I will be visiting the Santa Fe Institute for Complex Systems from Wednesday 20 Feb to Friday 22 Feb. This will be the occasion to discuss potential projects with future CRI fellow and “network archeologist” Stefani Crabtree, as well as discover this fantastic place in the desert mountains of New Mexico!Continue reading
This Wednesday 17 October, I will talk (in French) about hubs and network science at the interdisciplinary co-working space “Le Onzieme Lieu” in Paris. The talk will be in French and for a lay audience. After the talk, we will organise a network game with Liuba Tupikina and there will be an exhibit of network art by Roberto Toro and Katja Heuer, all colleagues from the CRI. The place is fantastic, as it mixes a traditional co-working space setup with artist galleries. Come hang with us and discuss networks!
I gave a talk on the iGEM competition as a microcosm to understand team success in science at the Sunbelt 2018 conference in Utrecht, in the “Wicked problems” session. Had great feedback from the social sciences crowd, and a great conference overall! Taking back some new ideas to pursue, and hope to be at the next one in Montreal in 2019!
This work (pdf) was done during my postdoc at the BarabasiLab. We investigated the role of network topology in accurately predicting perturbation patterns in biological network. Indeed, the development of high-throughput technologies has allowed mapping a significant proportion of interactions between biochemical entities in the cell. In short, we begin to have a good mapping of the subcellular “interacotme”. However, it is unclear how much information is lost given the lack of measurements on the kinetic parameters governing the dynamics of these interactions. Using biochemical networks with experimentally measured kinetic parameters, we show that a knowledge of the network topology offers 65–80% accuracy in predicting the impact of perturbation patterns. In other words, we can use the increasingly accurate topological models to approximate perturbation patterns, bypassing expensive kinetic constant measurement. These results could open new avenues in modeling drug action and in identifying drug targets relying on the human interactome only.
This paper (pdf) is a result of a collaboration between the Sharma Lab at Harvard Medical School and the Renz group at Philipps University Marburg. In this work, I developed IDEAL, a method to predict the role of micro-RNAs (miRNAs) in a disease based on their topological impact in the interactome, and not on their fold-change. The method was applied in the case of asthma, based on an experimental setup and validation done by Ayşe Kılıç (a massive work!). We found that a cocktail of 5 miRNAs identified as having large topological impact, but not large expression fold-change, led to a sharp reduction of the asthmatic Th2 phenotype.
The network medicine satellite “NetMed18: Personalized Medicine in the Era of Big Data” at the NetSci18 conference was a success! With talks ranging from interactome and patient network approaches, social media and word embedding, brain stimulation, genetics and molecular biology… The multi-faceted approaches to network medicine were well represented! Can’t wait for next year 🙂
I am happy to give a presentation on the iGEM project on 11 June 2018 at the “Quantifying success” satellite of the Network Science conference NetSci18! The program looks wonderful!
I will be presenting my work on team success in the iGEM competition at the Sunbelt 2018 conference in Utrecht (Netherlands) on 30 June 2018, as well as at the International Conference on Computational Social Science IC2S2 at the Kellogg School of Management at Northwestern University, Evanston IL (USA) on July 13-15 (exact date to come). If you are also going to any of the two, ping me!