I am wowed at the images published recently in BioArxiv in the Zero-shot deconvolution networks paper. It will be interesting to see the peer-reviewed paper.
I would be interested in visualizing the amount of errors made by the network. A simple way to do it is to acquire a short time lapse (eg 10 images) of a fixed sample, run it through the network and see which structures are stably identified and which change from frame to frame. 🙂
Light-Seq is a new pretty cool technique for highly multiplexed sequencing of RNA in tissue sections using light. This technique is highly sensitive, highly spatially resolved and because it does not destroy the tissue, it can be combined with protein labelling (genetic or by immunolabelling).
On one of our single-point confocal/spinning disk/widefield system at the LCI facility, we have a device called Primo (DMD + UV laser) which can be used to run this technique! 🙂
Let us know if you would like to set up LightSeq at the LCI core facility!
On the 22nd of September at 10, you get a chance to see and try the latest light sheet on the market: the Nikon Mizar TILT.
- Easy to use stage top light sheet with only 1 objective
- Imaging of cell monolayer, cells in gels, organoids in gels, small organisms…
- Samples in glass bottom multiwell chamber slides
- Stage top incubator for live sample imaging
- Advantage of using the TILT light sheet
- low phototoxicity and bleaching even with high resolution objective
- excellent temporal and spatial resolution for live samples
- See here for more info.
This demo is only for a limited time (10 days) and in person only. Please let us know if you want to join the demo and if you want to try your own sample.
9th of September, 10-12am: Live/zoom demo of the latest microscope acquired by the LCI facility: Crest spinning disk with DeepSIM (new Orion)
- Ti2 microscope
- Crest spinning disk (identical to the one on Tweety but with slightly different wavelengths)
- DeepSIM: SIM is a fast super-resolution technique which is gentle for the sample (less bleaching, less photodamage for live samples) and offers double the resolution of a confocal microscope (down to 120nm resolution), even thick in samples. It is flexible and can be used with any objectives, even low magnification air objectives.
- No specific sample preparation requirements
- More information here
For the best experience, join the demo in person at the LCI facility (please apply by replying to this email) but if you cannot make it, you can also listen on Zoom.
The system has been purchased by the LCI so it is here to stay! 🙂
Please let us know if you want to join the demo in person and mention if you would like to try imaging your own sample with DeepSIM.
mCherry is a very popular red fluorescent protein. However it has several disadvantages:
- It is shifted towards far red (ex peak 585 nm) so it often is not imaged optimally with the illumination sources and filters commonly available.
- It bleaches fast
mCherry has now been evolved into mCherry-XL with several improvements:
- This variant is shifted back towards green (ex peak 560 nm) therefore being very well excited with popular 561nm lasers.
- It is 3 times brighter than mCherry
- There is also a clear improvement in the lifetime for FLIM
- Together the 2 points above means that less excitation power is required so it should help with the bleaching problem
Here is the paper. Therefore you should consider mCherry-XL for your future tagging with red fluorescence proteins.
Nordic superresolution microscopy facility staff/researchers: STED
March 15th and 16th at 9-12 am. CONTACT: Hans Blom (firstname.lastname@example.org)
Mar 15, 2022 9:00am
- 9:00-9:45am – BNMI info / STED intro [Hans Blom & Daniel Smeets (Leica)]
- 9:45-10:15am – STED sample prepping [Ulf Schwarz et al. (Leica)]
- 10:30-11:00am – Input from a Nordic STED facility [Jonathan R. Brewer (DaMBIC)]
- 11:00-11:45am – STED demos [Luis Alvarez/Ulf Schwarz et al. (Leica)]
- 11:45-12:00am – Extra discussion time
Mar 16, 2022 9:00am
- 9:00-9:45am – Live-cell STED [Giovanna Coceano (KTH Stockholm)]
- 9:45-10:15am – Remote STED [Marko Lampe (ALMF/EMBL)]
- 10:30-11:00am – STED-FCS [Erdinc Sezgin (KI Stockholm)]
- 11:00-11:45am – Advanced STED demos [Luis Alvarez/Ulf Schwarz et al. (Leica)]
- 11:45-12:00am – Extra discussion time
It is now time to apply to the intensive LCI microscopy course Jan/Feb 2022: Microscopy: improve your imaging skills – from sample preparation to image analysis
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 their knowledge is limited.
All the lectures at the LCI microscopy course will also broadcasted live online, free of charge and there is no need to register.
All details about the course including course schedule, how to apply, and how to follow the lectures are found here.
Scroll down to read the kind testimonies of our dear students! 😊
Hope you enjoy the LCI facility microscopy course 2022!
Hans Blom from the Advanced Light Microscopy facility at Scilife organises next week (10th and 1tth of June) 3 sessions of great seminars:
I especially recommend the CUBIC seminar to anyone who wants to image samples thicker than 100 um. This will teach you how to treat your sample to make it fully transparent so you can image through many cm of tissue!
Fluorophores are evolving fast! Here is a paper about a bunch of new fluorophores isolated from the jelly fish Aequoria. This includes the brightest fluorophore ever isolated: a new green fluorescent protein called AausFP1 that is almost 5 times brigther than GFP! Respect! 🙂
Euro-BioImaging Bio-Hub at EMBL Heidelberg is looking for the Euro-BioImaging Industry Board (EBIB) Coordinator who will work in close collaboration with EBIB Chair and EBIB members located across Europe as well as with the Euro-BioImaging Hub Office.
The Euro-BioImaging Industry Board (EBIB) is currently comprised of thirteen different companies across the imaging field. In the EBIB, all companies work together as a single, professional entity, setting their own goals in order to proactively drive the interaction between the imaging industry on the one hand and European researchers, funders and the imaging facilities linked with the European research infrastructure, Euro-BioImaging on the other hand. In October 2019, the European Commission has officially established Euro-BioImaging – which provides life scientists with open access to a broad range of technologies and resources in biological and biomedical imaging – as a European Research Infrastructure Consortium (ERIC). The post holder will report to the Director Euro-BioImaging Bio-Hub at EMBL and the EBIB Chair. The responsibilities of the position include among others:
- Proactively seeking opportunities for EBIB members to engage and collaborate with Euro-BioImaging Nodes, users and national networks;
- Representing the EBIB at international events in a professional and politically astute manner;
- Strategically prepare and operationally manage EBIB-driven meetings and workshops to understand the needs of the imaging community;
- Coordinating “One Voice” activities to the political community at national and European level (European Commission, Brussels) in order to increase the imaging market;
- Developing communication tools and activities to boost EBIB’s visibility in order to increase the number of industry members and strengthen EBIB’s presence in the scientific and political landscape;
- Keep up-to-date with imaging-associated initiatives and provide EBIB with tailored insight into European research trends and culture changes;
- Coordinating industry participation in Euro-BioImaging EU-wide training programs;
If you are interested please find here the complete job description and link for online submission of your application.
Please distribute also to your friends and colleagues, who might be interested in this job posting. Thank you!
Antje Keppler, PhD
Interim Section Director
Global BioImaging Coordinator
EMBL Meyerhofstr. 1, DE-69117 Heidelberg Tel. +49 6221 387 8847