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SUMMARY:KInfer and BetaWB: tools for supporting the modeling workflow of B
 iological Systems - Alida Palmisano\, CoSBi
DTSTART:20090331T130000Z
DTEND:20090331T140000Z
UID:TALK14750@talks.cam.ac.uk
CONTACT:Dr Fabien Petitcolas
DESCRIPTION:*Abstract*: Developing novel quantitative conceptual and compu
 tational tools smoothly connecting models and experiments can give to life
  scientists a deeper understanding of fundamental biological principles. S
 tarting from the analysis of wet experiment data\, it is important to stan
 dardize and automatize each step of the modeling process in a way that hid
 es from the users the complexity of the technical details of the underlyin
 g algorithms and computations as much as possible.\n\nThe tools developed 
 in our research group can help biologists to infer the system knowledge co
 ntained in experimental measurements\, to build a model from those data in
  order to carry out in-silico experiments (with possible manipulations of 
 the structure of the model)\, to visualize and analyze the results in orde
 r to be able to suggest new experiments and/or solutions.\n\nIn this semin
 ar I would like to show\, in particular\, two tools belonging to our platf
 orm on a real relevant biological case study\, i.e. the budding yeast cell
  cycle. I will show how\, starting from wet experiment data\, we could use
  KInfer (a tool for kinetic inference) in order to have an estimation of t
 he kinetic parameter of the model\, and I will show how the model can be e
 asily translated from the ODE language to BlenX\, in order to use the Beta
 WB framework to perform stochastic simulations that are able to catch beha
 viors of the biological system that cannot be seen with the standard deter
 ministic approach.\n\n*Biography*: Short bio \nAlida Palmisano attended th
 e Faculty of Science at the University of Trento\, where she obtained a Ba
 chelor's degree (2005) and a Master's degree (2007) in Computer Science. H
 er thesis\, “Formal models of examples of biological synthesis and signa
 l transduction pathways\,” focused on building models of real biological
  systems using Beta-binders formalism and some specific extensions. In 200
 4 she worked at ITC-irst (Center for Scientific and Technological Research
 ) of Trento. The main goal of her work was the analysis of service-oriente
 d architectures for the development of softwares able to manage the automa
 tion of domotic devices. 
LOCATION:Small public lecture room\, Microsoft Research Ltd\, 7 J J Thomso
 n Avenue (Off Madingley Road)\, Cambridge
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