Mark Frank
@markfrankbio.bsky.social
Postdoctoral Scholar in the Barad Lab at Oregon Health and Science University, where I study cytoskeletal remodeling in response to intracellular infection using Cryo-electron tomography. Views are my own.
Pinned
Mark Frank
@markfrankbio.bsky.social
· Oct 21
As of last Monday, I officially joined the Barad lab at Oregon Health and Science University as a Postdoctoral Scholar.
Reposted by Mark Frank
In the Ring: Details of the bacterial cell division structure the Z-ring revealed using cryo-ET
📷 Adrián Merino-Salomón et al @mpibiochem.bsky.social in
@elife.bsky.social
➡️ bpod.org.uk/archive/2025... with
John Ankers
📷 Adrián Merino-Salomón et al @mpibiochem.bsky.social in
@elife.bsky.social
➡️ bpod.org.uk/archive/2025... with
John Ankers
October 28, 2025 at 9:10 AM
In the Ring: Details of the bacterial cell division structure the Z-ring revealed using cryo-ET
📷 Adrián Merino-Salomón et al @mpibiochem.bsky.social in
@elife.bsky.social
➡️ bpod.org.uk/archive/2025... with
John Ankers
📷 Adrián Merino-Salomón et al @mpibiochem.bsky.social in
@elife.bsky.social
➡️ bpod.org.uk/archive/2025... with
John Ankers
I am so grateful Apple brought Preview to the iPad on OS 26. It has made being without my MacBook for the week so much easier. The iPad is still not a laptop replacement, but it has gotten much closer to that recently.
October 30, 2025 at 3:13 PM
I am so grateful Apple brought Preview to the iPad on OS 26. It has made being without my MacBook for the week so much easier. The iPad is still not a laptop replacement, but it has gotten much closer to that recently.
Reposted by Mark Frank
Excited to share our preprint on cytoskeletal organization in astrocytes!
biorxiv.org/content/10.110…
Postdoc @mewynne759 looked at microtubules, IFs/GFAP & actin along long elaborate processes.
Wonderful to collaborate w postdoc @dharshinigopal & @NogalesLab on cryo-ET 🤓
1/x
biorxiv.org/content/10.110…
Postdoc @mewynne759 looked at microtubules, IFs/GFAP & actin along long elaborate processes.
Wonderful to collaborate w postdoc @dharshinigopal & @NogalesLab on cryo-ET 🤓
1/x
https://biorxiv.org/content/10.110…
October 13, 2025 at 8:44 PM
Excited to share our preprint on cytoskeletal organization in astrocytes!
biorxiv.org/content/10.110…
Postdoc @mewynne759 looked at microtubules, IFs/GFAP & actin along long elaborate processes.
Wonderful to collaborate w postdoc @dharshinigopal & @NogalesLab on cryo-ET 🤓
1/x
biorxiv.org/content/10.110…
Postdoc @mewynne759 looked at microtubules, IFs/GFAP & actin along long elaborate processes.
Wonderful to collaborate w postdoc @dharshinigopal & @NogalesLab on cryo-ET 🤓
1/x
Reposted by Mark Frank
Check out our preprint! With new molecular mechanisms, 140 subtomogram averages, and ~600 annotated cells under different conditions, we @embl.org were able to describe bacterial populations with in-cell #cryoET. And there’s a surprise at the end 🕵️
www.biorxiv.org/content/10.1...
#teamtomo
www.biorxiv.org/content/10.1...
#teamtomo
October 15, 2025 at 6:26 AM
Check out our preprint! With new molecular mechanisms, 140 subtomogram averages, and ~600 annotated cells under different conditions, we @embl.org were able to describe bacterial populations with in-cell #cryoET. And there’s a surprise at the end 🕵️
www.biorxiv.org/content/10.1...
#teamtomo
www.biorxiv.org/content/10.1...
#teamtomo
Reposted by Mark Frank
Woo! My lab's Nature Protocols paper is out today.
In a nutshell, the protocol shows how to use our Cryo-ET software to solve high-res protein structures.
I don't think any of the other authors are here, but congrats to Hsuan-Fu, Ye, and Wendy for all of their work!
www.nature.com/articles/s41...
In a nutshell, the protocol shows how to use our Cryo-ET software to solve high-res protein structures.
I don't think any of the other authors are here, but congrats to Hsuan-Fu, Ye, and Wendy for all of their work!
www.nature.com/articles/s41...
In situ structure determination of conformationally flexible targets using nextPYP - Nature Protocols
The procedure for nextPYP facilitates the end-to-end processing of cryoelectron tomography data for high-resolution structure determination and conformational variability analysis.
www.nature.com
August 19, 2025 at 12:57 PM
Woo! My lab's Nature Protocols paper is out today.
In a nutshell, the protocol shows how to use our Cryo-ET software to solve high-res protein structures.
I don't think any of the other authors are here, but congrats to Hsuan-Fu, Ye, and Wendy for all of their work!
www.nature.com/articles/s41...
In a nutshell, the protocol shows how to use our Cryo-ET software to solve high-res protein structures.
I don't think any of the other authors are here, but congrats to Hsuan-Fu, Ye, and Wendy for all of their work!
www.nature.com/articles/s41...
Reposted by Mark Frank
Structural dynamics of mitochondrial ATP synthase in Chlamydomonas reinhardtii revealed by in situ CryoET https://www.biorxiv.org/content/10.1101/2025.09.10.674987v1
September 16, 2025 at 4:30 PM
Structural dynamics of mitochondrial ATP synthase in Chlamydomonas reinhardtii revealed by in situ CryoET https://www.biorxiv.org/content/10.1101/2025.09.10.674987v1
I realize I don't post much, but figured I would share an update. As of today, I am officially supported by the Interdisciplinary Training in Microbial Pathogenesis and Immunology T32 Training grant.
September 2, 2025 at 10:11 PM
I realize I don't post much, but figured I would share an update. As of today, I am officially supported by the Interdisciplinary Training in Microbial Pathogenesis and Immunology T32 Training grant.
Reposted by Mark Frank
"We couldn’t be more excited about the transformational potential of this work for humanity."
- Phil and Penny Knight on their historic $2 billion gift to @ohsuknight.bsky.social to transform the future of cancer care and set a new standard globally.
#GiveCancerHell
- Phil and Penny Knight on their historic $2 billion gift to @ohsuknight.bsky.social to transform the future of cancer care and set a new standard globally.
#GiveCancerHell
August 14, 2025 at 9:09 PM
"We couldn’t be more excited about the transformational potential of this work for humanity."
- Phil and Penny Knight on their historic $2 billion gift to @ohsuknight.bsky.social to transform the future of cancer care and set a new standard globally.
#GiveCancerHell
- Phil and Penny Knight on their historic $2 billion gift to @ohsuknight.bsky.social to transform the future of cancer care and set a new standard globally.
#GiveCancerHell
Reposted by Mark Frank
Gokul Adethya, Bhanu Pratyush Mantha, Tianyang Wang, Xingjian Li, Min Xu: SaSi: A Self-augmented and Self-interpreted Deep Learning Approach for Few-shot Cryo-ET Particle Detection https://arxiv.org/abs/2505.19948 https://arxiv.org/pdf/2505.19948 https://arxiv.org/html/2505.19948
May 27, 2025 at 6:52 AM
Gokul Adethya, Bhanu Pratyush Mantha, Tianyang Wang, Xingjian Li, Min Xu: SaSi: A Self-augmented and Self-interpreted Deep Learning Approach for Few-shot Cryo-ET Particle Detection https://arxiv.org/abs/2505.19948 https://arxiv.org/pdf/2505.19948 https://arxiv.org/html/2505.19948
Reposted by Mark Frank
May 19, 2025 at 10:27 PM
Reposted by Mark Frank
‘Forever chemicals’ self-assemble into stable structures resembling biological cells — a behaviour that could help to explain why they stick around for decades in the soil or groundwater
https://go.nature.com/3F02sEd
https://go.nature.com/3F02sEd
‘Forever’ molecules arrange themselves into cell-like structures
At sufficiently high concentrations, some of the compounds called per- and poly-fluoroalkyl substances self-organize into two-layered membranes.
go.nature.com
May 7, 2025 at 12:23 PM
‘Forever chemicals’ self-assemble into stable structures resembling biological cells — a behaviour that could help to explain why they stick around for decades in the soil or groundwater
https://go.nature.com/3F02sEd
https://go.nature.com/3F02sEd
Reposted by Mark Frank
I talked to @kakape.bsky.social about this for @science.org, along with many other colleagues including those with different views on regulatory oversight. We all agree: it’s too vague to be implemented, effective, or enforceable.
www.science.org/content/arti...
www.science.org/content/arti...
May 7, 2025 at 11:57 AM
I talked to @kakape.bsky.social about this for @science.org, along with many other colleagues including those with different views on regulatory oversight. We all agree: it’s too vague to be implemented, effective, or enforceable.
www.science.org/content/arti...
www.science.org/content/arti...
When the White House fact sheet says manipulates "viruses and other biological agents," it reads as potentially restricting a lot more than research on viruses of pandemic potential. I am concerned in terms of how this will ultimately be interpreted into policy.
President Trump issued an executive order Monday banning federal funding for any research abroad that involves a field of scientific study known as "gain-of-function" research. Here's what it means.
Trump restricts funding for 'gain of function' research — calling it dangerous
President Trump issued an executive order Monday banning federal funding for any research abroad that involves a field of scientific study known as "gain-of-function" research. Here's what it means.
www.npr.org
May 7, 2025 at 2:09 PM
When the White House fact sheet says manipulates "viruses and other biological agents," it reads as potentially restricting a lot more than research on viruses of pandemic potential. I am concerned in terms of how this will ultimately be interpreted into policy.
Reposted by Mark Frank
“The Website” is here! It can be intimidating getting into analysis of #CryoET data, and software is evolving all the time👩💻🚀. @phaips.vd.st & @florentwaltz.bsky.social put our lab’s workflows into an online guide. We hope this helps lower the bar to joining #TeamTomo. Feedback much appreciated! 🧪🧶🧬🔬
Hey #TeamTomo,
Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging?
That's why @florentwaltz.bsky.social and I made this website!
tomoguide.github.io
Follow the thread 1 /🧵
#CryoET #CryoEM 🔬🧪
Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging?
That's why @florentwaltz.bsky.social and I made this website!
tomoguide.github.io
Follow the thread 1 /🧵
#CryoET #CryoEM 🔬🧪
Welcome to TomoGuide
A step-by-step Cryo-ET guide
tomoguide.github.io
May 7, 2025 at 10:56 AM
“The Website” is here! It can be intimidating getting into analysis of #CryoET data, and software is evolving all the time👩💻🚀. @phaips.vd.st & @florentwaltz.bsky.social put our lab’s workflows into an online guide. We hope this helps lower the bar to joining #TeamTomo. Feedback much appreciated! 🧪🧶🧬🔬
Reposted by Mark Frank
Hey #TeamTomo,
Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging?
That's why @florentwaltz.bsky.social and I made this website!
tomoguide.github.io
Follow the thread 1 /🧵
#CryoET #CryoEM 🔬🧪
Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging?
That's why @florentwaltz.bsky.social and I made this website!
tomoguide.github.io
Follow the thread 1 /🧵
#CryoET #CryoEM 🔬🧪
Welcome to TomoGuide
A step-by-step Cryo-ET guide
tomoguide.github.io
May 6, 2025 at 4:27 PM
Hey #TeamTomo,
Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging?
That's why @florentwaltz.bsky.social and I made this website!
tomoguide.github.io
Follow the thread 1 /🧵
#CryoET #CryoEM 🔬🧪
Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging?
That's why @florentwaltz.bsky.social and I made this website!
tomoguide.github.io
Follow the thread 1 /🧵
#CryoET #CryoEM 🔬🧪
Reposted by Mark Frank
Our latest paper is out! Congratulations to @leaswistak.bsky.social et al for this amazing #cryoET work that elucidates the initial stages of #T3SS dependent vacuolar damage during #Shigella infection. We will do a deep-dive later! journals.plos.org/plosbiology/...
May 6, 2025 at 1:06 PM
Our latest paper is out! Congratulations to @leaswistak.bsky.social et al for this amazing #cryoET work that elucidates the initial stages of #T3SS dependent vacuolar damage during #Shigella infection. We will do a deep-dive later! journals.plos.org/plosbiology/...
Reposted by Mark Frank
🚨New preprint!🚨 #teamtomo
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.
Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.
Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science
Surface morphometrics reveals local membrane thickness variation in organellar subcompartments https://www.biorxiv.org/content/10.1101/2025.04.30.651574v1
May 1, 2025 at 7:42 PM
🚨New preprint!🚨 #teamtomo
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.
Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.
Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science
Reposted by Mark Frank
We have updated our #MemBrain v2 preprint with a lot more details about the MemBrain-pick and MemBrain-stats modules, as well as some application examples!
Stay tuned for the upcoming thread by lead author @lorenzlamm.bsky.social! 🧠🧵
#CryoET #TeamTomo
www.biorxiv.org/content/10.1...
Stay tuned for the upcoming thread by lead author @lorenzlamm.bsky.social! 🧠🧵
#CryoET #TeamTomo
www.biorxiv.org/content/10.1...
April 23, 2025 at 8:47 AM
We have updated our #MemBrain v2 preprint with a lot more details about the MemBrain-pick and MemBrain-stats modules, as well as some application examples!
Stay tuned for the upcoming thread by lead author @lorenzlamm.bsky.social! 🧠🧵
#CryoET #TeamTomo
www.biorxiv.org/content/10.1...
Stay tuned for the upcoming thread by lead author @lorenzlamm.bsky.social! 🧠🧵
#CryoET #TeamTomo
www.biorxiv.org/content/10.1...
Reposted by Mark Frank
Join us April 8th for a software webinar with @alisterburt.bsky.social from @genentech.bsky.social sharing the latest on Warp.
Warp
Alister Burt, Ph.D., Computational Scientist, Genentech
Tuesday, April 8, 2025 - 12:00pm ET
Register here: buff.ly/mXUYR4A
#SBGrid #Webinars #StructuralBiology
Warp
Alister Burt, Ph.D., Computational Scientist, Genentech
Tuesday, April 8, 2025 - 12:00pm ET
Register here: buff.ly/mXUYR4A
#SBGrid #Webinars #StructuralBiology
Webinars
The SBGrid Consortium is an innovative global research computing group operated out of Harvard Medical School. SBGrid provides the global structural biology community with support for research…
buff.ly
April 7, 2025 at 4:00 PM
Join us April 8th for a software webinar with @alisterburt.bsky.social from @genentech.bsky.social sharing the latest on Warp.
Warp
Alister Burt, Ph.D., Computational Scientist, Genentech
Tuesday, April 8, 2025 - 12:00pm ET
Register here: buff.ly/mXUYR4A
#SBGrid #Webinars #StructuralBiology
Warp
Alister Burt, Ph.D., Computational Scientist, Genentech
Tuesday, April 8, 2025 - 12:00pm ET
Register here: buff.ly/mXUYR4A
#SBGrid #Webinars #StructuralBiology
You always know the inevitable is going to happen sooner or later and you think you’re prepared, but you never are. Today my best friend of 20 years crossed the rainbow bridge. I’ll always treasure the memories we shared together. Rest well, Coco. 2004-2025
March 21, 2025 at 4:15 AM
You always know the inevitable is going to happen sooner or later and you think you’re prepared, but you never are. Today my best friend of 20 years crossed the rainbow bridge. I’ll always treasure the memories we shared together. Rest well, Coco. 2004-2025
Reposted by Mark Frank
Folks, I can’t stress this enough:
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February 19, 2025 at 3:41 AM
Folks, I can’t stress this enough:
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Reposted by Mark Frank
Honored to be part of this amazing work, where synaptic vesicle fusion has been studied by a clever combination of optogenetic stimulation and cryoET.
I welcomed the opportunity to contribute with mesoscopic simulations involving dynamic membranes. Preprint: www.biorxiv.org/content/10.1...
I welcomed the opportunity to contribute with mesoscopic simulations involving dynamic membranes. Preprint: www.biorxiv.org/content/10.1...
February 13, 2025 at 1:58 AM
Honored to be part of this amazing work, where synaptic vesicle fusion has been studied by a clever combination of optogenetic stimulation and cryoET.
I welcomed the opportunity to contribute with mesoscopic simulations involving dynamic membranes. Preprint: www.biorxiv.org/content/10.1...
I welcomed the opportunity to contribute with mesoscopic simulations involving dynamic membranes. Preprint: www.biorxiv.org/content/10.1...
Reposted by Mark Frank
Hello everyone on Bluesky! 🧪
We are EMBO, the organization of more than 2,100 leading researchers that promotes excellence in #lifesciences in Europe and beyond.
Read more: www.embo.org/about-embo/m...
We are EMBO, the organization of more than 2,100 leading researchers that promotes excellence in #lifesciences in Europe and beyond.
Read more: www.embo.org/about-embo/m...
February 12, 2025 at 12:56 PM
Hello everyone on Bluesky! 🧪
We are EMBO, the organization of more than 2,100 leading researchers that promotes excellence in #lifesciences in Europe and beyond.
Read more: www.embo.org/about-embo/m...
We are EMBO, the organization of more than 2,100 leading researchers that promotes excellence in #lifesciences in Europe and beyond.
Read more: www.embo.org/about-embo/m...