EDCB Published theses

It is our pleasure to present the theses undertaken in the frame of the EPFL PhD Program in Computational and Quantitative Biology.

2025

Learning the language of the genome: AI- and data-driven decoding of genetic variants and disease mechanisms

A. Saadat Varnosfaderanii / J. Fellay (Dir.)  

Lausanne, EPFL, 2025. 

Revealing and exploiting coevolution through protein language models

D. Sgarbossa / A-F. R. Bitbol (Dir.)  

Lausanne, EPFL, 2025. 

Protein Organisation at Different Scales: Amyloid Disaggregation, Chaperone Networks and Engineered Allostery

D. Cois / P. De Los Rios (Dir.)  

Lausanne, EPFL, 2025. 

Leveraging social media data and large language models for understanding public health behaviours in the context of infectious diseases and vaccination

L. Espinosa Montalbán / M. Salathé (Dir.)  

Lausanne, EPFL, 2025. 

Investigation of the bone marrow niche in clonal hematopoiesis and myelodysplastic syndrome

M. Kholmatov / B. Deplancke; J. Zaugg (Dir.)  

Lausanne, EPFL, 2025. 

Transcription Factor Target Search on Chromatin via Electrostatic Interactions

S. Sakong / D. Suter; B. Fierz (Dir.)  

Lausanne, EPFL, 2025. 

The Regulation of Transcription Factors Binding Site Occupancies by Their Concentrations

R. Mizeret / D. M. Suter (Dir.)  

Lausanne, EPFL, 2025. 

Dynamics and Coordination of Protein Synthesis and Protein Decay in Mammalian Cells

B. J. C. A. H. Martin / D. M. Suter (Dir.)  

Lausanne, EPFL, 2025. 

Computational design of complex protein folds and soluble analogs of membrane proteins

C. A. Goverde / B. E. Ferreira De Sousa Correia (Dir.)  

Lausanne, EPFL, 2025. 

Computational approaches for spatialomics data: construction, integration and analysis of biomolecular atlases

H. H. E. Schede / G. D’Angelo; G. La Manno (Dir.)  

Lausanne, EPFL, 2025. 

Mapping Brain Morphology with Micro-CT and Topological Data Analysis: From Drosophila to General Applications

S. S. Bourgeat / B. McCabe; A. M. Jaksic (Dir.)  

Lausanne, EPFL, 2025. 

Leveraging chromatin modules to explore the impact of regulatory variation on disease

O. Pushkarev / B. Deplancke (Dir.)  

Lausanne, EPFL, 2025. 

SPAD Image Sensors with Embedded Intelligence

Y. Lin / E. Charbon; C. Bruschini (Dir.)  

Lausanne, EPFL, 2025. 

Non-equilibrium control of biomolecular condensates

A. Shelest / P. De Los Rios (Dir.)  

Lausanne, EPFL, 2025. 

Light-directed evolution of dynamic biological systems

V. Gligorovski / S. J. Rahi (Dir.)  

Lausanne, EPFL, 2025. 

2024

Meeting our Makers: Uncovering the cis-regulatory activity of transposable elements using statistical learning

C. D. S-T. Pulver / D. Trono (Dir.)  

Lausanne, EPFL, 2024. 

Deciphering the nature of cell state transitions in single cells using quantitative modeling of temporal dynamics

A. R. Lederer / G. La Manno (Dir.)  

Lausanne, EPFL, 2024. 

Coarse grain modelling of DNA self-assembly over multiple scales

V. Caroprese / M. Bastings (Dir.)  

Lausanne, EPFL, 2024. 

Predicting protein interactions using geometric deep learning on protein surfaces

F. Sverrisson / B. E. Ferreira De Sousa Correia; M. Bronstein (Dir.)  

Lausanne, EPFL, 2024. 

Quantifying Interaction of Single Molecules with Surfaces using Label-Free Microscopy

J. Sülzle / S. Manley (Dir.)  

Lausanne, EPFL, 2024.