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fabiantheis.bsky.social
Need to design your next Xenium/CosMx/Merfish experiment? Spapros, now out @naturemethods, allows for probe set selection for target spatial tx. Led by @KuemmerleLouis, it optimizes both cell type ID & within-cell type variation. nature.com/articles/s41592-024-02496-z github.com/theislab/spapros
November 20, 2024 at 7:50 AM
lozanzi.bsky.social
#LocationLocationLocation! Theis &co share @ Nature Methods @natureportfolio.bsky.social a probe set selection pipeline to identify cell types using spatial single cell omics! And it comes with its Python package (github.com/theislab/spa...) 😌💪 👉 doi.org/10.1038/s41592-024-02496-z
GitHub - theislab/spapros: Python package for Probe set selection for targeted spatial transcriptomics.
Python package for Probe set selection for targeted spatial transcriptomics. - theislab/spapros
github.com
November 20, 2024 at 12:30 PM
mauriceylee.bsky.social
search.app?link=https%3...
Probe set selection for targeted spatial transcriptomics - Nature Methods
Spapros is a probe set selection pipeline for targeted spatial transcriptomics that optimizes for both transcriptional and within-cell type variation.
search.app
November 20, 2024 at 12:55 AM
jungsukim77.bsky.social
[Pipeline for Targeted spatial transcriptomics]

"selecting the most informative, yet minimal, set of genes to profile"
Spapros to design a single-cell resolution in situ hybridization on tissues (SCRINSHOT)

Probe set selection for targeted spatial transcriptomics
www.nature.com/articles/s41...
Probe set selection for targeted spatial transcriptomics - Nature Methods
Spapros is a probe set selection pipeline for targeted spatial transcriptomics that optimizes for both transcriptional and within-cell type variation.
www.nature.com
November 19, 2024 at 1:13 AM
ckarampelias.bsky.social
Spapros tool for probe design in spatial biology applications is now published following preprint by @fabiantheis.bsky.social
🧬🖥️ www.nature.com/articles/s41...
Probe set selection for targeted spatial transcriptomics - Nature Methods
Spapros is a probe set selection pipeline for targeted spatial transcriptomics that optimizes for both transcriptional and within-cell type variation.
www.nature.com
November 18, 2024 at 8:09 PM
jalees.bsky.social
Probe set selection for targeted spatial transcriptomics
www.nature.com/articles/s41... and Github github.com/theislab/spa...
Probe set selection for targeted spatial transcriptomics - Nature Methods
Spapros is a probe set selection pipeline for targeted spatial transcriptomics that optimizes for both transcriptional and within-cell type variation.
www.nature.com
November 20, 2024 at 1:19 PM
r3fang.bsky.social
Targeted ST pre-selects 100s cell type marker genes. This can exaggerate diff between types while lacks continuity within types. Spapros - probe design pipeline - selects the minimal set of genes to recover both cell type identification and within-type variation.

www.nature.com/articles/s41...
Probe set selection for targeted spatial transcriptomics - Nature Methods
Spapros is a probe set selection pipeline for targeted spatial transcriptomics that optimizes for both transcriptional and within-cell type variation.
www.nature.com
November 25, 2024 at 2:48 PM
tatsuyanobori.bsky.social
Probe set selection for targeted spatial transcriptomics www.nature.com/articles/s41...
Probe set selection for targeted spatial transcriptomics - Nature Methods
Spapros is a probe set selection pipeline for targeted spatial transcriptomics that optimizes for both transcriptional and within-cell type variation.
www.nature.com
November 18, 2024 at 1:59 PM
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February 13, 2025 at 12:01 PM
pcnmartin.bsky.social
A tool to design spatial probe gene sets. Out of the Theis Lab

www.nature.com/articles/s41...
Probe set selection for targeted spatial transcriptomics - Nature Methods
Spapros is a probe set selection pipeline for targeted spatial transcriptomics that optimizes for both transcriptional and within-cell type variation.
www.nature.com
November 18, 2024 at 7:20 PM