Where and when
Group meetings and seminars take place every Monday, 3:00 PM, either in MMG seminar room, La Timone or in I2M lecture room Herbrand, Luminy.
From September 2024 on
From September 2024 on, our seminars are advertised and archived on the I2M web site: https://www.i2m.univ-amu.fr/seminaires-i2m/mabios/
Till July 2024
- 07-01 - Internal - Thomas Stosskopf - Benchmarking Knowledge Graphs embedding approaches
- 06-17 - External - Alexis Poindron - The unate compatibility problem in regulatory Boolean networks
- 06-10 - External - David-Alexandre Trégouët - Impact of 5'UTR variants altering upstream open reading frames on the genetics of rare & common diseases
- 06-03 - Internal - Clément Moroldo - Stochastic Boolean Networks to assess epigenetic mechanisms impacting Hematopoietic Stem Cells ageing
- 05-21 - External - Franck Picard - In silico single-cell metabolism analysis unravels a new transition stage of CD8 T cells 4 days post-infection
- 05-06 - External - Philippe Roudot - Hematopoietic Stem and Progenitor Cell Mobility and Cytoskeletal Dynamics
- 04-29 - Internal - Laurent Tichit & Bianca Habermann - Analysing mitochondrial tissue diversity by integrating systematic multi-omics data
- 03-25 - Internal - Inès Assalit - Comprehensive Analysis of EEG and ECG Signals in Epileptic Seizures Prediction
- 03-18 - Internal - Solène Song - Deciphering chemical signals guiding T cells towards and in lymph node
- 03-11 - External - Guillaume Theyssier - On symmetry versus asynchronism in automata networks
- 02-26 - External - Florence Bansept - Host-associated microbial communities: stories of migration
- 02-19 - External - Jean-Michel Arbona - Neural network and kinetic modelling of human genome replication
- 02-12 - External - Baptiste Alberti - econstructing spatial gene expression and enhancer activity in Drosophila embryos with scRNA-seq and optimal transport
- 02-05 - Internal - Philippe Baratta - Spatial statistics in observational cosmology
- 02-05 - Internal - Elsa Fanchon - Data science & operations research
- 01-23 - External - Elias Ventre - Calibration of stochastic models of gene expression from time-courses of single-cell datasets
- 01-15 - External - Elena Queirolo - From switching systems to smooth simulations - what persists?
- 01-08 - Internal - Clément Moroldo - Epigenomic-aware modelling of hematopoiesis
2023
- 11-06 - Internal - Élisabeth Remy - Qualitative modelling of genetic regulatory networks
- 10-23 - Internal - Maroua Chahdil - Integration and exploration of knowledge networks related to rare diseases to optimize diagnostic and therapeutic processes
- 10-16 - External - Elen Goujon - Handling confounding factors in analyzing the transcriptomic data from Chornobyl tree frogs
- 10-09 - External - Jocelyn Dunstan - Advances in natural language processing in Chile
- 10-02 - Internal - Benjamin Loire - All you ever wanted to know about scRNAseq analysis
- 09-18 - External - Estefania Torrejon - Analysis and integration of omics data to understand the role of Extracellular Vesicles in Diabetes Type II
- 09-11 - Internal - Sevda Rafatova - Inspecting the role of Prkar1a during cardiac development by single cell analysis
- 06-26 - Internal - Zachary Assoumani - Revisiting and extending probabilistic Boolean networks
- 06-19 - Internal - Maylis Mesples - Analyse de données protéomiques pour comprendre les spécificités du cancer du sein Triple-Négatif
- 06-19 - Internal - Jude-Felix Tenywa - Omics data analysis for the evolutionary analysis of T-cell Acute Lymphoblastic Leukemia
- 06-19 - Internal - Valentin Jossemit - Towards a better data management
- 06-12 - Internal - Zachary Assoumani - Analyse combinatoire et probabiliste de nuages de points géométriques
- 06-05 - Internal - Cécile Beust - Multilayer Biological Network Exploration for Premature Aging Diseases
- 06-05 - Internal - Hoang-Anh Nguyen - Network approaches for the bioinformatics analysis of Acute Leukaemia of Ambiguous Lineage
- 05-22 - External - Mathieu Carrière - Topological analysis of immunofluorescence images
- 05-15 - Internal - Morgane Térézol - ODAMNet: a Python package to study molecular relationship between chemicals and rare diseases
- 04-17 - Internal - Judith Lambert - Clustering patients from patient networks constructed from different similarity measures: application to a medico-administrative database
- 04-03 - External - Dominique Barbolosi - Sur l'intérêt des modèles phénoménologiques en oncologie clinique
- 03-27 - External - Mégane Boujeant - BioGOLDnet in the GOLD initiative
- 03-20 - Internal - Nadine Ben Boina - Most permissive semantics as a tool to refine Boolean models
- 03-13 - Internal - José Antonio Sánchez-Villanueva - Modeling of the regulatory network behind Retinoic Acid resistance in acute promyelocytic leukaemia
- 03-06 - External - Nazlı Sıla Kara - Understanding ALS: Combination of network biology, protein modeling and genetic epidemiology to untangle complex disease mechanisms underlying ALS
- 02-27 - Internal - Anaïs Baudot & Morgan Terezol - Feedback on IFB's Integrative Bioinformatics training
- 02-20 - Internal - Paul Villoutreix - Inference and machine learning methods in developmental biology: bridging morphogenesis with gene expression patterns
- 02-06 - External - Rafika Boutalbi - Clustering approaches for tensor data
- 01-30 - Internal - Solène Song - How to describe development quantitatively using time-evolving multiplex networks?
- 01-23 - External - Elva Maria Novoa Del Toro - MetClassNet in a nutshell: using metabolomic networks to fill the knowledge gap in the metabolism
- 01-16 - Internal - Ozan Özışık - GENETWORK4DIAG, patient support based gene prioritization
2022
- 12-05 - External - Linus Bleistein - Learning the dynamics of sparsely observed interacting systems for real-time prediction
- 11-28 - External - Nicola Pedreschi - The temporal rich club phenomenon
- 11-14 - External - Stephen Chapman - Advances in flux balance analysis
- 11-07 - Internal - Nadine Ben Boina - Mathematical modelling of rare diseases
- 10-24 - Internal - David Hirst - Inferring differentially active biological processes, from small sample gene expression data sets, with a transfer learning approach to matrix factorization
- 10-10 - External - Juliana Arcila-Galvis - Characterization of the monocyte lineage enhancers and their role in disease
- 10-03 - Internal - Saran Pankaew - PhD defense rehearsal
- 09-26 - Internal - Anthony Baptista - PhD defense rehearsal
- 09-12 - External - Galadriel Brière - Methodological developments for omic data integration: applications to oncology and neurosciences
- 07-13 - Internal - Saran Pankaew - Calcium signaling is impaired in PTEN-deficient T cell acute lymphoblastic leukemia
- 07-06 - External - Julio R. Banga - Optimization in computational systems biology
- 06-27 - Internal - Samina Kausar - An Automated and Interactive Seurat scRNA-seq analysis and visualization framework
- 06-20 - External - Leo Diaz - Hypergraphs as a general representation of dynamical systems
- 06-13 - Internal - Laurent Tichit - DecoupleR: ensemble of computational methods to infer biological activities from omics data
- 05-23 - External - Laura Cifuentes Fontanals - Control strategy identification in Boolean networks
- 05-08 - Internal - Morgana Terezol - Orsum: a Python package for filtering and comparing enrichment analyses using a simple principle
- 04-25 - External - Marina Esteban Medina - Leveraging systems biology and machine learning for accelerating drug repurposing in the rare disease landscape
- 03-28 - External - José Antonio Sánchez-Villanueva - Modeling of a transcriptional and epigenetic network to predict and overcome treatment resistance in acute promyelocytic leukaemia
- 03-14 - External - Carl Herrmann - Divide and rule: approaches for dimensional reduction and data integration of multi-omics datasets
- 03-07 - External - Pauline Brochet - Multi-omic analysis to decipher the pathogenic process associated to Chagas disease Cardiomyopathies
- 02-21 - Internal - Francesca Zaccagnino - Contextualisation of signalling fluctuations in resilient versus vulnerable biological systems: an experimental and modelling approach
- 02-07 - Internal - Nadine Ben Boina - Mathematical Modelling of rare diseases
- 01-24 - External - Thien Vu Manh - Activation trajectory of splenic plasmacytoid dendritic cells during an in vivo viral infection, using single cell approaches
- 01-17 - Internal - Samina Kausar - Analysis and Comparison of Vector Space and Metric Space Representations in QSAR Modeling
- 01-10 - Internal - Laurent Tichit - From algorithms on trees to network analysis: biological applications
2021
- 12-13 - External - Benoit Ballester - A data parasite story : from integration of omic data to the identification of regulatory regions transcription
- 11-29 - Internal - David Hirst - Inferring differentially active biological processes, from small sample gene expression data sets, with a transfer learning approach to matrix factorization
- 11-22 - External - Solène Song - Random walks on large networks reveal the influence of local heterogeneities: the migration of T cells in lymph nodes as a use case
- 11-15 - External - Saswati Saha - Detecting higher-order epistasis interactions using mixed-effect conditional inference forest (epiMEIF)
- 11-08 - Internal - Anthony Baptista - Multilayer models and exploration methods for biological networks
- 10-11 - Internal - Saran Pankaew - Modelling PTEN & TCR signaling network in thymocytes
- 09-27 - Internal - Céline Chevalier - Validation of an in vitro model able to reproduce the pharyngeal mesoderm cells' fate
- 09-20 - External - Cécile Capponi - A contribution in ML and biology, part III
- 09-13 - Internal - Léonard Hérault - Study of haematopoietic stem cell ageing using systems biology: RNA sequencing and gene regulatory Boolean network at the single cell level
- 09-06 - External - Cécile Capponi - A contribution in ML and biology, part II
- 07-05 - External - Cécile Capponi - Some contributions in ML and biology, part I
- 06-21 - External - Alberto Valdeolivas Urbelz - Spatial transcriptomics to better understand the heterogeneity in human Colorectal cancer & Comparison of Resources and Methods to infer Cell-Cell Communication from Single-cell RNA Data
- 06-14 - Internal - Judith Lambert - Identifying association between genotypes and patient care trajectories using patient's network
- 05-31 - Internal - Louise Labatie & David Hirst - MSc thesis defence rehearsal
- 05-17 - Internal - Nadine Ben Boina & Mathieu Boulinguiez - MSc thesis defence rehearsal
- 05-10 - Internal - Stephen Chapman - Development of an integrated sustainability matrix to depict challenges and trade-offs of introducing bio-based plastics in the food packaging value chain
- 04-26 - Internal - Francesca Zaccagnino - Contextualisation of signalling fluctuations in resilient versus vulnerable biological systems: an experimental and modelling approach
- 03-29 - Internal - Maxime Lucas - Phasik: Inferring cell cycle phases from a partially temporal network of protein interactions
- 03-22 - External - Michael Pierrelee - TimeNexus: A Novel Cytoscape App to Analyze Time-Series Data Using Temporal MultiLayer Networks (tMLNs)
- 03-15 - External - Delphine Potier - Using single-cell approaches to better understand T-cell differentiation and leukemogenesis
- 03-08 - Internal - Saran Pankaew - Modelling PTEN & TCR signaling network in thymocytes
- 02-15 - Internal - Ozan Özışık - Network approaches for rare diseases - What we do in EJP-RD (European Joint Programme on Rare Diseases)
- 02-08 - Internal - Vera Pancaldi - Network approaches from chromatin to tissues
- 01-18 - Internal - Damien Courtine - The fungus Drechmeria coniospora: insights into the increase of virulence after 20 years of culture
2020
- 11-23 - Internal - Stephen Chapman - Construction of a logical model, focusing on the crosstalk between Hematopoietic stem cells and Mesenchymal stromal cells, and the first steps towards myelofibrosis
- 11-02 - Internal - Francesca Zaccagnino - Contextualisation of signalling fluctuations in resilient versus vulnerable biological systems: an experimental and modelling approach
- 10-05 - Internal - Ozan Özışık - Myopathies: distal, proximal, sometimes both
- 09-28 - External - Jean-Marc Schwartz - Systems and network-based approaches for the investigation of human diseases
- 08-31 - Internal - Anthony Baptista - Multilayer models and exploration methods for biological networks
- 06-22 - External - Fabien Jourdan - Metabolic networks to interpret and predict metabolism
- 06-15 - External - Rion Brattig Correia - Using complex systems methods to improve human health: from genes responsible for diseases to the epidemiology of drug-drug interactions
- 06-08 - Internal - Ariel Chenet & Ndeye Bireume Sarr - MSc thesis defence rehearsal
- 06-01 - Internal - Marine Ha-Shan & Maroua Chahdil - MSc thesis defence rehearsal
- 04-13 - External - Anna Niarakis - Automated inference of large-scale Boolean models, based on network topology and semantics of static molecular maps. Application on Rheumatoid Arthritis and the RA-map
- 04-06 - External - Alain Barrat - Modeling social contagion: beyond networks
- 03-16 - Internal - Anthony Baptista - Studying relationships b etween rare and common diseases with multilayer genomic, molecular and disease networks
- 02-03 - External - Franck Delaplace - Controlability of the interactome
- 01-27 - External - Alberto Valdeolivas Urbelz - Overview of the projects in Saez-Rodriguez Group, Heidelberg
2019
A calendar of previous seminars is located here.