"From virtual cell to virtual human and virtual patient"
International workshop, Novosibirsk, Russia, June 24, 2012
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BioUML - open source Java platform for systems biology

 
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 Site Content 
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   Apoptosis 
   Cardio-vascular system 
     Overall circulation model 
     Short term (pulsating heart) 
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     Modular model version 1 
     Modular model version 2 
 
     
  Information letter

Dear colleagues,

Recent advances in molecular and systems biology provide us with a huge amount of data about the main components and processes occurring in eukaryotic cells and their regulation.

We beleive that the available experimental data allows for detailed and comprehensive reconstruction of biochemical and genetic processes of living cells of the human organism. This leads us to the possibility of building a mathematical model of a living human cell - the virtual cell.

Also we should take into account various types of virtual cells reflecting the great variety of cell types in the human organism as well as different implementations of virtual cells reflecting individual genetics and epigenetics - the "personalized virtual cells".

To build the virtual human we propose two approaches:
- bottom-up - the virtual cells will serve as a basis for further endeavor towards building models of the whole tissues and organs and finally the whole organism - the virtual physiological human
- top-down - using this approach we can describe the organism as a number of interconnected black boxes. Each black box contains a number of equations to describe corresponding physiological or biochemical parameters of organism. Step by step we can replace black boxes by grey boxes, and finally they will be replaced by organ and tissues composed from virtual cells.

The ultimate objective is to create a model of the personalized virtual human or virtual patient that will be extremely useful in medicine as a means of computational identification of the most effective therapeutic interventions and for prediction of potential outcomes of intended treatments for a given patient.

The main challenges we have to face while building the virtual cell and virtual human currently are:

  • methodology - how we can build and verify complex mathematical models
  • organization - how we can split main tasks into smaller, manageable parts and organize collaboration between researchers
  • software - we need a software platform that will provide necessary infrastructure for collaborative work of many researchers.

During the workshop we would like to discuss possible answers to these challenges:

  • BioUML platform -  integrated open source platform for collaborative research in systems biology
  • modular modeling and functional tests - as the main part of methodology for building and verifying complex mathematical models of biological systems. Modular modeling also allows us to combine "bottom-up" and "top-down" approaches for building virtual human.
  • Biostore - portal for collaborative research and crowd sourcing.

Some examples demonstrate applicability of the suggested approach:

It is supposed that during the workshop all talks and posters will be structured around the suggested approach.

For this purpose the web site contains detailed information about the suggested approach. We would recommend familiarizing yourself with the materials posted here and hope they will help you prepare your talks.

During the workshop we would also like to discuss, organize and plan some particular steps within the further course of action and international collaboration projects for building the virtual cell and virtual human using the aproach described above.

The workshop "From virtual cell and virtual human to virtual parient" will be held just before the Multiconference "New biology" that includes a number of events integrating bioinformatics and experimental approaches into the research of biological systems and processes.

We are looking forward to seeing you in Novosibirsk, Russia, June 24, 2012.

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[an error occurred while processing this directive] The workshop program
[an error occurred while processing this directive] The workshop program
 
[an error occurred while processing this directive] Multi-conference "New biology"
[an error occurred while processing this directive] Multi-conference "New biology"
 
[an error occurred while processing this directive] BGRS\SB'2012 conference
[an error occurred while processing this directive] BGRS\SB'2012 conference
 
[an error occurred while processing this directive] PBT-2012 conference
[an error occurred while processing this directive] PBT-2012 conference
 


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