National Microscopy Infrastructure
NMI events and announcements
The registration deadline for the DIASA course has been prolonged to March 25th, click here for more info. This is great opportunity to learn more about image analysis for scientific applications. Go to the course homepage and sign up!
This course covers lectures and practical demonstrations in super-resolution microscopy and light-sheet imaging, as well as fluctuation correlation spectroscopy techniques. During week 2 participants (at home) use the aquired knowledge about the advance microscopy techniques to plan their own research projects.
Organizer: KTH-ALM
Location: SciLifeLab in Solna, Tomtebodavägen 23
Time: May 22nd-25th lectures/demos; May 29th – June 2nd own project, 2023
Contact and registration: stewen@kth.se, Stefan Wennmalm KTH/SciLifeLab
We present TissUUmaps, browser-based tool for GPU-accelerated visualization and interactive exploration of tens of millions of datapoints overlaying tissue samples. Users can visualize markers and regions, explore spatial statistics and quantitative analyses of tissue morphology, and assess the quality of decoding in situ transcriptomics data. TissUUmaps provides instant multi-resolution image viewing, can be customized, shared, and also integrated in Jupyter Notebooks. It is also possible to directly connect spatial markers with markers in feature space, such as UMAP plots, to interactively relate feature space with physical space. TissUUmaps was created in collaboration between BIIF and the Wählby lab. You can read more about it and test the software on its web page: https://tissuumaps.github.io/
During the seminar, we will specifically showcase new features of TissUUmaps 3.1, such as:
– HDF5 / AnnData files loading
– Network diagram visualization
– Multiple datasets displayed on a grid
– Plugin engine
The webinar will be given by Christophe Avenel and Fredrik Nysjö.
Organizer/NMI node: BIIF at Uppsala University
Location: Online
Time of event: 10:00-12:00, February 14th, 2023
Deadline for registration: February 14, 2023
Weblink: https://www.scilifelab.se/event/tissuumaps-3-interactive-visualization-and-quality-assessment-of-large-scale-spatial-omics-2/
Contact: christophe.avenel@it.uu.se
The Advanced Light Microscopy facility welcomes you to a symposium on super resolution MINFLUX fluorescence microscopy applications.
Organizer/NMI node: KTH-ALM
Location: Samuelsson salen, Tomtebodavägen 6, Solna
Time: May 26th, 2023
Registration: hans.blom@scilifelab.se
The Advanced Light Microscopy facility at KTH welcomes you to a symposium on FLIM, FRET, FCS and Tau-STED fluorescence microscopy applications.
Organizer/NMI node: KTH-ALM
Location: Inghesalen, Campus Solna
Tomtebodavägen 18a, Solna
Time of event: March 8th, 2023
Registration: hans.blom@scilifelab.se
The BioImage Informatics Facility (BIIF) together with microscopy expert Sylvie Le Guyader (LCI, Karolinska Institutet) organizes a Call4Help session every month. The aim is to offer combined expertise towards microscopy and bioimage analysis. All researchers from Swedish institutes can participate.
NMI node: BIIF at Uppsala University
Location: on zoom
Time of event: every 1st week of the month (mainly on Tuesdays, but there might be exceptions)
Deadline for registration: continuous
Weblink: https://www.scilifelab.se/call4help-form/
Contact email: biif@it.uu.se
Participate in an Online Symposium on Intravital Microscopy on Oct 26th, 09:00-13:45 CET.
Registration: ivmsu@su.se
registration by email to: stewen@kth.se
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