Colin Ophus
@cophus.bsky.social
Associate Professor at Stanford University. Using data science and electron microscopy to solve research problems. Views my own.
colab.stanford.edu
elementalmicroscopy.org
colab.stanford.edu
elementalmicroscopy.org
Pinned
Reposted by Colin Ophus
When the Microscopy Society of America set out to launch Elemental Microscopy, we partnered with them to make it happen fast - an interactive, open-access journal where readers can explore data and code while MSA maintains full control of the publishing process. Read the full story → bit.ly/3LxMAff
MSA | Curvenote
A web-first experience that brings science and data to the surface. Enhance comprehension and maximize impact and reach of your research using rich metadata and interactive figures.
bit.ly
November 12, 2025 at 9:16 PM
When the Microscopy Society of America set out to launch Elemental Microscopy, we partnered with them to make it happen fast - an interactive, open-access journal where readers can explore data and code while MSA maintains full control of the publishing process. Read the full story → bit.ly/3LxMAff
Our new DGP ptychography methods paper is online on the arxiv! arxiv.org/abs/2511.07795
Code + tutorial notebooks available if you want to try it out for your own ptychography experiments.
Code + tutorial notebooks available if you want to try it out for your own ptychography experiments.
November 12, 2025 at 11:15 PM
Our new DGP ptychography methods paper is online on the arxiv! arxiv.org/abs/2511.07795
Code + tutorial notebooks available if you want to try it out for your own ptychography experiments.
Code + tutorial notebooks available if you want to try it out for your own ptychography experiments.
We've just posted an open faculty search in MSE at Stanford! facultypositions.stanford.edu/en-us/job/49...
Stanford | Faculty Positions: Details - Assistant or Untenured Associate Professor in Materials Science and Engineering
facultypositions.stanford.edu
October 10, 2025 at 3:02 AM
We've just posted an open faculty search in MSE at Stanford! facultypositions.stanford.edu/en-us/job/49...
In this paper, we show that neutral gallium clusters from a Ga-FIB microscope’s liquid metal ion source can create nanopores in thin samples and damage. Because these clusters aren’t stopped by the beam blanker, your samples could be exposed to them without your knowledge!
doi.org/10.1093/mam/...
doi.org/10.1093/mam/...
August 6, 2025 at 8:55 PM
In this paper, we show that neutral gallium clusters from a Ga-FIB microscope’s liquid metal ion source can create nanopores in thin samples and damage. Because these clusters aren’t stopped by the beam blanker, your samples could be exposed to them without your knowledge!
doi.org/10.1093/mam/...
doi.org/10.1093/mam/...
Another cool scattering matrix inversion paper lead by Emmanuel Terzoudis-Lumsden and Scott Findlay:
arxiv.org/abs/2506.21004
arxiv.org/abs/2506.21004
June 27, 2025 at 8:05 AM
Another cool scattering matrix inversion paper lead by Emmanuel Terzoudis-Lumsden and Scott Findlay:
arxiv.org/abs/2506.21004
arxiv.org/abs/2506.21004
Another week, another great paper led by @stephanieribet.bsky.social !
Multi-angle precession electron diffraction (MAPED): a versatile approach to 4D-STEM precession
arxiv.org/abs/2506.11327
Serial precession finally!
Multi-angle precession electron diffraction (MAPED): a versatile approach to 4D-STEM precession
arxiv.org/abs/2506.11327
Serial precession finally!
June 16, 2025 at 1:57 AM
Another week, another great paper led by @stephanieribet.bsky.social !
Multi-angle precession electron diffraction (MAPED): a versatile approach to 4D-STEM precession
arxiv.org/abs/2506.11327
Serial precession finally!
Multi-angle precession electron diffraction (MAPED): a versatile approach to 4D-STEM precession
arxiv.org/abs/2506.11327
Serial precession finally!
Reposted by Colin Ophus
I have an opening for a Doctoral Researcher working on adaptive sampling and faster 3D imaging in electron microscopy.
Please spread the word
pelzlab.science/posts/25-01-...
Please spread the word
pelzlab.science/posts/25-01-...
PhD position open – ECLIPSE Lab
A PhD position on computational imaging in electron microscopy is available starting April 1st
pelzlab.science
January 30, 2025 at 9:09 AM
I have an opening for a Doctoral Researcher working on adaptive sampling and faster 3D imaging in electron microscopy.
Please spread the word
pelzlab.science/posts/25-01-...
Please spread the word
pelzlab.science/posts/25-01-...
Reposted by Colin Ophus
Hello! Who's up for some more 4D-STEM?
Maybe a 2-day workshop on applications of 4D-STEM in sunny Yorkshire is just your jam? Hop over to the @royalmicrosoc.bsky.social for info, www.rms.org.uk/rms-event-ca...
We look forwards to seeing you there with
@bmatb.expmicromech.com @cophus.bsky.social
Maybe a 2-day workshop on applications of 4D-STEM in sunny Yorkshire is just your jam? Hop over to the @royalmicrosoc.bsky.social for info, www.rms.org.uk/rms-event-ca...
We look forwards to seeing you there with
@bmatb.expmicromech.com @cophus.bsky.social
Workshop on the Applications of 4D-STEM
The purpose of this workshop is to highlight the applications of 4D-STEM across a broad range of materials classes, both hard and soft, and by demonstrating the micro- and nano-structural information ...
www.rms.org.uk
June 12, 2025 at 5:32 PM
Hello! Who's up for some more 4D-STEM?
Maybe a 2-day workshop on applications of 4D-STEM in sunny Yorkshire is just your jam? Hop over to the @royalmicrosoc.bsky.social for info, www.rms.org.uk/rms-event-ca...
We look forwards to seeing you there with
@bmatb.expmicromech.com @cophus.bsky.social
Maybe a 2-day workshop on applications of 4D-STEM in sunny Yorkshire is just your jam? Hop over to the @royalmicrosoc.bsky.social for info, www.rms.org.uk/rms-event-ca...
We look forwards to seeing you there with
@bmatb.expmicromech.com @cophus.bsky.social
www.youtube.com/watch?v=xDLx... Convolution!
CD / Blur
YouTube video by Captain Disillusion
www.youtube.com
May 24, 2025 at 1:25 AM
www.youtube.com/watch?v=xDLx... Convolution!
Reposted by Colin Ophus
Excited to share this interactive pre-print investigating the information transfer of phase retrieval techniques in STEM 🔬
Now everyone has an open-access tool to optimise their experimental parameters ✨
Feel free to share and play around with it 🧪
www.elementalmicroscopy.com/articles/EM0...
Now everyone has an open-access tool to optimise their experimental parameters ✨
Feel free to share and play around with it 🧪
www.elementalmicroscopy.com/articles/EM0...
Evaluating the Transfer of Information in Phase Retrieval STEM Techniques - Elemental Microscopy
Evaluating the transfer of information in various phase retrieval STEM techniques using analytical and numerical methods.
www.elementalmicroscopy.com
May 14, 2025 at 10:44 PM
Excited to share this interactive pre-print investigating the information transfer of phase retrieval techniques in STEM 🔬
Now everyone has an open-access tool to optimise their experimental parameters ✨
Feel free to share and play around with it 🧪
www.elementalmicroscopy.com/articles/EM0...
Now everyone has an open-access tool to optimise their experimental parameters ✨
Feel free to share and play around with it 🧪
www.elementalmicroscopy.com/articles/EM0...
Reposted by Colin Ophus
Super proud of this work, which showcases modern scientific publishing for open science 🧪
Inspired by the insights of the interactive CTF widgets, we propose a novel phase-retrieval algorithm which achieves robust information transfer on sub-sampled datasets 🙌
@elementalmicrosc.bsky.social
Inspired by the insights of the interactive CTF widgets, we propose a novel phase-retrieval algorithm which achieves robust information transfer on sub-sampled datasets 🙌
@elementalmicrosc.bsky.social
May 14, 2025 at 11:10 PM
Super proud of this work, which showcases modern scientific publishing for open science 🧪
Inspired by the insights of the interactive CTF widgets, we propose a novel phase-retrieval algorithm which achieves robust information transfer on sub-sampled datasets 🙌
@elementalmicrosc.bsky.social
Inspired by the insights of the interactive CTF widgets, we propose a novel phase-retrieval algorithm which achieves robust information transfer on sub-sampled datasets 🙌
@elementalmicrosc.bsky.social
Reposted by Colin Ophus
Dehumidifiers are confusing. Here's why.
YouTube video by Technology Connections
youtu.be
April 26, 2025 at 3:07 PM
@materials-mrs.bsky.social great job with the badge pickup guys - I think there are only 1000+ people ahead of me in line. And I tried to pick it up last night and was turned away.
April 7, 2025 at 3:45 PM
@materials-mrs.bsky.social great job with the badge pickup guys - I think there are only 1000+ people ahead of me in line. And I tried to pick it up last night and was turned away.
Alright I'm in Seattle if anyone wants to grab dinner!
April 6, 2025 at 11:07 PM
Alright I'm in Seattle if anyone wants to grab dinner!
Beautiful day with the dish broadcasting a rainbow!
March 2, 2025 at 3:59 PM
Beautiful day with the dish broadcasting a rainbow!
NNI Nanometrology webinar:
www.youtube.com/watch?v=gfQO...
www.youtube.com/watch?v=gfQO...
www.youtube.com
February 26, 2025 at 11:11 PM
NNI Nanometrology webinar:
www.youtube.com/watch?v=gfQO...
www.youtube.com/watch?v=gfQO...
Another great atomic electron tomography paper, lead by Prof Jihan Zhou! Check out these amazing reconstructions.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Strain release by 3D atomic misfit in fivefold twinned icosahedral nanoparticles with amorphization and dislocations - Nature Communications
The crystallographically forbidden fivefold symmetry in icosahedra remains a long-standing mystery. Here, the authors resolve the three-dimensional atomic structure of Janus-like icosahedral nanoparti...
www.nature.com
February 14, 2025 at 10:04 PM
Another great atomic electron tomography paper, lead by Prof Jihan Zhou! Check out these amazing reconstructions.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Colin Ophus
This is the most relevant article to NIH and research cuts I’ve seen.
Imagine if this was today , how many people would be saying “Why are we studying Gila Monsters and their impact on diabetes ? That’s wasted money !”
globalnews.ca/news/9793403...
Imagine if this was today , how many people would be saying “Why are we studying Gila Monsters and their impact on diabetes ? That’s wasted money !”
globalnews.ca/news/9793403...
How a Canadian scientist and a venomous lizard helped pave the way for Ozempic - National | Globalnews.ca
In 1984, Dr. Daniel Drucker, an endocrinologist from the University of Toronto, discovered a hormone that helped pave the way for popular diabetes drugs such as Ozempic.
globalnews.ca
February 9, 2025 at 9:58 PM
This is the most relevant article to NIH and research cuts I’ve seen.
Imagine if this was today , how many people would be saying “Why are we studying Gila Monsters and their impact on diabetes ? That’s wasted money !”
globalnews.ca/news/9793403...
Imagine if this was today , how many people would be saying “Why are we studying Gila Monsters and their impact on diabetes ? That’s wasted money !”
globalnews.ca/news/9793403...
Reposted by Colin Ophus
If you know someone who might also like to live in the chocolate city & develop 4D-STEM imaging, there's funding open & I'd be happy to chat
-Roy Soc Newton International Fellowship royalsociety.org/grants/newto...
-Marie Curie Fellowship marie-sklodowska-curie-actions.ec.europa.eu/actions/post...
-Roy Soc Newton International Fellowship royalsociety.org/grants/newto...
-Marie Curie Fellowship marie-sklodowska-curie-actions.ec.europa.eu/actions/post...
Morning commutes living downwind of the chocolate factory 😋 #CommuteWithAView
February 6, 2025 at 10:22 AM
If you know someone who might also like to live in the chocolate city & develop 4D-STEM imaging, there's funding open & I'd be happy to chat
-Roy Soc Newton International Fellowship royalsociety.org/grants/newto...
-Marie Curie Fellowship marie-sklodowska-curie-actions.ec.europa.eu/actions/post...
-Roy Soc Newton International Fellowship royalsociety.org/grants/newto...
-Marie Curie Fellowship marie-sklodowska-curie-actions.ec.europa.eu/actions/post...
Reposted by Colin Ophus
Very cool explainer video on my field of electron microscopy! I still remember the first times I just kept zooming in and zooming in... and seeing atoms.
What if you just keep zooming in?
YouTube video by Veritasium
www.youtube.com
February 5, 2025 at 11:44 PM
Very cool explainer video on my field of electron microscopy! I still remember the first times I just kept zooming in and zooming in... and seeing atoms.
Reposted by Colin Ophus
Hey there 🦋🧪, we're a new open access microscopy journal and wanted to introduce ourselves! EM aims to modernize scientific publishing for microscopy, by prioritizing open science, transparency, and accessibility and using open-source formats and interactive notebooks 🙌
@curvenote.com @mystmd.org 🚀
@curvenote.com @mystmd.org 🚀
February 2, 2025 at 11:04 AM
Hey there 🦋🧪, we're a new open access microscopy journal and wanted to introduce ourselves! EM aims to modernize scientific publishing for microscopy, by prioritizing open science, transparency, and accessibility and using open-source formats and interactive notebooks 🙌
@curvenote.com @mystmd.org 🚀
@curvenote.com @mystmd.org 🚀