Tag Archives: parameter fitting

Uncertainty quantification for ion channel screening and risk prediction

This post accompanies our new paper in Wellcome Open Research. Regular readers of this blog will know that I worry about uncertainty in the numbers we are using to model drug action on electrophysiology quite a lot – see our … Continue reading

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Ablation, scars and insights from parameter lumping

This is quite a long post elaborating on a bit of work I’ve been doing with Greg Morley and his group, which was published in Scientific Reports. I hope it provides an accessible introduction to a fairly complicated set of experiments … Continue reading

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Should I work with IC50s or pIC50s?

When you are expressing how much a drug inhibits something, it’s common to fit a Hill curve through a graph of concentration against % inhibition as shown here: In our case this is often ‘% inhibition’ for a given ionic … Continue reading

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Model Complexity

We’ve been thinking about how to parameterise/train/calibrate models, and also how to select an appropriate model to begin with. This raises all sorts of interesting questions on the details, but this post is just about setting out a big overview … Continue reading

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If computational biologists did astronomy…

Here is a cheeky post along the lines of Can a biologist fix a radio? (well worth a read). The discovery that Pluto wasn’t the size we expected got me thinking about how we would have tackled it. So in … Continue reading

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Job Advert

A quick shameless plug for a job we are advertising. This is a 3 year postdoctoral position to work with me in the Computational Biology Group in the Department of Computer Science, University of Oxford. It would best suit someone … Continue reading

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Triangles and Conductances

Just a little post on something that’s really simple, not new, and might seem obvious to some people – but might help when choosing how to explore the effect of altering parameters on action potential model behaviour. The reason I … Continue reading

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