Tancredi M Pentimalli

Olya Bakina - Blog Current list of FDA approved Gene Therapies*

I was once in search of a list of all the FDA-approved gene therapies to date, and after not finding a list quite good enough, this little compilation came out of my notes. Hopefully, someone finds it as useful as I did!

www.olyabakina.com/blog

Combining spatial transcriptomics and ECM imaging in 3D for mapping cellular interactions in the tumor microenvironment Pentimalli et al. extend imaging-based spatial transcriptomics to 3D and combine it with ECM profiling. The multimodal analysis of cellular neighborhoods in a clinical lung adenocarcinoma sample revea...

www.cell.com/cell-systems...

CosMx data by @brukerspatial.bsky.social
Second harmonics by Andrew Woehler
Immunofluorescence by @sonjafritzsche.bsky.social and @josenimo.bsky.social in Fabian Coscia lab
STIM for 3D alignment by @preibischs.bsky.social @nukappa.bsky.social et al (coming very soon!)

Our 3D study of the tumor microenvironment is finally out!

Play around with the data yourself at lung-3d-browser.mdc-berlin.de (Kudos to @danilexn.bsky.social👏 )

Many thanks to Nikolaus Rajewsky lab at @mdc-bimsb.bsky.social and everyone involved, it takes a village to raise a multimodal paper!

7/ Many thanks to whole @NR lab, our supporting institutions @mdc-bimsb.bsky.social @mdc-berlin.bsky.social Charité – Universitätsmedizin Berlin, Berlin School of Integrative Oncology and Joachim Herz Stiftung for the support!!

6/ That’s a wrap! The potential of ST to revolutionize clinical practice is huge, but we still have work to do to unlock its full impact. Stay tuned as the field evolves! 🚀

5/ As large-scale clinical studies are urgently needed to link spatial biomarkers with patient outcomes, we discuss key considerations for the design of clinical ST projects from sample preservation and method choice to panel design and power analysis.

4/ Several challenges exist to their swift clincal translation: What is the ‘best’ ST method? How do we turn complex molecular data into meaningful insights for patient care? How do we integrate in clinical routines?

3/ In the clinic, spatial biomarkers and patient-specific molecular mechanisms identified by ST hold great potential to inform patient care and help the discovery of novel drug targets, as showcased in early preclinical studies

2/ With high-resolution ST we can study tissue organization in 2D and 3D virtual tissue blocks, analyzing the organization of cells in multicellular niches and identifying which receptor–ligand interactions orchestrate their function in situ.

1/ High-resolution ST omics work as molecular microscopes, digitalizing gene expression and tissue morphology at subcellular resolution. This enables the interactive exploration of millions of transcripts and their comparison with routine histology and pathologist annotations.

Check our review on the 'Challenges & Opportunities in Clinical Translation of High-Resolution Spatial Transcriptomics (ST)'!!
annualreviews.org/content/jour...

#Spatialtranscriptomics is revolutionizing gene expression profiling at subcellular resolution!

🔬These 'molecular microscopes' can unlock disease mechanisms & guide therapies...but how to bring ST to the clinic?

Our thoughts w @N_Rajewsky & @nukappa.bsky.social out @annualreviews.bsky.social

🧵👇

7/ Many thanks to whole @NR lab, our supporting institutions @mdc-bimsb.bsky.social @mdc-berlin.bsky.social Charité – Universitätsmedizin Berlin, Berlin School of Integrative Oncology and Joachim Herz Stiftung for the support!!

6/ That’s a wrap! The potential of ST to revolutionize clinical practice is huge, but we still have work to do to unlock its full impact. Stay tuned as the field evolves! 🚀

5/ As large-scale clinical studies are urgently needed to link spatial biomarkers with patient outcomes, we discuss key considerations for the design of clinical ST projects from sample preservation and method choice to panel design and power analysis.

4/ Several challenges exist to their swift clincal translation: What is the ‘best’ ST method? How do we turn complex molecular data into meaningful insights for patient care? How do we integrate in clinical routines?

3/ In the clinic, spatial biomarkers and patient-specific molecular mechanisms identified by ST hold great potential to inform patient care and help the discovery of novel drug targets, as showcased in early preclinical studies

2/ With high-resolution ST we can study tissue organization in 2D and 3D virtual tissue blocks, analyzing the organization of cells in multicellular niches and identifying which receptor–ligand interactions orchestrate their function in situ.

1/ High-resolution ST omics work as molecular microscopes, digitalizing gene expression and tissue morphology at subcellular resolution. This enables the interactive exploration of millions of transcripts and their comparison with routine histology and pathologist annotations.

Check our review on the 'Challenges & Opportunities in Clinical Translation of High-Resolution Spatial Transcriptomics (ST)'!!
annualreviews.org/content/jour...