I spent the day rectifying segmentation and tracking for bacteria in microfluidic devices. 1000 frames, 5 chambers, ~8 cells per chamber, so 40000 pictures of cells to look at, and check that they match frame to frame. I think I'm done with screens for the day. Fortunately automation helps, and drawing the lineages as graphs allows to spot errors more easily.
Now I have a clean dataset that I can analyse and also use as a training dataset for the next iteration!

Congratulations to the top 3 images from the Node–FocalPlane image competition!

1. "Cell-estial bloom" by Özge Özgüç

2. "Dancing actinotroch" by Allan Carrillo-Baltodano

3. "Who’s active?" by Julia Peloggia de Castro

@the_node @focalplane_jcs

Here's an interesting way to do photobleaching with cleared tissue: Add 0.1% H2O2 to the clearing medium and blast with LEDs for 24h at RT. Also includes very detailed instructions for building an LED photobleaching setup - the samples ate placed between two PCBs with LEDs in a ventilated box.

Open-source Photobleacher for Fluorescent Imaging of Large Pigment-Rich Tissues
Murakami et al., preprint at biorxiv 2025
https://www.biorxiv.org/content/10.1101/2025.02.24.639965v2.full.pdf

We used to have class in science. What happened? #science #microscopy

Welcome to the new edition of #nakeddiefriday everyone. The guest today is the famous ESP8266EX by Espressif, a SoC loved by many in the electronics world.

Unfortunately, the digital section is fully covered by two topmost metal layers carrying power. We do have a glorious analog/RF section though.

SiPron page: https://siliconpr0n.org/archive/doku.php?id=infosecdj:espressif:esp8266ex

Wonderful discovery for #protists #independentresearch #microscopy #microbiology folks. Check out a new zine called "Amoeba Discovery":

https://stefanluketa.com/amoeba-discovery/

I never thought very much about protists/amoebas, and reading this volume was a fascinating introduction to what seems to be an understudied field.

Now I'm wondering how I might isolate and sequence some interesting samples!

@foaylward

Reflecting on #biologists100 last week, I greatly enjoyed meeting past colleagues and getting to know the work of @Co_Biologists better. The experience reinforced for me the importance of society own journals and their work.

From the programme, I especially enjoyed the talks of Jennifer Lippincott-Schwartz and Manu Prakash in the emerging technologies session, #microscopy is the future! (1/2).

Alright, let's get the #nakeddiefriday going.

Today's exhibit is AR9281 by Atheros, a very classic Wi-Fi chip found in many devices. Comes in very pink hues. A short thread with highlights follows.

SiPron page: https://siliconpr0n.org/archive/doku.php?id=infosecdj:atheros:ar9281-al1e

It's such a pleasure to work with great equipment. Askania SMT4 microscope, Leica Flexacam C5, Robin's tools pixelpump, SIS Licht Maschinenleuchte. PCB by AISLER.

@aislerhq @leicamicrosystems @robin1337
#Askania #smd #smt #soldering #rework #tools #microscopy #pixelpump #leica
#MadeinEU #madeingermany

New #microscopy technique follows individual molecules as they pass through a nuclear pore complex in a live cell. Resolution of nanometers and milliseconds. https://www.nature.com/articles/d41586-025-00804-x

A thought I've had a few times lately: my current setup is far from sufficient for this, but in the future I think it might be fun to try livestreaming a bit of microscopy. Would anyone actually wanna watch such a thing?

I'm not saying it would happen anytime soon (or ever), but I may start looking into what upgrades it would take to make a livestream feasible if there's any interest. Poll below if you think that sounds neat ig

and as a thank you for reading this whole thing, check the replies for a low-quality cystidia pic

Hello and welcome to this week's installment of #nakeddiefriday !

The guest of today is the TIBPAL16R4 by TI, a programmable array logic chip made with bipolar logic. The die has 2 metal layers, its maskwork produced in 1985. A short thread follows.

More info and hi-res pano at: https://siliconpr0n.org/archive/doku.php?id=infosecdj:ti:tibpal16r4

We had our very first practical school at the Centre for Organismal Studies at @uniheidelberg !

This was a hands-on volume EM and sample preparation course with several theoretical lectures.

https://www.cos.uni-heidelberg.de/en/research-groups/gaspar-jekely/Events/zoocell-course

Here is a short write up about the event by @abilgk

https://zoocell.eu/2025/03/13/practical-course-on-animal-diversity-and-em-sample-preparation/

Standardized measurements for monitoring and comparing multiphoton microscope systems | Nature Protocols:

https://www.nature.com/articles/s41596-024-01120-w

MicroVQA: A Multimodal Reasoning Benchmark for #Microscopy-Based Scientific Research
https://arxiv.org/abs/2503.13399
#LLM large #vision model

Travelling with samples always stresses me the heck out. Taking some thin sections abroad for a workshop, has anyone ever had a problem with taking them in carry on? Irrationally afraid security will question the glass.

A blobby boi! #microscopy #microscope #protozoa
Leitz Laborlux Iiia
10x ocular
45x achromatic objective
iPhone 12 Pro.

How do other microscopists / photmicrographers cope with the prospect of wading through almost a years backlog of collected images and video, approx 250GB of HDD space or a quarter of the whole HDD - to decide what to keep and what to delete. Any Advice?
#Microscopy #Photography #Photomicography #Computing