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Reprocess and refine the single-cell results of MERSCOPE experiments
https://galaxyproject.org/news/2025-05-19-vpt/
#UseGalaxy #GalaxyProject #EOSC #Spatial_transcriptomics #MERSCOPE
Large Merfish slides with 300mm2 selectable area and up to 10 regions! Thank you @vizgen.bsky.social, time for even more data! #Merscope #Microscopy #BiggerIsBetter #GiveMeMore Contact SCOPE @umasschan.bsky.social for your next Merfish project
A new pre-print study from researchers at Stanford utilized the MERSCOPE® Platform to reveal how aging alters the function, morphology, and mRNA distribution of microglia.
Read the full pre-print: t.co/RmW36N6zni
#SpatialBiology #MERSCOPE #MERFISH
Spatial Spotlight #7
March is #NationalKidneyMonth, so we’re spotlighting this #MERSCOPE data image of an FFPE human kidney cortex, showing glomeruli filtering units and epithelial cells (tubule). Transcripts from a 140-gene panel are displayed.
📷: Dr. Christoph Kuppe, RWTH
We welcome @scope-umasschan.bsky.social as a Vizgen Certified Service Provider! 🎉
As a long-time collaborator & early adopter of #MERFISH, SCOPE now provides full-service spatial genomics solutions to accelerate biomedical research using #MERSCOPE Ultra™.
Learn more: vizgen.com/certified-se...
Katie recently published a preprint of this work with @ashleighlister.bsky.social and the Earlham Institute's #singlecell team, showcasing our first exploration of #SpatialTranscriptomics in plants using @vizgen.bsky.social
#MERSCOPE.
www.biorxiv.org/content/10.1...
🌟 Groundbreaking research maps unique gene expression in human liver using #MERSCOPE and #MERFISH, unveiling key insights into liver function and early steatosis. This spatial atlas sets a new standard for understanding liver health and disease
#MERFISH #MERSCOPE
www.biorxiv.org/content/10.1...
We also released the ovrl.py tool to identify areas of cell overlaps in imaging-based spatial transcriptomic data (e.g. #Xenium, #MERSCOPE, #cosMX).
GitHub: github.com/HiDiHlabs/ov...
Welcome Portrai Inc, our first Certified Service Provider in APAC! 🌏
Portrai pioneers large-scale spatial transcriptomics and now brings #MERSCOPE Ultra™ expertise to researchers—delivering high-resolution, high-throughput spatial insights at scale.
🔗 vizgen.com/certified-se...
ICYMI, our first preprint of 2025 is out, showcasing our first exploration of #SpatialTranscriptomics in plants using @vizgen.bsky.social #MERSCOPE.
A great collab with @katielong.bsky.social and @cristobaluauy.bsky.social at JIC, and Ashleigh Lister and the #SingleCell team at Earlham Institute.
@vizgen.bsky.social #MERSCOPE
Everything #spatialomics - A hub for researchers, clinicians, companies, journals, and institutions exploring spatial omics technologies.
Leave a comment, if you’d like to join 🧬🙂
#SpatialOmics #Visium #Xenium #MERSCOPE #MultiplexIF #MIBI #OmicsResearch #Biotech #Innovation
go.bsky.app/zcDshW
#Sainsc is a cell-segmentation-free tool to create cell-type maps.
Why segmentation-free? Cell segmentation is hard, and if not done well it can ruin expression profiles, even miss cells.
Sainsc is fast! Get first insights in <5 min for #Xenium, #MERSCOPE, and <1 hr for #STomics, #Stereo-seq.
Benchmarking Imaging-based #SpatialTranscriptomics on FFPE #TissueMicroArray
7 tumors + 16 normal tissues
#CosMx 1 panel
#Xenium 3 panels
#MERSCOPE 2 panels
>94 genes overlap
"CosMx transcript counts may be slightly inflated by false discoveries"🤕
bioRxiv 2023
www.biorxiv.org/content/10.1...
Benchmarking 6 Imaging-based #SpatialTranscriptomics methods
#MolecularCartography
#Xenium
#MERSCOPE
#MERFISH
#EELFISH
#STARmapPLUS
🐭🧠
Mutually exclusive co-expression rate/MECR
Who wins👑?
#CosMx Not even in short list😔
#bioRxiv 2024
www.biorxiv.org/content/10.1...
