Team
The CDS Lab lab is based in Trieste, but some members are physically located across other institutes and, in that case, co-supervised with other PIs.
2021 Lab retreat. Passo del Pura.(Riccardo, Salvatore, Alice, Giulio, Nicola)
2022 Lab lunch. Venice.(Riccardo, Giulio, Nicola)
2022 Lab dinner. Trieste.(Nic, Alice, Ric, Elena, Giulio, Salvatore)
2022 Genomics England Research Summit (Giulio)
2022 Laboratory Meeting Epiphany (Giulio)
Principal Investigator
Prof. Giulio Caravagna, PhD
Current positions
- Associate Professor. Department of Mathematics and Geosciences, University of Trieste.
- Core Faculty, PhD program in Applied Data Science & Artificial Intelligence, University of Trieste.
- Adjoint Faculty, PhD program in Theoretical and Scientific Data Science, SISSA.
- Honorary fellow, The Institute of Cancer Research, UK.
Training:
- 2017-20, The Institute of Cancer Research, UK. With Andrea Sottoriva.
- 2015-17, University of Edinburgh, UK. With Guido Sanguinetti.
- 2011-15, University of Milan-Bicocca, Italy. With Giancarlo Mauri and Marco Antoniotti.
- 2011, PhD in Computer Science (University of Pisa, Italy).
- BSc, MSc in Computer Science (University of Pisa, Italy).
Postdoctoral scientists
Dr. Riccardo Bergamin, PhD
Training:
- 2020, PhD in Theoretical Physics (SISSA, Italy).
- MSc in Physics (University of Padova, Italy);
- BSc in Physics (University of Padova, Italy);
Topic: mathematical modelling and inference for evolutionary processes.
Dr. Nicola Calonaci, PhD
Training:
- 2021. PhD in Physics and Chemistry of Biological Systems (SISSA, Italy).
- MSc in Physics (University of Pisa, Italy);
- BSc in Physics (University of Pisa, Italy);
Topic: Artificial Intelligence for clonal evolution under therapy.
PhD students
Dr. Alice Antonello
Applied Data Science & Artificial Intelligence PhD program (University of Trieste, Italy).
Training:
- MSc in Quantitative and Computational Biology (University of Trento, Italy);
- BSc in Biotechnology (University of Turin, Italy);
Topic: Bayesian models for aneuploidy from whole-genome sequencing.
Dr. Elena Buscaroli
Applied Data Science & Artificial Intelligence PhD program (University of Trieste, Italy).
Training:
- MSc in Data Science and Scientific Computing (University of Trieste, Italy);
- BSc in Genetics (University of Bologna, Italy);
Topic: statistical models for high-resolution image demultiplexing.
Dr. Salvatore Milite
Computational Biology PhD Program (European School of Molecular Medicine, Italy). Co-mentored with Andrea Sottoriva (Human Technopole).
Training:
- MSc in Data Science and Scientific Computing (University of Trieste, Italy);
- BSc in Molecular Biology (University of Padua, Italy);
Topic: statistical methods for longitudinal single cell sequencing.
Dr. Lucrezia Patruno
Computer Science PhD Program (University of Milan-Bicocca, Italy). Co-mentored with Marco Antoniotti and Alex Graudenzi (Milan-Bicocca)
Training:
- MSc in Computer Science (University of Milan-Bicocca, Italy);
- BSc in Computer Science (University of Milan-Bicocca, Italy);
Topic: integration of single-cell RNA and ATAC sequencing.
Dr. Giovanni Santacatterina
Applied Data Science & Artificial Intelligence PhD program (University of Trieste, Italy). Co-supervised with Leonardo Egidi.
Training:
- MSc in Data Science and Scientific Computing (University of Trieste, Italy);
- BSc in Physics (University of Trento, Italy);
Topic: model-based statistical methods for single-cell data analysis.
Dr. Arianna Tasciotti
Applied Data Science & Artificial Intelligence PhD program (University of Trieste, Italy). Sponsored by an industrial fellowship from Plus.
Training:
- MSc in Data Science and Scientific Computing (University of Trieste, Italy);
- BSc in Physics (University of Trento, Italy);
Topic: inference of morphological features from tissue images.
Dr. Lucrezia Valeriani
Applied Data Science & Artificial Intelligence PhD program (University of Trieste, Italy). Co-supervised with Alberto Cazzaniga and Alessio Ansuini (Area Science Park).
Training:
- MSc in Data Science and Scientific Computing (University of Trieste, Italy);
- BSc in Genetics (University of Bologna, Italy);
Topic: statistical methods for long-reads sequencing.
Master and Bachelor students
Azad Sadr
Program: MSc Data Science and Scientific Computing.
Topic (MSc thesis): Bayesian mutational signatures from whole-genome sequencing data.
Lorenzo Taroni
Program: MSc Data Science and Scientific Computing.
Topic (MSc thesis): variational autoencoders for single-cell gene-set enrichment analysis
Clara Canavese
Program: MSc Physics of Complex Systems (Polytechnic University of Turin).
Topic (MSc thesis): stochastic processes for clonal evolution in cancer
Edoardo Insaghi
Program: BSc Statistics
Topic (BSc thesis): variational generalised linear models for differential expression.