It's been almost a week now that I am back from "fish camp", or, officially, the "Zebrafish Development and Genetics" course at the Marine Biological Laboratory in Woods Hole. The various summer courses at the MBL are the stuff of legend, for various reasons. So what does a day in fish camp look like? If you're … Continue reading 2015 Zebrafish course at the Marine Biological Laboratory
My colleagues Greg Stacey - ResearchGate Profile, Tom Quail - ResearchGate Profile, and myself have published a new article in the Journal of Neurophysiology, "Computational Study of Synchrony in Fields and Microclusters of Ephaptically Coupled Neurons". Intrigued by a small set of previous works hinting at electric field-medited coupling between pairs of extremely close neurons, … Continue reading New Study: Wireless Synchronization of Neurons?
In this post, I discuss different quantities that can be extracted from in vitro motility assay velocity distributions. I explain how the average velocity, the continuous sliding velocity, and the motile fraction relate to each other. There are two examples how these quantities change for different experimental effects in the motility assay. I close discussing different … Continue reading Motile fraction and actin velocity in in vitro motility assays
A good friend recently asked me what I would use to keep track of articles I downloaded and read. I took a moment, and answered: "You probably should first start thinking about how you find the right research. I'll answer you in a blog post." Some time passed, so I realized I should list the … Continue reading Software that got me through my PhD
Title says it all... Here is roughly what happens in the code below: We specify the sample size of the example groups we want to create. We create normally distributed sets of samples for each group with equal standard deviation. We sort the samples' values into vectors that can be used by the MatLab ANOVA … Continue reading 1-way ANOVA and Multiple Comparison Example in MatLab
Detecting synchrony in neuron populations is an important task - often from the perspective of epilepsy and its origins. Several other neurological disorders are linked to hyper- and hyposynchrony, as well. Mostly synchrony is assessed over a whole population of neurons. The z statistic is frequently used to quantify synchrony, especially when thinking of neurons … Continue reading Functional Clustering [CAMBAM Comp Neurosci Online Talk]
Here is another simple example of the implementation of a Gillespie algorithm in MatLab. It is again for the students of our course "Topics in the Physical Basis of Physiology". I can highly recommend the course, it is one of the few that successfully combines "real" Physiology and Biology (not just toy models) and "real" … Continue reading Simple Example of Gillespie Algorithm in MatLab