#bioimaging — Public Fediverse posts

We are happy to announce the "NL-BioImaging Advanced Image Analysis course for biologists", 21–24 September at Erasmus MC in Rotterdam.

More info and register here:
https://courses.microscopie.nl/?event_id=527

Four hands-on days going from segmentation to full pipelines:
- Automate reproducible image processing with Jupyter notebooks
- Assess classical and AI approaches for specific challenges
- Train and optimise deep learning models on biological datasets
- Document and publish reproducible image analysis pipelines

Guidance from experts across the Netherlands.
Limited to 20 participants.

Feel free to tag colleagues or share this with your network!

#bioimaging #imageanalysis #course #openscience
#cellpose #OMERO #Jupyter #napari #FAIRdata
NL-Bioimaging #NVvM

In the latest issue of #JCellSci, with Stefania Marcotti, Lina Gerontogianni, Gavin Kelly, & David J. Barry, a reanalysis of images from the #IDR to answer the age-old question:

How do you tell #statistical #significance from #biological significance?

📝 https://doi.org/10.1242/jcs.264367

#Neuroscience #Statistics #Biology #imageanalysis #Bioimaging #imaging #bioimageanalysis

🔬 A breakthrough for spatial biology? This ultrafast 3D imaging method enables deep whole-organ visualization faster than ever before.

🔗 Rapid 3D Immunolabeling and Light Sheet Microscopy for Quantitative Analysis of Intact Tissues. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0121

📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj

#Bioimaging #3DImaging #LightSheetMicroscopy #TissueBiology #Microscopy #CellBiology #SpatialBiology #Histology

Thank you to organisers @fran_bottanelli, @guijacquemet, Michael Way and Giulia Zanetti and everyone who joined us at this week's Journal of Cell Science meeting on 'Imaging Cell Dynamics'.
https://journals.biologists.com/jcs

#JCSimaging #imaging #biology #bioimaging #CellBiology

🔬 New #SpectralUnmixing paper by Ashesh et al. ( @florianjug): A #DeepLearning-based framework #MicroSplit for #FluorescenceMicroscopy that separates highly overlapping #fluorophore signals directly from multiplexed #ImagingData. Improves signal separation, reduces crosstalk, & enables more accurate multi-channel #imaging w/o requiring extensive reference measurements. Can’t wait to try this out on our in vivo #2P/ #3P imaging data:

📝 https://doi.org/10.1038/s41592-026-03082-1

#Bioimaging

Deadline is this Friday 1 May to submit your research to the JCS special issue: Imaging Cell Architecture and Dynamics
#imaging #cellbiology #bioimaging https://journals.biologists.com/jcs/pages/imaging

🧬 How can AI bridge the gap between histology and spatial transcriptomics?

🔗 SegDecon bridges histology and transcriptomics through AI-based nuclei segmentation and image-informed spatial deconvolution. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.10.041

📚 CSBJ: https://www.csbj.org/

#SpatialTranscriptomics #Histology #Genomics #SystemsBiology #NucleiSegmentation #AI #CellBiology #TissueBiology #Bioimaging

New tutorial from the Galaxy Training Network! Learn how to quantify gel electrophoresis bands using QuPath + Galaxy. Fully open, reproducible, and beginner-friendly.
https://training.galaxyproject.org/training-material/news/2025/08/18/bands_image_analysis.html

@galaxyfreiburg
#Bioinformatics #ImageAnalysis #GelElectrophoresis #OpenScience #ReproducibleResearch #GalaxyProject #QuPath #Bioimaging #LifeSciences #OpenSourceTools #ScienceEducation #DataAnalysis #ResearchTools

New tutorial from the Galaxy Training Network! Learn how to quantify gel electrophoresis bands using QuPath + Galaxy. Fully open, reproducible, and beginner-friendly.
https://training.galaxyproject.org/training-material/news/2025/08/18/bands_image_analysis.html

@galaxyproject
#Bioinformatics #ImageAnalysis #GelElectrophoresis #OpenScience #ReproducibleResearch #GalaxyProject #QuPath #Bioimaging #LifeSciences #OpenSourceTools #ScienceEducation #DataAnalysis #ResearchTools

On Day 2 of European Galaxy Days, Beatriz Serrano-Solano presented Update by the Imaging Community.
Read more: https://galaxyproject.org/community/sig/image-analysis/

@galaxyfreiburg
#imaging_community #bioimaging #EGD2025 #galaxyproject #eosc #fair #community #open_science

Wir haben #Omero in die Testphase an der #GoetheUniversität und erproben nun den Betrieb 💪 #Forschungsdaten #Bioimaging #ResearchData #GoetheUniversity https://www.ub.uni-frankfurt.de/forschungsdaten/omero.html

From Josh Moore, German Bioimaging research software engineer and OME and Zarr developer and maintainer:

🚀 We’re hiring again! Join German BioImaging as a Software Developer!

💻 Build scalable #bioimaging solutions

🌍 Collaborate globally

🎯 Contribute to open science through #OME #Zarr

📣 Tell your #NGFF friends.

Remote, full-time. Apply by 30 June 2025. All submissions via:
https://gerbi-gmb.de/machform/view.php?id=86038

🚀 We’re hiring again! Join @GerBI as a Software Developer!

💻 Build scalable #bioimaging solutions

🌍 Collaborate globally

🎯 Contribute to open science through #OME #Zarr

📣 Tell your #NGFF friends.

Remote, full-time. Apply by 30 June 2025: All submissions via http://bit.ly/gerbi-jobs-202505

#getfedihired

https://gerbi-gmb.de/resources/career/

It was a pleasure to be a speaker at the "Shaping light in space and time for bioimaging" Ph.D. school in Erice! Met a selection of amazing scientists, and had a lot of fun discussing imaging and optics in a great location! #bioimaging #optics