Tag: electrophysiology

Intan CLAMP Patch Clamp Amplifier Systems

Multiple people have asked for a discussion of Intan CLAMP patch clamp amplifiers. For those who are unfamiliar with them, they’re miniaturized patch clamp amplifiers. What looks like a headstage, is actually an entire amplifier. So that cable out the back of the “headstage” is actually a digital signal, and thus less susceptible to noise.



Series resistance in patch clamp experiments

For teaching electrophysiology, there’s still a lack of comprehensive references. In particular, it can be difficult to impart to students an intuitive feel for the quality or fidelity of electrophysiological recordings. How close to the truth are those traces you just recorded? This sort of practical discussion is often touched upon in electrophysiological texts, but



SpikeGadgets extracellular recording and open source software

SpikeGadgets makes hardware and software for extracellular array recording. They make nice looking hardware, both for recording from arrays, and for controlling experiments. They sell a few accessories as well, including this commutator. Their software is open source. MATLAB and Python code is also part of the project. The company’s run by Mattias Karlsson (worked



Postdoc position with Duguid in Edinburgh

A world-class in vivo patch clamp electrophysiologist, Ian Duguid, is recruiting to his lab. Ian provides excellent training, and his lab is in a tremendous setting: Edinburgh. Ian’s also one of the current leaders of the famous CSHL Ion Channels course. By the way, his web site also has some interesting machine drawings and other



3D printed fly holder

Peter Weir has a nice write up and directions on how to make the fly holder from his recent paper. He has some other useful notes that are worth checking out too: github, blog, web page. Hat tip to John Tuthill (link)



Open Ephys’ Cyclops LED driver

We covered Open Ephys back in 2013. They have well-developed devices for extracellular electrophysiology, and have some work on intracellular electrophysiology as well. Check out the Cyclops LED driver too. It continues to be an active community as evidenced by their wiki and forum.



PackIO for NI devices

Adam Packer wrote some LabVIEW software for acquiring and generating data from National Instruments cards called PackIO. It is meant to trigger and synchronize equipment as well as record any data, with a few specific modules for electrophysiology. The nice thing is that you can do just about everything in a hardware-timed fashion, so you’re



Course in Paris

The Optical Imaging and Electrophysiological Recording in Neuroscience course is Jun 9-19 in Paris. Application deadline is March 30. Lots of great people will be teaching, including Valentina Emiliani, Isabel Llano, Brad Amos, Troy Margrie, Laurent Moreaux, Alain Marty, and Boris Barbour.



Python ephys and calcium imaging analysis code

Andrew Giessel wrote some analysis code in Python when he worked in the Datta lab. He has since moved on to another venture, but he open-sourced the code. There are import routines for data from ScanImage and Ephus, but the majority of the code is acquisition platform agnostic. It’s called d_code.



Patch clamp amplifier in chip form

See that metal box the pipette holder is attached to? That’s not a headstage, that’s the whole patch clamp amplifier. Reid Harrison is the lead author (co-senior authors are Craig Forest and Ed Boyden) on a paper reporting their successful development of a microchip with all of the functionality of a patch clamp amplifier. Don’t



Brain slice methods

Brain slice methodology is a mix of rational approaches, post hoc rationalized approaches, and plain black magic. This web site covers some recent work on methodology. Also, here’s a related discussion on ResearchGate. Hat tip to B.S.



Measuring the junction potential

How to measure the liquid junction potential This is an old blog post, but the comments section is still somewhat active. Handy reference/training material.



OpenPicoAmp: an open lipid bilayer amplifier

Up on arXiv just recently, is Shlyonsky, Dupuis, and Gall’s OpenPicoAmp. They pitch it as an educational tool, and that’s probably what it’s best suited for, but the recordings look nice. It’s a fun PDF to flip through if you’re interested.



StimFit

Christoph Schmidt-Hieber and his collaborators Guzman and Schlogel have developed a cross platform (Linux, Windows, and OS X) application for analyzing electrophysiology data. Here’s the paper (open access). And here’s the code’s website. A key feature is that there’s a Python shell for scripting. Thus, in addition to being specialized software for analyzing electrophysiology data,



ACQ4: A Python-based open source system for neurophysiology

Luke Campagnola, Megan Kratz, and Paul Manis recently published their in-house software for neurophysiology experiments. It’s an extensive set of tools, including multiphoton imaging, photostimulation mapping, image mosaic construction, electrophysiology, and more. Website: acq4.org