Jules Michalska

Helloooo all, I will be at SfN this year and would love to chat! Please come by, and reach out!!!

E11 Bio is excited to unveil PRISM technology for mapping brain wiring with simple light microscopes. Today, brain mapping in humans and other mammals is bottlenecked by accurate neuron tracing. PRISM uses molecular ID codes and AI to help neurons trace themselves.

Read more: e11.bio/blog/prism

We're excited to welcome Jeff Chen and JinYoung Lee to the team! 🎉

Both are University of Toronto undergrads joining us for a gap year. Jeff will work on barcode design and viral payloads, while JinYoung will focus on expansion microscopy and imaging.

Former MIT researchers advance a new model for innovation Developed by former MIT researchers, focused research organizations (FROs) undertake large research efforts and have begun to contribute to scientific advances.

"Academic research groups and startups are essential drivers of scientific progress. But some projects, like the Hubble Space Telescope or the Human Genome Project, are too big for any one academic lab or loose consortium..."

E11 Bio is launching Volara: an open-source Python library for block-wise processing of large volumetric microscopy datasets! 🧪🔬

Volara features block-wise task abstractions, making scalable image processing more accessible, robust, and repeatable.

Read more: e11.bio/blog/volara

Pan-protein labeling reveals ultrastructure in expanded Arabidopsis thaliana roots.

PlantEx provides sufficient resolution to visualize individual microtubules in expanded Arabidopsis thaliana roots.

Golgi vesicles can be visualized at super-resolution in Arabidopsis thaliana roots via PlantEx expansion microscopy.

I'm really hoping to see some applications of PlantEx this year — tell your plant friends! 🍀

If you are a plant biologist yourself and interested, skeptical, or struggling implementing expansion microscopy — just write me; it's easy & I'd love to be of assistance! 🌺

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

Our work at @e11bio.bsky.social in connectomics is featured in @asimovpress.bsky.social ! We’re building new tools to map the brain with greater precision and scale.

Do you work with confocal, STED or MINFLUX microscopes, commercial or homebuilt? Do you struggle with control of your spatial light modulator or with incorporating adaptive optics, or do you just need more flexibility? Have a look at my SLM control code:
github.com/wiebkejahr/s...

Image-based 3D active sample stabilization on the nanometer scale for optical microscopy Super-resolution microscopy often entails long acquisition times of minutes to hours. Since drifts during the acquisition adversely affect data quality, active sample stabilization is commonly used fo...

#microscopy #preprint alert!
The manuscript shows how to correct sample drifts. In 3D, with nm precision, not requiring more hardware than a widefield arm!
Congrats @JakobVorlaufer 🥳
I wrote the SLM control software used for aligning the control beams 🤓
www.biorxiv.org/content/10.1...

Image showing a GUI with many numeric inputs on the left side and color coded intensity maps, illustrating a workflow, on the right side.

🔬peeps!
I am delighted to finally publish my code for controlling a spatial light modulator (SLM) to perform adaptive optics & to sculpt the vortex beams for STED & MINFLUX microscopy - complete w graphical user interface for easy use!
github.com/wiebkejahr/s...
Short user manual🧵

Here at E11BIO we have been working hard to make optical #connectomics accessible for the scientific community. Check out our journey!