Zach Marin
@zacsimile.bsky.social
hardware x software in microscopy | postdoc in Ries Lab @maxperutzlabs.bsky.social | http://zacsimile.github.io | 🇺🇸 in 🇦🇹 | he/him | views are graphical projections
Tiny yellow bird waiting at the metro stop this morning
April 25, 2025 at 6:05 AM
Tiny yellow bird waiting at the metro stop this morning
For single molecule tracking, we optimized laser power, pattern size, photon limit and pattern dwell time to increase the measurable diffusion coefficient by 70% over that captured by the standard Abberior tracking sequence.
April 9, 2025 at 1:26 PM
For single molecule tracking, we optimized laser power, pattern size, photon limit and pattern dwell time to increase the measurable diffusion coefficient by 70% over that captured by the standard Abberior tracking sequence.
We simulated DNA-PAINT imaging using an Abberior sequence file, and showed that quenched DNA-PAINT probes may yield better images than standard probes in MINFLUX.
April 9, 2025 at 1:26 PM
We simulated DNA-PAINT imaging using an Abberior sequence file, and showed that quenched DNA-PAINT probes may yield better images than standard probes in MINFLUX.
Fluorophore flickering can create up to a tenfold increase in localization precision. We showed this can be mitigated by repeated scanning of a fluorophore.
April 9, 2025 at 1:26 PM
Fluorophore flickering can create up to a tenfold increase in localization precision. We showed this can be mitigated by repeated scanning of a fluorophore.
Starting off simple: misalignment of the phase pattern that generates a donut degrades performance, while misalignment of the pinhole has little effect.
April 9, 2025 at 1:26 PM
Starting off simple: misalignment of the phase pattern that generates a donut degrades performance, while misalignment of the pinhole has little effect.
Checking out the cherry blossoms at Votivkirche
March 30, 2025 at 1:00 PM
Checking out the cherry blossoms at Votivkirche
Incredible 4Pi and pan-expansion imaging of the Golgi 👇
March 29, 2025 at 4:03 PM
Incredible 4Pi and pan-expansion imaging of the Golgi 👇
Merry Christmas and Happy Hanukkah!
December 25, 2024 at 6:53 PM
Merry Christmas and Happy Hanukkah!
Very cool bit about living in Europe is we can just bop to Paris for the weekend
November 11, 2024 at 1:29 PM
Very cool bit about living in Europe is we can just bop to Paris for the weekend
I could just do the math for each cat individually, but that’s not as fun. Here’s a psychrometric-style chart for cat weight vs. paw length. You can see big cat and small cat as red dots on the chart (they like to chase red dots so this is how we summon them to the graph).
November 1, 2024 at 8:57 AM
I could just do the math for each cat individually, but that’s not as fun. Here’s a psychrometric-style chart for cat weight vs. paw length. You can see big cat and small cat as red dots on the chart (they like to chase red dots so this is how we summon them to the graph).
Big cat weighs 6.4 kg and has a paw length of 5.1 cm. Small cat weighs 5.4 and has a paw length of 3.8 cm.
November 1, 2024 at 8:57 AM
Big cat weighs 6.4 kg and has a paw length of 5.1 cm. Small cat weighs 5.4 and has a paw length of 3.8 cm.
So, I turned to physics to decide if big cat was being nice or small cat was throwing his weight around. Suppose we model a cat as a weight on four cylinders. Then, the cat’s body weight is distributed evenly over an area of 4*pi*r^2 where r is half the cat’s paw length.
November 1, 2024 at 8:56 AM
So, I turned to physics to decide if big cat was being nice or small cat was throwing his weight around. Suppose we model a cat as a weight on four cylinders. Then, the cat’s body weight is distributed evenly over an area of 4*pi*r^2 where r is half the cat’s paw length.
To develop intuitive expressions for MINFLUX and why it outperforms maxima scanning, we derived its localization precision using an explicit PSF background term. The new expressions and a comparison to previously published equations can be found at arxiv.org/abs/2410.12427.
October 22, 2024 at 1:27 PM
To develop intuitive expressions for MINFLUX and why it outperforms maxima scanning, we derived its localization precision using an explicit PSF background term. The new expressions and a comparison to previously published equations can be found at arxiv.org/abs/2410.12427.
What’s been going on the MINFLUX field? Lukas Scheiderer, Jonas Ries and I have it summarized in our new review article, written at @maxperutzlabs.bsky.social. Check it out at arxiv.org/abs/2410.15902.
October 22, 2024 at 1:27 PM
What’s been going on the MINFLUX field? Lukas Scheiderer, Jonas Ries and I have it summarized in our new review article, written at @maxperutzlabs.bsky.social. Check it out at arxiv.org/abs/2410.15902.
Adding another package to my Python environment
November 8, 2023 at 2:06 PM
Adding another package to my Python environment
You can get cage-free remote focus systems if you feel they are healthier, but the caged ones are just as good optically
November 7, 2023 at 10:23 PM
You can get cage-free remote focus systems if you feel they are healthier, but the caged ones are just as good optically
Teaching Linux commands to cats
November 4, 2023 at 3:38 PM
Teaching Linux commands to cats
A couple of days late but this Halloween house rocked
November 2, 2023 at 8:02 PM
A couple of days late but this Halloween house rocked
Why I keep a needle and thread in my phone case
October 30, 2023 at 8:21 PM
Why I keep a needle and thread in my phone case
Partial eclipse today. Cell phone pic with a stack of Thorlabs neutral density filters
October 14, 2023 at 5:05 PM
Partial eclipse today. Cell phone pic with a stack of Thorlabs neutral density filters
They imploded a few buildings on campus this morning
October 1, 2023 at 1:20 PM
They imploded a few buildings on campus this morning
Cooking up a tiny bit of mouse meat for my cats
September 14, 2023 at 11:35 PM
Cooking up a tiny bit of mouse meat for my cats