Activities per year
This project initiated the construction of computational models of microRNA-driven gene networks by focusing on the miR-132/p300 interaction, as this was a well-characterised interaction with direct relevance to immune responses to pathogens. In parallel, we performed high-throughput sequencing experiments to characterise a novel RNA-binding protein that seems to regulate miR-132 abundance. We believe we made significant progress particularly with regards to the computational aspect of the project: Starting with no more than an idea we reached a point where we have a fully implemented simulation, in other words a computer program that follows the specific
biological rules required. Importantly this represents the first application of agent-based modelling to molecular networks. As expected the time available was not sufficient for full calibration of the model, which is required for publication, but it has provided a platform for the training of a PhD student and preliminary data to be included in grant applications. Indeed this collaboration set the foundation that attracted a Wellcome Trust-funded PhD student (CIDCATS programme), who is working in the project since October 2012.
This work initiated a new collaboration between the Lagos (RNA biology) and Timmis (Agent based computational modelling) groups.
Richard Greaves was the employed PDRA in the project and is currently working in a related project with Jon Timmis and Mark Coles. Sarah Hayes, a summer student in the project, was offered a PhD in Kings Collage London following this placement.
Medical Research Council, Lagos, New Investigator Research Grant, miR-132 as a master regulator of the immune response, £449,869.
C2D2, Timmis, Coles, Rose, Bees, Lagos, Pollack, Consolidator Grant, Advancing Immunology through computational modelling, £91,049
NC3Rs - CRACK-IT, Phase 1, Kaye, Croft, Timmis, Alavijeh, Coles, Mottram, Walsh, A multiscale model to minimise animal usage in leishmaniasis drug development, £100,000 (Lagos to be included in Phase 2).
European Research Council, Lagos, Consolidator Grant
BBSRC, Timmis, Coles, Rose, Lagos, TDRF Grant
Exploring microRNA regulatory networks using Agent-based Modelling
Greaves R., Leonov J., Timmis J., and Lagos D.
Submitted to ICARIS International Workshop on Computational Biology
|Effective start/end date||1/03/12 → 30/09/12|