Author Archives: P.T.R. Rupprecht

Whole-cell patch clamp, part 3: Limitations of quantitative whole-cell voltage clamp

Before I first dived into experimental neuroscience, I imagined whole-cell voltage clamp recordings to be the holy grail of precision. Directly listening to the currents that take place inside of a living neuron! How beautiful and precise, compared to poor-resolution techniques like fMRI or … Continue reading

Posted in Data analysis, electrophysiology, Neuronal activity, zebrafish | Tagged , , | 3 Comments

Whole-cell patch clamp, part 2: Line-frequency pick-up via the perfusion system

With the experience of more than one year of patching (although you might say that this is not a lot), I’m now used to problems that I can solve after some time, but without being able to tell what the problem has … Continue reading

Posted in electrophysiology, Microscopy | Tagged | 1 Comment

The spikefinder dataset

Recently, I mentioned a public competition for spike detection – spikefinder.codeneuro.org. I decided to spend a day two days and have a closer look at the datasets, especially the training datasets that provide both simultaneously recorded calcium and spike trains for single neurons. In … Continue reading

Posted in Uncategorized | 1 Comment

The crow as an animal model for neuroscience

Close to my apartment in the outskirts of Basel, green fields and some small woods lie basically in front of my house door. This is also where some flocks of crows gather around, partly searching the fields for food, partly … Continue reading

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Spike detection competition

The main drawback of functional calcium imaging is its slow dynamics. This is not only due to limited frame rates, but also due to calcium dynamics, which are a slow transient readout of fast spiking activity. A perfect algorithm would infer the … Continue reading

Posted in Calcium Imaging, Data analysis, machine learning | Tagged , , | 1 Comment

Matlab code for control of a resonant scanning microscope

For control of resonant scanning 2P microscopes, my host lab uses a software that I have written in Matlab. Due to some coincidences, the software is based on Scanimage 4.2, a version developed few years ago for an interface with a Thorlabs scope and Thorlabs … Continue reading

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Weblogs on circuit and cellular neuroscience

A couple of days ago, I discovered a list of neuroblog feeds managed by Neurocritic, covering almost 200 blogs in total. Out of those, I picked the blogs most relevant for circuit and cellular neuroscience. This excludes most blogs on cognitive neuroscience and … Continue reading

Posted in Links, Neuronal activity | Tagged , | 1 Comment