Ernest van der Wee
@evdwee.bsky.social
Microscopist | Biology Imaging Center | Utrecht University
We are planning the build of a light sheet setup and are considering a Powell lens to generate the sheet.
I've not been able to find a discussion of the pros and cons in literature, so if you ever used a Powell lens or have considered using one in your setup, I would love to hear your opinion. THX!
I've not been able to find a discussion of the pros and cons in literature, so if you ever used a Powell lens or have considered using one in your setup, I would love to hear your opinion. THX!
November 3, 2025 at 12:43 PM
We are planning the build of a light sheet setup and are considering a Powell lens to generate the sheet.
I've not been able to find a discussion of the pros and cons in literature, so if you ever used a Powell lens or have considered using one in your setup, I would love to hear your opinion. THX!
I've not been able to find a discussion of the pros and cons in literature, so if you ever used a Powell lens or have considered using one in your setup, I would love to hear your opinion. THX!
Reposted by Ernest van der Wee
We've now discovered some neat cell culture dishes that feature a 50 micron thick film of a proprietary polymer with refractive index even closer to water than FEP. They work just as well as our homemade FEP assembly and are available in multiwell plate format too!
www.sarstedt.com/en/products/...
www.sarstedt.com/en/products/...
October 28, 2025 at 8:27 PM
We've now discovered some neat cell culture dishes that feature a 50 micron thick film of a proprietary polymer with refractive index even closer to water than FEP. They work just as well as our homemade FEP assembly and are available in multiwell plate format too!
www.sarstedt.com/en/products/...
www.sarstedt.com/en/products/...
Reposted by Ernest van der Wee
Internet people, please help me to decide on the logo for #bigvolumebrowser, a multi-volume 3D viewer plugin for Fiji I'm working on. Please vote by replying with a number or liking one that was already mentioned. My favorites are 6, 7, 8 and 10 so far.
October 28, 2025 at 1:55 PM
Internet people, please help me to decide on the logo for #bigvolumebrowser, a multi-volume 3D viewer plugin for Fiji I'm working on. Please vote by replying with a number or liking one that was already mentioned. My favorites are 6, 7, 8 and 10 so far.
PhD opportunity at Utrecht University in the lab of @tingfenglin.bsky.social !
www.uu.nl/en/organisat...
If you are interested in neuroscience and building a microscope: don't hesitate to apply!
Please forward this to people who might be interested.
www.uu.nl/en/organisat...
If you are interested in neuroscience and building a microscope: don't hesitate to apply!
Please forward this to people who might be interested.
PhD position in Neuroscience
Join us in dissecting neuronal mechanisms underlying learning and memory through cutting-edge microscopy.
www.uu.nl
October 3, 2025 at 1:58 PM
PhD opportunity at Utrecht University in the lab of @tingfenglin.bsky.social !
www.uu.nl/en/organisat...
If you are interested in neuroscience and building a microscope: don't hesitate to apply!
Please forward this to people who might be interested.
www.uu.nl/en/organisat...
If you are interested in neuroscience and building a microscope: don't hesitate to apply!
Please forward this to people who might be interested.
Reposted by Ernest van der Wee
Hi #Neuroscience,
Exciting news—I’m recruiting a PhD student to join my lab and study neuroscience in larval zebrafish 🧠🐟
Microscopy expertise is a big plus!
Link: drive.google.com/file/d/1Wb4h...
Exciting news—I’m recruiting a PhD student to join my lab and study neuroscience in larval zebrafish 🧠🐟
Microscopy expertise is a big plus!
Link: drive.google.com/file/d/1Wb4h...
NeuroPhD vacancy FoS - TFL2025.pdf
drive.google.com
September 25, 2025 at 9:53 PM
Hi #Neuroscience,
Exciting news—I’m recruiting a PhD student to join my lab and study neuroscience in larval zebrafish 🧠🐟
Microscopy expertise is a big plus!
Link: drive.google.com/file/d/1Wb4h...
Exciting news—I’m recruiting a PhD student to join my lab and study neuroscience in larval zebrafish 🧠🐟
Microscopy expertise is a big plus!
Link: drive.google.com/file/d/1Wb4h...
Reposted by Ernest van der Wee
New release of #BigTrace plugin is out. Together with @aafkegros.bsky.social from Simone Köhler group we added a fully automatic tracing mode. + more macro functions and bug fixes github.com/ekatrukha/Bi...
September 24, 2025 at 12:05 PM
New release of #BigTrace plugin is out. Together with @aafkegros.bsky.social from Simone Köhler group we added a fully automatic tracing mode. + more macro functions and bug fixes github.com/ekatrukha/Bi...
Reposted by Ernest van der Wee
A cell finding its way through the matrix, imaged with @joycemeiri.bsky.social on LLS.
September 19, 2025 at 10:38 AM
A cell finding its way through the matrix, imaged with @joycemeiri.bsky.social on LLS.
Reposted by Ernest van der Wee
🚨Publication alert🚨
My first, first-author paper is now out in @natphoton.nature.com! Our paper describes an iterative spectral unmixing algorithm and eight-channel camera-based hardware we developed enabling unmixing of low SNR live-cell data at video rates. www.nature.com/articles/s41...
My first, first-author paper is now out in @natphoton.nature.com! Our paper describes an iterative spectral unmixing algorithm and eight-channel camera-based hardware we developed enabling unmixing of low SNR live-cell data at video rates. www.nature.com/articles/s41...
Multispectral live-cell imaging with uncompromised spatiotemporal resolution - Nature Photonics
A tree-like arrangement of dichroic mirrors and multiple cameras coupled with an iterative spectral unmixing algorithm enables multispectral imaging of live cells in up to eight spectral channels with...
www.nature.com
September 16, 2025 at 10:20 AM
🚨Publication alert🚨
My first, first-author paper is now out in @natphoton.nature.com! Our paper describes an iterative spectral unmixing algorithm and eight-channel camera-based hardware we developed enabling unmixing of low SNR live-cell data at video rates. www.nature.com/articles/s41...
My first, first-author paper is now out in @natphoton.nature.com! Our paper describes an iterative spectral unmixing algorithm and eight-channel camera-based hardware we developed enabling unmixing of low SNR live-cell data at video rates. www.nature.com/articles/s41...
Reposted by Ernest van der Wee
We present a simple method to easily increase the imageable depth of an expansion microscopy gel on a typical inverted microscope ten-fold, using some carefully placed FEP film and a water dipping objective lens:
September 15, 2025 at 8:42 AM
We present a simple method to easily increase the imageable depth of an expansion microscopy gel on a typical inverted microscope ten-fold, using some carefully placed FEP film and a water dipping objective lens:
Reposted by Ernest van der Wee
Wow, this paper provides crucial understanding of local translation and processing of transmembrane proteins in axons, one of the big mysteries that have haunted the field for a long time!!!!!!!! Fantastic!!!!!!!! Nguyen et al., 2025, bioRxiv 2025.09.09.674816ff. -- doi.org/10.1101/2025...
September 14, 2025 at 6:12 PM
Wow, this paper provides crucial understanding of local translation and processing of transmembrane proteins in axons, one of the big mysteries that have haunted the field for a long time!!!!!!!! Fantastic!!!!!!!! Nguyen et al., 2025, bioRxiv 2025.09.09.674816ff. -- doi.org/10.1101/2025...
Reposted by Ernest van der Wee
Maximising imaging volumes of expanded tissues for inverted fluorescence microscopy https://www.biorxiv.org/content/10.1101/2025.09.12.675899v1
September 13, 2025 at 3:48 AM
Maximising imaging volumes of expanded tissues for inverted fluorescence microscopy https://www.biorxiv.org/content/10.1101/2025.09.12.675899v1
Reposted by Ernest van der Wee
Our new preprint is about the airway epithelium microtubule network, cilia, basal body protein composition, averaging of volumetric fluorescence data, and expansion microscopy.
Four years of very hard work from our very talented Emma van Grinsven. www.biorxiv.org/content/10.1... (1/N)
Four years of very hard work from our very talented Emma van Grinsven. www.biorxiv.org/content/10.1... (1/N)
September 5, 2025 at 3:37 PM
Our new preprint is about the airway epithelium microtubule network, cilia, basal body protein composition, averaging of volumetric fluorescence data, and expansion microscopy.
Four years of very hard work from our very talented Emma van Grinsven. www.biorxiv.org/content/10.1... (1/N)
Four years of very hard work from our very talented Emma van Grinsven. www.biorxiv.org/content/10.1... (1/N)
Reposted by Ernest van der Wee
Some first raw (not deskewed) data of live human induced pluripotent stem cells from #Snouty now ready for some serious live imaging. Light sheet moving at a 38-degree angle through the cell layer; coverslip is on the bottom.
August 28, 2025 at 11:40 PM
Some first raw (not deskewed) data of live human induced pluripotent stem cells from #Snouty now ready for some serious live imaging. Light sheet moving at a 38-degree angle through the cell layer; coverslip is on the bottom.
Reposted by Ernest van der Wee
I rarely see the "depth of field effect" for 3D microscopy datasets rendering. Tried to implement it as a weekend project. Curious, if it can be useful #bigvolumebrowser
August 27, 2025 at 11:40 AM
I rarely see the "depth of field effect" for 3D microscopy datasets rendering. Tried to implement it as a weekend project. Curious, if it can be useful #bigvolumebrowser
Reposted by Ernest van der Wee
How many photons are in a GFP? — more than last year, and more than you thought. Here's a simple, cheap, and practical method to break a fundamental limit in fluorescence microscopy. But it only works in light sheet!
August 19, 2025 at 7:31 PM
How many photons are in a GFP? — more than last year, and more than you thought. Here's a simple, cheap, and practical method to break a fundamental limit in fluorescence microscopy. But it only works in light sheet!
Reposted by Ernest van der Wee
Pan-ASLM system for large scale expansion microscopy from the Bewersdorf lab.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
August 15, 2025 at 12:04 AM
Pan-ASLM system for large scale expansion microscopy from the Bewersdorf lab.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Ernest van der Wee
All the opto-vimentin plasmids are now available on Addgene: www.addgene.org/Anna_Akhmano...
August 8, 2025 at 3:51 PM
All the opto-vimentin plasmids are now available on Addgene: www.addgene.org/Anna_Akhmano...
Reposted by Ernest van der Wee
www.biorxiv.org/content/10.1...
Excellent Jasper van den Ende in Esther's lab @esthernoltethoen.bsky.social. Using Marvin's @marvintanenbaum.bsky.social SUNtag system to monitor EV cargo access to cytoplasm allows real time quantification of the process. #EV #extracellular vesicles
Excellent Jasper van den Ende in Esther's lab @esthernoltethoen.bsky.social. Using Marvin's @marvintanenbaum.bsky.social SUNtag system to monitor EV cargo access to cytoplasm allows real time quantification of the process. #EV #extracellular vesicles
Development of a live-cell imaging assay to elucidate spatiotemporal dynamics of extracellular vesicle fusion with target cells
Cells communicate via extracellular vesicles (EVs) containing functional RNAs, proteins and lipids. Knowledge on the fate of internalized EVs, especially their capacity to fuse with target cell membra...
www.biorxiv.org
August 2, 2025 at 8:34 AM
www.biorxiv.org/content/10.1...
Excellent Jasper van den Ende in Esther's lab @esthernoltethoen.bsky.social. Using Marvin's @marvintanenbaum.bsky.social SUNtag system to monitor EV cargo access to cytoplasm allows real time quantification of the process. #EV #extracellular vesicles
Excellent Jasper van den Ende in Esther's lab @esthernoltethoen.bsky.social. Using Marvin's @marvintanenbaum.bsky.social SUNtag system to monitor EV cargo access to cytoplasm allows real time quantification of the process. #EV #extracellular vesicles
Reposted by Ernest van der Wee
Hi #neuroscience! I’m thrilled to share that I’ll be launching my own group as an Assistant Professor at Utrecht University in the beautiful Netherlands, where we’ll study neural plasticity and development in the #cerebellum using #zebrafish. I’m looking for a PhD student — get in touch!
July 20, 2025 at 5:56 AM
Hi #neuroscience! I’m thrilled to share that I’ll be launching my own group as an Assistant Professor at Utrecht University in the beautiful Netherlands, where we’ll study neural plasticity and development in the #cerebellum using #zebrafish. I’m looking for a PhD student — get in touch!
Reposted by Ernest van der Wee
Optogenetic and chemical genetic tools for rapid repositioning of #vimentin intermediate filaments. New tools developed by Milena Pasolli, Joyce Meiring @joycemeiri.bsky.social, Anna Akhmanova and colleagues @utrechtuniversity.bsky.social: rupress.org/jcb/article/...
@gijsjekoenderink.bsky.social
@gijsjekoenderink.bsky.social
July 15, 2025 at 1:45 PM
Optogenetic and chemical genetic tools for rapid repositioning of #vimentin intermediate filaments. New tools developed by Milena Pasolli, Joyce Meiring @joycemeiri.bsky.social, Anna Akhmanova and colleagues @utrechtuniversity.bsky.social: rupress.org/jcb/article/...
@gijsjekoenderink.bsky.social
@gijsjekoenderink.bsky.social
Reposted by Ernest van der Wee
Production has started for a new #Snoutscope objective, AMS-AGY v3. It has significantly larger FOV and some other tweaks from v1 and v2. Currently accepting pre-orders. The price will need to increase modestly after deliveries start late October.
July 9, 2025 at 8:00 PM
Production has started for a new #Snoutscope objective, AMS-AGY v3. It has significantly larger FOV and some other tweaks from v1 and v2. Currently accepting pre-orders. The price will need to increase modestly after deliveries start late October.
Reposted by Ernest van der Wee
Excited to share that our fast & reversible chemical and optogenetic vimentin pulling tools are now published in JCB! 🥳
We show a subset of organelles are displaced with vimentin pulling to the cell centre and cells become much softer despite little or no effect on actin/MTs
doi.org/10.1083/jcb....
We show a subset of organelles are displaced with vimentin pulling to the cell centre and cells become much softer despite little or no effect on actin/MTs
doi.org/10.1083/jcb....
July 8, 2025 at 3:35 PM
Excited to share that our fast & reversible chemical and optogenetic vimentin pulling tools are now published in JCB! 🥳
We show a subset of organelles are displaced with vimentin pulling to the cell centre and cells become much softer despite little or no effect on actin/MTs
doi.org/10.1083/jcb....
We show a subset of organelles are displaced with vimentin pulling to the cell centre and cells become much softer despite little or no effect on actin/MTs
doi.org/10.1083/jcb....
Reposted by Ernest van der Wee
it was already fun to look around the documentation for cmap (cmap-docs.readthedocs.io)
but @grosoane.bsky.social just added a very cool feature to toggle between color vision deficiencies. Watch your perceptually uniform color maps gain some kinks 😂
as a mild deutan myself, I appreciate it! 🙏
but @grosoane.bsky.social just added a very cool feature to toggle between color vision deficiencies. Watch your perceptually uniform color maps gain some kinks 😂
as a mild deutan myself, I appreciate it! 🙏
July 5, 2025 at 8:28 PM
it was already fun to look around the documentation for cmap (cmap-docs.readthedocs.io)
but @grosoane.bsky.social just added a very cool feature to toggle between color vision deficiencies. Watch your perceptually uniform color maps gain some kinks 😂
as a mild deutan myself, I appreciate it! 🙏
but @grosoane.bsky.social just added a very cool feature to toggle between color vision deficiencies. Watch your perceptually uniform color maps gain some kinks 😂
as a mild deutan myself, I appreciate it! 🙏
This is a very useful trick!
Some Micro-Manager device adapters are not included in the installer. That can cause problems when the device API changes. When the device adapter vendor does not release a new version you can try the following work-around: nicost.github.io/microscope-t...
Using a Decompiler to change the MM Device Interface Version
Some companies (like Cairn and Mightex, but there are others) wrote device adapters for their equipment but did not share the source code with the Micro-Manager team. Therefore, you need to ask these ...
nicost.github.io
June 5, 2025 at 1:13 PM
This is a very useful trick!
Reposted by Ernest van der Wee
Hey optical tech dev folks: how do you do alignment? Can you outline your alignment procedures for positioning optics and verifying their correct positioning?
June 3, 2025 at 12:45 AM
Hey optical tech dev folks: how do you do alignment? Can you outline your alignment procedures for positioning optics and verifying their correct positioning?