Final Project: Rene Norman-MATLAB modeling of hnRNP A2 RNA granules

RNA granules are non-membrane bound organelles comprising of multivalent RNA and protein interactions. One subset of RNA granules contains the scaffolding protein Tumor Overexpressed Gene (TOG) with seven binding domains for the RNA binding protein hnRNP A2. hnRNP A2 then binds specifically to A2 Response Element (A2RE) containing RNAs or CGG repeat containing RNAs. Single molecule imaging studies reveal that on average a granule contains 20 TOG molecules, more than 100 hnRNP A2 molecules and 60 RNA molecules. We can therefore define a subunit of an RNA granule as a TOG molecule saturated with hnRNP A2 molecules and with 3 specific RNAs bound. The only interaction remaining is the non-specific interaction of RNA with hnRNP A2 sites. Therefore, we can use the Gillespie algorithm to stochastically model the assembly of RNA granules using probabilities based on the kinetic constants for non-specific RNA: A2 interaction. From this, we can gain insight into what regulates size and dynamics of RNA granules. Furthermore, by adding CGG expansions to the model which increases the number of available binding sites, we can gain insight into structural granule differences that may expedite CGG repeat disorders.

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2 responses to “Final Project: Rene Norman-MATLAB modeling of hnRNP A2 RNA granules

  1. You win!!! (This is the first abstract.) It sounds like it has gone well. I look forward to your presentation.

  2. Yeah, but it posted twice and I can’t delete it.

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