for Organismal Studies, Heidelberg University) and co-supervised by Dr. Julio Saez-Rodriguez (EMBL’s European Bioinformatics Institute), as a fellow member of the European Laboratory for Learning and Intelligent Systems (ELLIS) PhD program. In my research, I am developing statistical methods and computational tools based on probabilistic factor models to infer and compare perturbation responses from single-cell CRISPR screens across different biological contexts on time-course data.

I hold an Integrated Master’s degree in Biological Engineering and a second Master’s degree in Computational Biology and Bioinformatics. In my first master’s thesis, I was at the Laboratory of Gene Technology at KU Leuven, investigating bacteriophage genomics and biocontrol. In my second master’s thesis, I focused on multi-omics integration and classification of glioma types, at NOVA Math – Center for Mathematics and Applications, NOVA University of Lisbon, where I continued for one more year as a researcher on identifying biomolecular mechanisms driving human disease, discovering new therapeutic targets, performing patient stratification and predicting patient outcomes.

Research Interests

I am fascinated by the incredible potential of computational methods to decode genetic patterns, extract meaningful insights from complex biological datasets, and disentangle different phenotypes. My current research focuses on analyzing single-cell transcriptomics data with CRISPR-based genetic perturbations to understand the regulatory mechanisms governing cellular function and development. In particular, I aim to build upon probabilistic factor models to identify molecular signatures of various interventions and compare them across different biological contexts and time points, uncovering their interplay with dynamic processes.

Professional Career

2024-present PhD Candidate, Velten Group, Centre for Organismal Studies, Heidelberg University, Germany
2023-2024 Research Assistant, NOVA Math - Center for Mathematics and Applications, NOVA University of Lisbon, Portugal
2023 Member of PerMediK (Personalized Medicine in Chronic Kidney Disease) COST Action, European Cooperation in Science and Technology
2022-2023 Research internship, NOVA Math - Center for Mathematics and Applications, NOVA University of Lisbon, Portugal
2021 Research internship, Laboratory of Gene Technology, KU Leuven, Belgium
2020 Research internship, Computer and Robot Vision Laboratory, University of Lisbon, Portugal

Education

2024-present Doctoral Studies in Biology, Faculty of Biosciences, University of Heidelberg, Germany
2021-2023 Master in Computational Biology and Bioinformatics, NOVA University of Lisbon, Portugal
2021 Master Thesis, Laboratory of Gene Technology, KU Leuven, Belgium
2016-2021 Integrated Master in Biological Engineering, Instituto Superior Técnico, University of Lisbon, Portugal