Stephan Saalfeld @herrsaalfeld@qoto.org

New paper shows (as many papers before) that code that is shared will often not run. This is to be expected - few of us had training in this. But if you share code, go through checklists to prevent the most common mistakes. From the paper: https://www.nature.com/articles/s41597-022-01143-6 For some extra suggestions, see my textbook chapter on computational reproducibility: https://lakens.github.io/statistical_inferences/computationalreproducibility.html#some-points-for-improvement-in-computational-reproducibility

Today, there's a new release of https://openorganelle.janelia.org, full of features added by Davis Bennett, @avweigel and the rest of the CellMap (COSEM) team. My contribution was a new video of "fenestrae" in mouse liver hepatic epithelial cells. (1/2)

https://www.youtube.com/watch?v=CarYt7AJMnE

One of the hard things about immigrating to Germany is the general lack of positive feedback. I was born here, but I'm still very American, so I give positive feedback & it makes ppl uncomfortable sometimes.

This from the Max Planck Society's guide for foreign scientists:

Medical selfies https://erictopol.substack.com/p/medical-selfies

OK, now that I've moved over to sigmoid.social, time for my first...uh...tootprint? Mastoscript? Manudon? Screw it - we wrote a paper and I want to share it with you.

Very pleased to be able to share this one: is attention all you need to solve the Schrödinger equation? https://arxiv.org/abs/2211.13672

You only need about 8 minutes a day (56 min/week) of vigorous exercise for max benefit wrt all-cause mortality, according to a new study. Most people don't understand what "vigorous" really means—~80%-ish of max HR—and won't ever get there. And there are confounds, like short time horizon, use of accelerometers, observational design, etc. Nevertheless, provocative.

Vigorous physical activity, incident heart disease, and cancer: how little is enough https://academic.oup.com/eurheartj/advance-article/doi/10.1093/eurheartj/ehac572/6771381?login=false

3,013 neurons, half a million synapses: the complete #connectome of the whole #Drosophila larval brain!

Winding, Pedigo et al. 2022. "The connectome of an insect brain" https://www.biorxiv.org/content/10.1101/2022.11.28.516756v1

We’ve mapped and analysed its circuit architecture, from sensory neurons to brain output neurons, as reconstructed from volume electron microscopy, and here is what we found. 1/

#neuroscience #connectomics #vEM #volumeEM

Our review with Stefan Gründer and Audrey Ortega Ramírez is out:

"Neuropeptides and DEG/ENaC ion channels: a relationship from mammals to cnidarians"

where we conclude based on structural comparisons and the #phylogeny of #neuropeptide systems that the interaction of DEG/ENaC channels with neuropeptides has diverse structural bases and many origins.

https://doi.org/10.1113/JP282309

So, the European Union has set up its own Mastodon instance, EU Voice, as an official channel/platform for all its many institutions - what a great initiative https://social.network.europa.eu/about
#TwitterMigration #europe #Diplomacy #Transparency

RT @JamesGleick:

"""
The new owner of Twitter just told his 100 million plus followers that Alexander “Vindman is both puppet & puppeteer” and said “the question is who pulls his strings.”

So Musk isn’t just allowing anti-Semitism on Twitter. He’s enflaming it.
"""

It should be clear to everyone by now that if you're still active on Twitter you're part of the problem. You can't beat the house. Stop propping up Twitter's stats. Leave.

Why get up so early?

Hello Mastodon friends! #Introduction time…

I study neural networks supporting flexible #Navigation at HHMI’s Janelia Research Campus. Using tractable systems, both biological (flies) and artificial (RNNs), I try to link the structure of neural circuits to their underlying function. In grad school, I studied hippocampal ripples at Caltech, and I love searching for shared operating principles across systems/species.

Here are two of my favorite fly neuron types. Aren’t they beautiful? 🙂