2024
Mardi – 26.03.2024 – Special PoLS Seminar
| 14:15 | Brian Hie | Stanford University | Biological foundation modeling from molecular to genome scale |
Vendredi – 15.03.2024
| 15:00 | Mariam Ait Oumelloul | Fellay Lab | Genomic analysis of plasma metabolome in People Living with HIV |
| 15:20 | Benjamin Martin | Suter Lab | How dynamic is the dynamics of protein expression? Dynamics of adaption of protein decay to protein synthesis in mammalian cells |
| 15:40 | PAUSE | ||
| 16:00 | Maksim Kholmatov | Predicting SF3B1 mutation status in single cell RNA-seq via cryptic splice site activation | |
| 16:20 | LIBRE | ||
| 17:20 | Snacks and drinks |
Vendredi – 23.02.2024
| 15:00 | Cyril Pulver | Trono Lab | Primate specific KRAB zinc finger proteins modulate cell cycle progression |
| 15:20 | Casper Goverde | Correia Lab | Functional design of soluble analogs of integral membrane proteins |
| 15:40 | PAUSE | ||
| 16:00 | Anne-Marie Tassin | I2BC | Paramecium, a model to study cilia formation and ciliary movement |
| 16:45 | LIBRE | ||
| 17:30 | Snacks and drinks |
Vendredi – 19.01.2024
| 15:00 | Luca Fusar Bassini | La Manno Lab | Atlassing the lipidome of the adult mouse brain |
| 15:20 | Andreas Loukas | Prescient Design Genentech | Designing antibodies to target disease with generative AI: reporting from the trenches |
| 16:05 | PAUSE | ||
| 16:30 | Marko Popovic | Max Planck Institute | Cell size heterogeneity controls tissue crystallisation in developing fruit fly wing |
| 17:15 | Snacks and drinks |
Lundi – 15.01.2024 – Special PoLS Seminar – SALLE ELA1
| 10:00 | Rodrigo Reyes-Lamothe | McGill University | Tracking DNA-binding proteins, one at a time, to understand cells and their genome |
| 11:00 | Coralie Fumeaux | CHUV | Role of a conserved operon in cell wall homeostasis and antibiotic resistance in Pseudomonas aeruginosa |
2023
Vendredi – 08.12.2023
| 15:00 | Fernando Meireles | Dal Peraro Lab | Investigating the evolutionary origins of B3 metallo-beta-lactamases and their mechanisms of membrane association |
| 15:20 | Albert Dominguez Mantes | Weigert/La Manno Lab | Spotipy: accurate and efficient spot detection for fluorescence microscopy |
| 15:40 | PAUSE | ||
| 16:00 | Mikhail Tikhonov | Washington University | Emergent simplicity in microbial ecosystems |
| 16:45 | Daniel Pearce | University of Geneva | Defect driven morphogenesis, when does it pay to be active? |
| 17:30 | Snacks and drinks |
Vendredi – 17.11.2023
| 15:00 | Arthur Samurkas | Dal Peraro Lab | In-situ structure of fully palmitoylated SARS-CoV-2 virions |
| 15:20 | Sangwoo Kim | Kim Lab | How Mechanics Explains Solid-Fluid Transitions in Embryonic Tissues? |
| 15:40 | PAUSE | ||
| 16:00 | Yi Jiang | Georgia State University | Leader, Follower, and Cheater in Collective Cancer Invasion |
| 16:45 | Snacks and drinks |
Vendredi – 27.10.2023
| 15:00 | Valeriia Timonina | Fellay Lab | HIV infection and Clonal Hematopoiesis synergistically affect all-cause mortality |
| 15:20 | Arne Schneuing | Correia Lab | Deep Generative Models: a New Paradigm for In Silico Drug Discovery |
| 15:40 | PAUSE | ||
| 16:00 | Matthias Heinemann | University of Groningen | How a dynamic metabolism could control the eukaryotic cell cycle |
| 16:45 | Snacks and drinks |
Vendredi – 22.09.2023
| 15:00 | Ali Saadat | Fellay Lab | Host genomics of hepatitis E virus infection |
| 15:20 | Florian Schuder | Yale University | Development of smart DNA probes for multiplexed super-resolution microscopy |
| 15:40 | PAUSE | ||
| 16:00 | Kirsty Wan | University of Exeter | From sea cells to sea shells |
| 16:40 | Snacks and drinks |
Mercredi – 06.09.2023 – Spéciale PoLS Séminaire
| 14:30 | Mor Nitzan | Hebrew University of Jerusalem | Interpreting and manipulating layers of information in single-cell data |
Mardi – 20.06.2023 – Spéciale PoLS Séminaire (Salle SV1717 et Zoom)
Zoom lien: https://epfl.zoom.us/j/66730368121?pwd=eFZsVGUvZFZDOXR2aWk2SWZ6KzFJdz09
| 15:00 | Pascal Notin (zoom only) | Oxford University | Hybrid protein language models for fitness prediction and design |
| 16:00 | Alex Hawkins-Hooker | UCL | Few-shot contrastive learning for protein interaction partner prediction |
Vendredi – 16.06.2023
| 15:00 | Samuel Bourgeat | Jaksic/McCabe Labs | Genetic and morphological basis of brain miniaturization in Drosophila melanogaster |
| 15:20 | Friso Douma | Gönczy Lab | Symmetry breaking and number control at the onset of centriole assembly |
| 15:40 | PAUSE | ||
| 16:00 | Denis Mongin | Université de Genève | A dance of beats: quantifying heart rate dynamics and variability during effort with simple tools |
| 16:45 | Snacks and drinks |
Vendredi – 26.05.2023
| 15:00 | Sibo Wang | Ramdya Lab | Reverse-engineering Drosophila locomotor control through data-driven modeling |
| 15:20 | Alessandro De Simone | UNIGE | How does a regenerating scale reach its final size? |
| 16:05 | PAUSE | ||
| 16:30 | Sara Mitri | UNIL | How do microbial species interact and how do we find out? |
| 17:15 | Snacks and drinks |
Jeudi – 25.05.2023 – Spéciale PoLS Séminaire
| 15:00 | Matteo Degiacomi | Durham University | Protein structure, dynamics, and assembly through the lens of the computational microscope |
Mardi – 9.05.2023 – Spéciale PoLS Séminaire
| 15:00 | Michael Laessig | University of Cologne | Real-time immune recognition |
Vendredi – 21.04.2023
| 15:00 | Riddha Manna | Jaksic/Hess Labs | Automated cobot-assisted high-throughput phenotyping of cognition in behaving Drosophila melanogaster |
| 15:20 | François Peaudecerf | ETH and U. of Rennes | Wall entrapment enhances bacterial chemotactic response to deposited aerosols in the microlayer |
| 16:05 | PAUSE | ||
| 16:30 | Mark Chan | San Francisco State University | Physical limits to organelle growth and scaling in budding yeast |
| 17:15 | Snacks and drinks |
Vendredi – 17.03.2023- Salle AI.1.153
| 15:00 | Davide Cois | De Los Rios Lab | Protein fibrils disassembly by the HSP70 chaperone machinery |
| 15:20 | Nicola Dietler | Bitbol Lab | Disentangling phylogeny and optimization contributions in protein sequences |
| 15:40 | PAUSE | ||
| 16:00 | Thomas Julou | University of Basel | Growth rate controls the sensitivity of gene regulatory circuits |
| 16:45 | Snacks and drinks |
Vendredi – 24.02.2023
| 15:00 | Olga Pushkareva | Deplancke Lab | Genome-wide evaluation of cis-regulatory coordination |
| 15:20 | Subham Choudhury | Hatzimanikatis Lab | Dynamical studies of Metabolism using Machine Learning |
| 15:40 | PAUSE | ||
| 16:00 | Ercüment Cicek | Bilkent University – Visiting professor at EPFL | Detecting Copy Number Variants on Exome Sequencing Data via Deep Learning |
| 16:45 | Claude Loverdo | CNRS-Sorbonne U | Bacteria in the digestive tract : stochastic models of population dynamics, and interaction with the immune system |
| 17:30 | Snacks and drinks |
Mercredi – 01.02.2023 – Spéciale PoLS Séminaire
| 14:00 | Ned Wingreen | Princeton University | Why do biomolecular condensates ripen so slowly? |
Vendredi – 20.01.2023
| 15:00 | Halima Hannah Schede | D’Angelo Lab | A tool for the creation of lipidomic atlases: MAIA |
| 15:20 | Romane Mizeret | Suter Lab | The role of Nanog, Oct4 and Sox2 concentrations heterogeneity in regulating cellular identity |
| 15:40 | PAUSE | ||
| 16:00 | Benjamin Towbin | University of Bern | Growth control from Cells to Organisms |
| 16:45 | Snacks and drinks |
2022
Vendredi – 16.12.2022
| 15:00 | Ella Müller | Gönczy Lab | Deciphering mechanisms of symmetry breaking in C. elegans embryos |
| 15:20 | Benjamin Gallusser | Weigert Lab | Representation learning for live-cell imaging with permutation-equivariant time arrow prediction |
| 15:40 | PAUSE | ||
| 16:00 | Guillaume Salbreux | U. of Geneva | Active surface flows and biological morphogenesis |
| 16:45 | Kurt Schmoller | Helmholtz Institute of Functional Epigenetics | Coordination of Protein and Organelle Homeostasis with Cell Size |
| 17:30 | Snacks and drinks |
Vendredi – 18.11.2022
| 15:00 | Yang Lin | AQUA lab | ZOOM – Real-time FLIM with on-FPGA RNN |
| 15:20 | Pernille Rainer | Deplancke Lab | A single-cell-based characterization of human white adipose tissues identifies an omentum-specific mesothelial-like stromal population that inhibits adipogenesis |
| 15:40 | PAUSE | ||
| 16:00 | Raphaëlle Luisier | IDIAP, Martigny | Non-coding elements of mRNAs: a regulatory potential beyond their own transcripts |
| 16:45 | Clara Wong-Fannjiang | UC Berkeley | ZOOM – Conformal prediction for biomolecular design |
| 17:30 | Snacks and drinks |
Vendredi – 28.10.2022 – Séminaire spécial PoLS (1 heure en salle SV1717)
| 15:00 | Anatoly B. Kolomeisky | Rice University | When Will the Cancer Start? |
Vendredi – 21.10.2022
| 15:00 | Cristina Loureiro Casalderrey | Oates Lab | Using single-cell genomics to understand the transcriptional control of the Segmentation Clock |
| 15:20 | Laura Espinosa Montalban | Salathé Lab | ZOOM presentation – Public perception on vaccination and vaccination uptake in Brazil, 2013-2019 |
| 15:40 | PAUSE | ||
| 16:00 | Maria Romanova Michailidi | U. of Geneva | Morphogen gradient scaling by recycling of intracellular Dpp |
| 16:45 | Snacks and drinks |
Vendredi – 16.09.2022
| 15:00 | María A. Duque-Correa | U. of Cambridge | Caecaloids as a model to study host-whipworm interactions |
| 15:40 | PAUSE | ||
| 16:00 | Guillermina Ramirez-SanJuan | EPFL | Cilia driven flows: Linking microscopic properties with emergent macroscopic dynamics |
| 16:30 | PAUSE | ||
| 16:45 | Françoise Brochard-Wyart | Institut Curie | Micropipette aspiration of proteins coated bubbles: role of compressibility and porosity |
| 17:15 | Snacks and drinks |
Vendredi – 20.05.2022
| 15:00 | Zhidian Zhang | Dal Peraro and Lashuel Lab | The effect of post-translational modifications on intramolecular and intermolecular interactions |
| 15:20 | Vincenzo Caroprese | PBL Lab | Understanding the role of monomer-monomer interactions in the formation of crystalline surface patterns from trimeric DNA macromolecules |
| 15:40 | PAUSE | ||
| 16:00 | Sim Sakong | Suter Lab | Target search dynamics of Sox transcription factors |
| 16:20 | Zhi Ming Xu | Fellay Lab | A genome-to-genome approach to study host-pathogen interactions |
Vendredi – 22.04.2022
| 15:00 | Cyril Pulver | Trono Lab | Statistical learning quantifies transposable element-mediated cis-regulation |
| 15:20 | Ilia Igashov | Correia Lab | Decoding Surface Fingerprints for Protein-Ligand Interactions |
| 15:40 | PAUSE | ||
| 16:00 | Hugo Le Roy | De Los Rios Lab | Collective deformation modes promote fibrous self-assembly in protein-like particles |
| 16:20 | Anastasia Theodoropoulou | Dal Peraro Lab | Investigating the critical amino acids differentiating POU5F1B from its parent OCT4 |
Vendredi – 18.03.2022
| 15:00 | Irene Lamberti | Naef Lab | From bulk to single-molecule: quantifying translation dynamics in mammalian cells |
| 15:20 | Alexis Arnaudon | Blue Brain Project | Frustrated oscillator dynamics with higher order interactions: theory and perspectives |
| 15:40 | PAUSE | ||
| 16:00 | Mahdi Hijazi | Barth Lab | A Computational Study of Allosteric Signaling and Ligand Specificity in G-protein Coupled Receptors |
| 16:20 |
Vendredi – 18.02.2022
| 15:00 | Damiano Sgarbossa | Bitbol Lab | Comparing models for protein sequence generation |
| 15:20 | Alexandre Coudray | Trono Lab | Drug sensitivity inference at cell type level with predictive modeling |
| 15:40 | PAUSE | ||
| 16:00 | Benjamin Martin | Suter Lab | The role of protein turnover in cell identity control |
| 16:20 | Casper Goverde | Correia Lab | Exploring the potential of deep learning in de novo protein design |
Vendredi – 21.01.2022
| 15:00 | Alex Lederer | La Manno Lab | Cell lipotype state transition estimation by lineage leaf-state Markov analysis |
| 15:20 | Jenny Sülzle | Manley Lab | Imaging self-assembly processes with label-free microscopy |
| 15:40 | PAUSE | ||
| 16:00 | Chen Zhang | Manley Lab | Single-molecular imaging of bacterial peptidoglycan biosynthesis via D-amino acid derivatives |
| 16:20 |
2021
Vendredi – 17.12.2021
| 15:00 | Willi Stepp | Manley Lab | Imaging dynamic biological events the smart way – Event-driven acquisition |
| 15:20 | Eunji Shin | Trono Lab | Transposable element expression contributes to the heterogeneity of colorectal cancer |
| 15:40 | PAUSE | ||
| 16:00 | Vojislav Gligorovski | Rahi Lab | |
| 16:20 | Freyr Sverrisson | Correia Lab | Prediction of protein interactions using geometric deep learning |
Vendredi – 15.10.2021
| 15:00 | Hana El-Samad | UCSF | Build to Understand: the Secret Lives of BioCircuits |
| 16:00 | Pause | ||
| 16:15 | Alexandra Shelest | Lab De Los Rios | Paper presentation: Spider silk self-assembly via modular liquid-liquid phase separation and nanofibrillation |
| 16:30 | Lorenzo Talamanca | Lab Naef | The philosophy of probability |
Vendredi – 18.06.2021
| 15:00 | Ece Ozelci | Oates Lab | Robustness to mechanical perturbations during zebrafish body axis morphogenesis |
Vendredi – 21.05.2021
| 15:00 | Navish Wadhwa | Harvard University | The bacterial flagellar engine has an automatic gearshift |
| 15:30 | Forrest Webler | Andersen Lab | Efficient data-driven model discovery in the era of big data |
Vendredi – 16.04.2021
| 15:15 | Sergey Ovchinnikov | Harvard University | A unified framework for understanding and evaluating generative models of protein sequences |
| 16:15 | Jan Skotheim | Stanford University | Towards molecular mechanisms linking cell growth and division |
Vendredi – 19.03.2021
| 15:00 | Pavan Ramdya | Ramdya Lab | Investigating latent representations of the world and self in the fly nervous system |
| 15:20 | Sofya Mikhaleva | Persat Lab | Finding structure in disorder: examining the central channel of the nuclear pore complex |
Vendredi – 19.02.2021
| 15:00 | Meritxell Saez |
The Francis Crick Institute | Gene-free landscape models for development |
| 15:30 | Anne-Florence Bitbol | Bitbol Lab | Toward a universal model for spatially structured populations |
| 15:45 | Louis Dumas | Barth Lab | Uncovering and engineering the adhesion GPCR GAIN domain under force |
Vendredi – 15.01.2021
| 15:00 | Adam Gosztolai |
Ramdya Lab | Unfolding the structure of real networks by multiscale dynamic geometry |
| 15:15 | Leo Scheller | Correia Lab | The bottom-up computational design of synthetic cell surface receptors |
| 15:30 | Zena Hadjivasiliou | UNIGE | Growth and patterning in development and evolution |
| 16:00 | Freyr Sverrisson | Correia Lab | Fast end-to-end learning on pro |