Joachim Goedhart

WAChRs are excitatory opsins sensitive to indoor lighting Hundreds of novel opsins have been characterized since the advent of optogenetics, but low experimental throughput has limited the scale of opsin engineering campaigns. We modified an automated patch-...

WAChRs are excitatory opsins sensitive to indoor lighting

www.biorxiv.org/content/10.1...

I’m happy to share some plugins I’ve been developping this summer: "Channels and Contrast" and LUTs Manager!
I can’t find new bugs and ideas by now so I need your help to please test them in your machines and report bugs, feedbacks and ideas! forum.image.sc/t/looking-fo...

Slidev Presentation slides for developers

Anyone here with experience with sli.dev for making slides using Markdown. I saw one example (by @fonnesbeck.bsky.social) that looked absolutely fantastic, so I'm quite interested in giving it a try. Any experience among my followers?

Sometimes I think about how from 1935-1975ish, Bell Labs produced an insane amount of revolutionary science and technology, including 11 Nobel Prizes, the transistor, UNIX, C, the laser, the solar cell, information theory, etc. The secret? Provide scientists with ample, steady, no-strings funding.

as this unexpectedly went semi-viral - NB: I only tried this protocol, all credit goes to www.med.upenn.edu/markslab/ and probably someone even before :)

On the left - western blot of B16F10 cells wt and KO for CDK8. Our in house produced antibodies give a lot of unspecific bands. On the right same probes with antibodies preincubated with fixed CDK8 KO cells - there is a specific band and faint unspecific bands, which can be probably eliminated with increase of amount of KO cells.

Neat trick if you polycolonal ab's suck. Incubate them with fixed cells with a KO of your protein of interest, then spin. Protocol here: www.med.upenn.edu/markslab/ass...
I was amazed how well it worked on first try (I'm sure that I can completely eliminate unspecific bands)
#WesternBlot #cellsky

The Microscopists | Christophe Leterrier (CNRS & Aix-Marseille Université) This time on The Microscopists, we're joined by Christophe Leterrier, team leader at NeuroCyto in Marseille and director of a Nikon Center of Excellence for super-resolution microscopy.Christophe r...

Want to hear a mid-career PI pontificate about science, career and cooking? Today's your lucky day thanks to The Microscopists podcast! Thanks Peter @yorkbioimaging.bsky.social for having me 🎙️🎧
themicroscopists.bitesizebio.com/episodes/chr...

Does anybody know whether Alexa Fluo 405 works well in the DAPI channel?
www.thermofisher.com/uk/en/home/l...

A text input interface with a submit button. In the text area: "I'm writing some text and want a new line..."

You arrive at a text input and start typing. Would you rather

1️⃣ Press Enter to submit your text
2️⃣ Press Enter to add a new line

2️⃣

Whelp, I did not make the cut. Luckily, I have been given an amazing opportunity elsewhere; and who knows, maybe in a few years things there will be a similar position.

But maybe this is a good opportunity to talk about what it's like to apply for academic positions as a postdoc:

screenshots of some of the sample implementations

Screenshot of smartmicroscopy.github.io/implementations.html, showing an overview of collected implementation examples

Want to get started with smart microscopy? 🧠🔬
Check out our online repository with implementations from labs and industry -- lots of practical tips and links to sample code! smartmicroscopy.github.io/implementati...

More details in the ✨updated preprint!✨
www.biorxiv.org/content/10.1...

Phosphorylation on tyrosines control key pathways in immunity, cancer, and metabolism. For the first time, we can now design proteins that specifically recognize individual phosphotyrosines, even in disordered regions. (1/8)

Preprint: www.biorxiv.org/content/10.1...

Carefully reading the papers you cite is like a superpower. You might be surprised what you actually find! 😜

Figure 1: Fluorophore intensity in the Drosophila blastoderm (n.c. 14). Comparison of (A) green and (B) red fluorescence intensity using the same intensity scaling in n.c. 14. The fluorescence signal did not saturate. Shown are single imaging planes. Normalised histograms of fluorescence intensity for green (C) and red (D) fluorophores averaged across at least n=3 embryos per line. Scale bars = 20 μm

Identification of optimal fluorophores for use in the Drosophila embryo by Timothy E Saunders and team: www.biorxiv.org/content/10.1...

Excited to kick off the INNOQ Technology Day with @felienne.bsky.social. Her keynote explores how coding skills shift (or don’t) in the age of AI with tools like ChatGPT and Cursor.

📅 Nov 20, 9 AM CET, online
👉 technologyday.innoq.com/programm/increasing-your-skill-in-programming-in-the-age-of-ai

Anyone else attending #NWOBiophysics2025 ?

Cool, hope to get a chance to catch up!

I do agree!
I'm not sure that people realize that unmixing spatially separated probes is much easier than unmixing species that occupy the same pixel/voxel. I see potential for FLIM for the first application, not convinced that FLIM is ideal for the second application....

Are you attending #NWOBiophysics2025 ?

Unmixing tau-STED, is that also unmixing two species in the same spectral channel?

I think it would be cool to generate synthetic data and see how far one can theoretically get...

From my experience (which is anecdotal and qualitative, I realize that), one needs really high S/N for proper unmixing.
Even under these conditions the structures do not look crisp and free from crosstalk ⬇️ (cropped from figure 4)

--- title: "Kinda automatic date range" date: 2025-09-30 date-format: "MMMM [29–]DD, YYYY" language: title-block-published: Workshop dates ---

Kinda automatic date range Workshop dates September 29–30, 2025

Just discovered a neat little #QuartoPub trick for formatting a range of dates. Quarto doesn't support start/end dates, but you can modify the date formatting string to fake it quarto.org/docs/referen...

⚠️ Half of commercial antibodies miss their target!
So how do you pick the right one for your experiment?

Here’s the solution 👉
Antibody characterization data (all tested in KO cells) are now available at:
🔗 onlygoodantibodies.co.uk

Tested by @ycharos.bsky.social & @oga-community.bsky.social

I have written a more extensive pppr:
bsky.app/profile/joac...

The authors of the paper write “Our work introduces the concept and development of tr-FPs as a transformative toolset”. From my perspective, while the paper represents solid technical work, the fundamental concepts and approaches have been established for quite some time.

Cell co-expressing different FPs to highlight different structures

Since the simultaneous visualisation of 2 - 4 fluorescent proteins is usually enough, using spectral variants is the easier way to go. There are numerous spectral variants with high brightness and good photostability that allow this.

Do I recommend the unmixing strategy for multiplex imaging? Not really, as it requires a lot of photons to get lifetime data of sufficient precision for decent unmixing. Therefore, we have not used it for practical applications yet.

Should you use it?

Using FLIM to discriminate spectrally identical fluorescent proteins is well established. It can readily be done with existing variants. We do unmixing to demo FLIM in workshops - plasmids are available to DIY: www.addgene.org/browse/artic...