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Depositordc.contributorRoman Garcia, Susana
Funderdc.contributor.otherUniversity of Edinburghen_UK
Data Creatordc.creatorRoman Garcia, Susana
Data Creatordc.creatorStefan, Melanie
Date Accessioneddc.date.accessioned2017-10-09T16:09:07Z
Date Availabledc.date.available2017-10-09T16:09:07Z
Citationdc.identifier.citationRoman Garcia, Susana; Stefan, Melanie. (2017). Computational modelling and simulation of the interaction between NMDA receptors and CaMKII in the postsynaptic neuron, [dataset]. University of Edinburgh. School of Biological Sciences. https://doi.org/10.7488/ds/2226.en
Persistent Identifierdc.identifier.urihttp://hdl.handle.net/10283/2917
Persistent Identifierdc.identifier.urihttps://doi.org/10.7488/ds/2226
Dataset Description (abstract)dc.description.abstractNMDAR and CaMKII interactions in the postsynaptic neuron play crucial roles that underlie our ability to learn and form memories. Their activity varies with time and space, and elucidating this matter is important for understanding how memory works. We develop a computer model that creates realistic 3D movements and reactions of molecules within a cell. It is an isolated model that enables us to look specifically at our molecules of interest, NMDARs and CaMKII. The report aims to answer three main questions which should address: the validity of our model against previous knowledge, the effects of sub-cellular localization on CaMKII and the effects on CaMKII by abolishing CaMKII/NMDAR binding. For the first question, we compared results with published literature. Secondly, counting boxes were added to the cell to assess if PSD regions were associated with higher molecule levels compared to cytosolic regions. Lastly, a mutant model was created to account for effects of CaMKII/NMDAR binding impairments. These experiments found that our model is consistent with what is known about sequence of molecule reactions and timeline of CaMKII activation. We could not conclude that space affects CaMKII activity as suggested, but we found that abolishing the interaction between NMDARs and CaMKII increased levels of free, phosphorylated CaMKII. This item supersedes and replaces the one which can be found at http://hdl.handle.net/10283/2726.en_UK
Dataset Description (TOC)dc.description.tableofcontentsThis fileset contains three zip archives: (1) "Mutant and WT models.zip" (which was *not* included in http://hdl.handle.net/10283/2726) ... and the following two zip archives which *were* present in the earlier version http://hdl.handle.net/10283/2726: (2) "Postsynaptic cell, mutant NMDAR-CaMKII interactions.zip" (3) "Postsynaptic cell, NMDAR-CaMKII interactions.zip"en_UK
Languagedc.language.isoengen_UK
Publisherdc.publisherUniversity of Edinburgh. School of Biological Sciencesen_UK
Supersedesdc.relation.replaceshttp://hdl.handle.net/10283/2726en_UK
Rightsdc.rightsCreative Commons Attribution 4.0 International Public Licenseen
Sourcedc.sourceWith thanks to colleagues from MCell.org for assistance with technical matters.en_UK
Sourcedc.sourceWith thanks to colleagues from The National Center for Multiscale Modeling of Biological Systems (MMBioS) for assistance with technical matters.en_UK
Sourcedc.sourcehttps://www.blender.org/en_UK
Subjectdc.subjectMolecular Biologyen_UK
Subjectdc.subjectNeuroscienceen_UK
Subjectdc.subjectMCellen_UK
Subjectdc.subjectComputer modellingen_UK
Subjectdc.subjectNMDAR and CaMKII interactionsen_UK
Subjectdc.subjectPostsynaptic neuron modelen_UK
Subject Classificationdc.subject.classificationBiological Sciences::Molecular Biology Biophysics and Biochemistryen_UK
Titledc.titleComputational modelling and simulation of the interaction between NMDA receptors and CaMKII in the postsynaptic neuronen_UK
Typedc.typedataseten_UK

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  • Stefan Lab
    The Stefan Lab is interested in the computational modelling of processes related to learning and memory across scales.

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