LCI event – Page 3 – The Live Cell Imaging facility

Call4Help: fast-track help with your image analysis project!

BII (BioImage Informatics, the great image analysis at SciLife Uppsala) and the LCI facility will run a new Call4Help on the 4th of September.

Anyone who is stuck with image analysis and wishes for quick help to build a pipeline should apply. You don’t have to acquire the images at the LCI. Anyone can apply.

How does it work? You first upload your images and a little explanation text. A few days later, we all meet virtually in a Zoom chatroom for a quick (30 min-1 h) online session. You get comments, suggestions and help with building a Fiji or CellProfiler analysis pipeline tailor-made for your images.

If you are interested, click on the link below to apply:

BioImage Informatics

Super-Resolution spinning disk demo at the LCI!

Dear microscope freaks

How would you like to run some gentle live sample imaging with a 60x objective with:

an xy resolution of 120 nm without software tricks (or even better after deconvolution),
the great contrast of a true confocal,
82 frames per second,
or decide to bypass everything, go widefield and image at 100 frames per second with a super large field of view (220×220 um)?

Sounds good to me! 🙂

For the next 2 weeks you can do that with the new toy on demo at the LCI facility!

The beast is a new sort of spinning disk confocal and is called SoRa (Super-Resolution Optical Reassignment). It is a collaboration between Nikon and Yokogawa.

We even have 2 cameras to compare (Prime95B and BSI from Photometrics).

Oliver Garner from Bergman Labora will give a short online presentation of how SoRa works on Monday (29^th) at 13:00. The presentation is done remotely and broadcasted live. You can join the audience from the comfort of your office chair by following the instructions here (please try beforehand to make sure all works).

Interested in trying it? Please contact us.

A dream!!

Call4Help: The image analysis help you have always dreamt of, totally for free!!! ???

After the success of the previous Call4Help session in February, BII (BioImage Informatics, the great image analysis at SciLife Uppsala) and your favorite microscopy facility (we hope) will run a new Call4Help next Tuesday 2^nd of April.

Anyone who is stuck with image analysis and wishes for quick help can apply.

These are 100% online sessions (we ‘meet’ in a Zoom chat room) where you submit your images and a little explanation text in advance and you get suggestions for 30 min and an analysis pipeline all done for you (Fiji, CellProfiler, Ilastik, QuPath, KNIME)!

If you are interested, please apply as soon as possible (sorry for the late announcement).

Here is how to apply: https://www.scilifelab.se/facilities/bioimage-informatics/

Image Analysis Call4help on 14th of feb!

The image analysis help you have always dreamt of, totally for free!!! ???

Deadline 6th of feb!

First SciLifeLab BioImage Informatics call4help zoom session

On the 14th February 2019, 10:00 – 12:00 the SciLifeLab BioImage Informatics Facility is organizing an online support session on BioImage Analysis (“call4help” session).

How does it work?

Each selected participant gets a 15 min slot. You have 5 min to present your problem. It is mainly about showing the scientific context, representative input images, describing desired output measurements, and giving a brief statement about what was done before. The remaining 10 min we will brainstorm together on the possible solution(s), discuss tools, techniques, etc.

The Bioimage Informatics Facility can provide further support, if needed. We are happy to announce that Sylvie Le Guyader, Live Cell Imaging Facility, KI, Huddinge, is joining the session as microscopy expert.

How can I participate?

Step1:

Prepare a presentation – use this template for your presentation:

Step2:

a) Upload your presentation to this google drive:

b) AND send an e-mail to anna.klemm@it.uu.se until 6th February 2019.

Step 3:

Join this zoom-session.

If your problem is selected for presentation, you will get a time-slot of 15 minutes within the session (14th February 2019, 10:00 – 12:00). If not, you are welcome to join the discussion anyway!

What are the Deadlines

Submission of a problem: until 6th February 2019

Notification about participation: 8th February 2019

Session: 14th February 2019, 10:00 – 12:00

Participants

Petter Ranefall

Kevin Smith

Anna Klemm

Sylvie Le Guyader

Call4Help format

The call4help format was initially developed by ScopeM, ETH Zürich.

The LCI facility has moved to Neo! :)

That’s it! We have done it! We have moved to Neo! 😀

The trip to Neo (just next door to Novum) started at the end of 2015! 2 years and lots of planning meetings later, all the companies involved (mostly Bergman Labora and Zeiss but also Alveole, La Vision Biotech, MMI and Andor) started dismantling, moving and reassembling our 7 microscopes on the 4th of December. Now, one and a half month later, everything is nearly done! Exciting! 🙂

LCI microscopy course 2017 is here!

The Live Cell Imaging facility will soon run its intensive microscopy course 17th Jan-9th Feb. Loads of fun workshops, informative lectures, intense discussions and our popular Student Imaging Challenge workshop where students get direct feedback on how to improve their own sample preparation/experimental design.

The full course (#2870) is full but the theory only course (#2871, 4.5 points) has unlimited space so you can still apply (mail me) until the 13^th.

As usual, all lectures are public so you are welcome to just show up without registration. The full program is on our our course webpage and instructions on how to find the Green seminar room can be found here. The program will be kept updated in case of (unlikely) last minute changes.

Additionally this year, we will do our best to broadcast all the lectures so that you do not need to physically come to Flemingsberg to listen to your favourite topic. Instead, just follow check the schedule on our course webpage, find out which lecture you want to follow and follow the LCI webinar link. We welcome your feedback about the quality of the webinar and the content of the lectures.

Try your sample on the Leica light sheet microscope!

We are delighted to host the Leica light sheet system, 25-26^th January!

Have a look at the cool videos they have on their website! Check here for details on how to:

Come and listen to the Leica Lightsheet seminar January 25^th 11:00-12:00, Red seminar room (how to find)
Book a private demo to image your own sample with the Leica specialist (January 25^th and 26^th).

Primo is a cool micropatterning device by Alveole

Primo is a cool micropatterning device that allows you to print your favourite protein on a Petri dish or a multi well plate with the pattern you want (down to 1 um resolution!). Print up to 3 proteins either in distinct or overlapping patterns, make gradients or even print on the walls of the wells. All you need is a jpeg image of your pattern! Then you can study how your favourite cells interact with the printed protein. See here how to book a time on the 18^th of January to see it action!

BioPen is a microfluidics device by FluiCell

One can pipette out a controlled concentration of a reagent onto one or a few cells inside a dish, without affecting the other cells. All this is done on the microscope so you can record the cell reaction and get quantitative data.The adjacent cells can serve as internal controls or can be used for repeats of the experiment. The device also has many channels, allowing you rinse the cell after exposure then expose it to other reagents and even mix the reagents in the different channels as you want. Check here to get to the webinar or see how to try BioPen with your own sample!