SeeDB-Live: Clearing live samples with BSA

Amazing talk at the ELMI in Coimbra!

Takeshi Imai presented SeeDB-Live, a new clearing technique for live samples. The refractive index is 1.363 and the technique works exceptionally well in loose tissues like brain but allows also 2 times deeper imaging in live organoids. They could even image calcium with multiphoton repeatedly over several months in brain of live mice!

The paper was just published in Nature.

FLASH-PAINT: nm resolution, fast and highly multiplexed!

Just heard this amazing Eurobioimaging talk by Florian Shueder from EFPL. They published FLASH-PAINT, an improved version of DNA-Paint.

FLASH-PAINT combined with fluorogenic probes, eraser oligos and EXCHANGE-PAINT has many advantages over DNA-PAINT:

    • It keeps the very high resolution of just a few nm.
    • It is very fast.
    • It enables imaging with a widefield system instead of in TIRF.
    • It enables high multiplexing (they demonstrate 12 rounds) without needing to wash.

They demonstrate 12-plex imaging with 25nm resolution in just 2h!

 

Reproducibility?

Have you ever heard of the Antibody reproducibility crisis?

Well here is a new chapter in this sad saga and this one is about the possible image manipulation of the Western Blots on the datasheets of commercial antibodies.

There is a strong need for clearer ethical guidelines and more education.

Free, online microscopy course by the LCI core facility

Dear all

Kindly forward to anyone who might be interested.

It is my pleasure to invite you to follow our free (no registration) online microscopy course.

The course schedule and Zoom link are found our course webpage.

The public program (everything in blue in the course schedule) starts next week on Thursday 22th of Jan and runs until the 13th of February.

Here is a selection of what we will talk about:

  • Optics and image formation,
  • How microscopes work
  • Objectives and refraction index
  • Cameras and detectors, Noise and background, Bit depth and saturation
  • Sample preparation, Immunostaining, Clearing
  • Resolution and contrast, Nyquist sampling, how to choose microscope settings
  • Data handling, how to make article figures, Requirements for image analysis, Colocalization, Ethics
  • Image processing and analysis

All lectures will be broadcasted live on Zoom, recorded then posted the same day on our Youtube channel.

The course syllabus with the Learning Objectives can be downloaded here.

Do not miss the kind testimonies on our course webpage! 🙂

The LCI core facility team, Stockholm, Sweden

Time to apply to the LCI Microscopy course! :)

Dear all

You are now welcome to apply to join the LCI light microscopy course (21 Jan – 13 Feb 2026) ‘Microscopy: improve your imaging skills – from sample preparation to image analysis’ (6 credits).

The purpose of this fully online yet very applied course is to provide PhD students and researchers with enough theoretical and practical knowledge about their OWN sample and their OWN microscope, to enable them to:

    1. Prepare their sample and formulate their scientific question in a way that is suitable for reliable data extraction.
    2. Properly use the software and hardware available on the microscope they use in their lab/facility.
    3. Design their experiment based on image analysis requirements.

Application deadline 5th of November.

Course webpage.

Course syllabus, description and registration. Please carefully check the eligibility criteria and make sure to include all required items in your application.

Those who cannot register to the course can anyway follow any of the lectures (in blue on the schedule) as they will be publicly broadcasted live on Zoom and accessible to anyone without registration. The schedule and zoom link are on the course page.

Kindly help us spread the word. 🙂

The LCI team

Useful tips on the Nikon E-learning platform

Dear all

Have a quick look at Nikon’s e-learning platform! There are many useful tips and reminders of what we teach during the LCI training and course. 🙂

For example, here is a reminder of how refractive index mismatch distorts your images and when you should be concerned. 🙂

Clearing live samples!

A couple of super cool papers about transiently clearing live samples to obtain better images!

On Bioarxiv

In Science

The online LCI microscopy course: Microscopy: improve your imaging skills – from sample preparation to image analysis.

Dear all

It is my pleasure to invite you to follow, online, free of charge and without registration, the LCI facility microscopy course Microscopy: improve your imaging skills – from sample preparation to image analysis. The public program starts on Tuesday next week (28th of Jan) and runs until the 13th of February.

As usual, all lectures are broadcasted live on Zoom and posted on Youtube every day, for the benefit of our far-away colleagues.

The aim for this course is to improve the microscopy skills of students and researchers who have already used a microscope to acquire digital images of fluorescent samples but feel that more knowledge could help them.

Here is a selection of what we will talk about:

  • Optics and image formation,
  • How microscopes work
  • Objectives and refraction index
  • Cameras and detectors, Noise and background, Bit depth and saturation
  • Sample preparation, Immunostaining, Clearing
  • Resolution and contrast, Nyquist sampling, how to choose microscope settings
  • Data handling, how to make article figures, Requirements for image analysis, Colocalization, Ethics
  • Image processing and analysis

Check our course webpage to see the course schedule (Broadcasted activities are in blue) and the Zoom link. Here is a full description of the course.

Scroll down to read the kind testimonies of our dear students! 🙂

We hope that you will enjoy the LCI facility online microscopy course!

Kindly forward to anyone who might be interested.

The LCI team

Direct label of primary antibodies with the FlexAble kit

Some of our users have tested the ProteinTech FlexAble kit to directly label primary antibody and they are very happy so we thought we should share! 🙂

It only takes 10min to label the primary. It saves time for the sample staining procedure and it saves cute animals when one stops ordering secondary antibodies! 🙂 In the hand of our users, the images were as bright or brighter than the same labelling with primary + secondary.

And you can ask for a free sample to test! :):):)

 

Registrations to the LCI microscopy course 2025 will soon close!

There are a few spots left at our course (27 Jan – 14 Feb 2025): Microscopy: improve your imaging skills – from sample preparation to image analysis’ (6 credits). Application deadline: 5th of November 2024.

This course is completely unique in that it is a highly hands-on course but because it runs completely remotely, your hands will be on your own microscope and your own sample. 😊

  • To see how the course can help your microscopy project, check out the course schedule 2025 and the alumni testimonies on the course webpage.
  • You can read the course syllabus and apply on this page. Make sure you check the eligibility criteria and click on the + sign at the top for more information.
  • If you cannot apply to the course, you can anyway follow any of the lectures (in blue on the course schedule) as they will be publicly broadcasted live on Zoom and accessible to anyone without registration. The schedule and zoom link are available on the course page.

The purpose of the LCI facility microscopy course is to provide PhD students, researchers and core facility staff who have some prior experience of microscopy with enough theoretical and practical knowledge about their OWN sample and their OWN microscope, to enable them to:

  1. assess and improve their sample so that it becomes suitable for data extraction from fluorescence images,
  2. make best use of the hardware available in their lab/facility,
  3. fully understand the acquisition parameters they need to set in their own microscope software,
  4. design their experiment from scientific question to image analysis using a strong knowledge base.

The aim is to provide you with tools to acquire on ANY wide field, confocal or light sheet microscope, images of your samples that reliably answer your scientific question.

The course is free of charge. Contact us (LiveCellImaging@ki.se) for enquiries.

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