#spatialtranscriptomics — Public Fediverse posts

📢 Call for Papers: Computational Spatial Omics - Multimodal Strategies for Systems Biology and Biomedical Discovery

⏳ Submission Deadline: 31 December 2026

🔗 Submit your work: https://spj.science.org/journal/csbj/si/computational-spatial-omics

#CallForPapers #SpatialOmics #SpatialTranscriptomics #SpatialProteomics #Metabolomics #Lipidomics #Multiomics #ComputationalBiology #SystemsBiology #Bioinformatics #AIinHealthcare #DigitalPathology #GraphNeuralNetworks #PrecisionMedicine

📢 Call for Papers: Computational Spatial Omics - Multimodal Strategies for Systems Biology and Biomedical Discovery

⏳ Submission Deadline: 31 December 2026

🔗 Submit your work: https://spj.science.org/journal/csbj/si/computational-spatial-omics

#CallForPapers #SpatialOmics #SpatialTranscriptomics #SpatialProteomics #Metabolomics #Lipidomics #Multiomics #ComputationalBiology #SystemsBiology #Bioinformatics #AIinHealthcare #DigitalPathology #GraphNeuralNetworks #PrecisionMedicine

🔬 Spatial Transcriptomics - Feb 2026

• CLIM-TIME maps 7 TME subtypes linked to T cell therapy response
• Kupffer cells promote immune evasion in liver metastases
• CD276 drives chemoresistance in pancreatic cancer
• T cell activation correlates with better survival in glioblastoma
• mFISH3D visualizes multiple mRNA types in intact mouse brains
• RNA-modifying proteins emerge as potential therapeutic targets

https://pir.sh/9XygJ0Xd3w

#SpatialTranscriptomics #CancerBiology #SingleCell #Biology

🔬 Spatial Transcriptomics - Feb 2026

• CLIM-TIME maps 7 TME subtypes linked to T cell therapy response
• Kupffer cells promote immune evasion in liver metastases
• CD276 drives chemoresistance in pancreatic cancer
• T cell activation correlates with better survival in glioblastoma
• mFISH3D visualizes multiple mRNA types in intact mouse brains
• RNA-modifying proteins emerge as potential therapeutic targets

https://pir.sh/9XygJ0Xd3w

#SpatialTranscriptomics #CancerBiology #SingleCell #Biology

🔬 Spatial Transcriptomics - Feb 2026

• CLIM-TIME maps 7 TME subtypes linked to T cell therapy response
• Kupffer cells promote immune evasion in liver metastases
• CD276 drives chemoresistance in pancreatic cancer
• T cell activation correlates with better survival in glioblastoma
• mFISH3D visualizes multiple mRNA types in intact mouse brains
• RNA-modifying proteins emerge as potential therapeutic targets

https://pir.sh/9XygJ0Xd3w

#SpatialTranscriptomics #CancerBiology #SingleCell #Biology

🔬 Spatial Transcriptomics - Feb 2026

• CLIM-TIME maps 7 TME subtypes linked to T cell therapy response
• Kupffer cells promote immune evasion in liver metastases
• CD276 drives chemoresistance in pancreatic cancer
• T cell activation correlates with better survival in glioblastoma
• mFISH3D visualizes multiple mRNA types in intact mouse brains
• RNA-modifying proteins emerge as potential therapeutic targets

https://pir.sh/9XygJ0Xd3w

#SpatialTranscriptomics #CancerBiology #SingleCell #Biology

🔬 Spatial Transcriptomics - Feb 2026

• CLIM-TIME maps 7 TME subtypes linked to T cell therapy response
• Kupffer cells promote immune evasion in liver metastases
• CD276 drives chemoresistance in pancreatic cancer
• T cell activation correlates with better survival in glioblastoma
• mFISH3D visualizes multiple mRNA types in intact mouse brains
• RNA-modifying proteins emerge as potential therapeutic targets

https://pir.sh/9XygJ0Xd3w

#SpatialTranscriptomics #CancerBiology #SingleCell #Biology

🧬 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

🧬 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

Is spatial transcriptomics data preprocessing giving you a headache? You're not alone! 🤯
Join our webinar designed for new researchers to simplify the complex world of image-based spatial omics. We'll walk through the practical workflow step-by-step, from initial cell segmentation to cleaning up your data.
Get the foundational skills you need. 📅 Sign up here: https://t1p.de/lqbg1

#Transcriptomics #SpatialTranscriptomics #Omics #DataScience #ResearchWebinar #GHGA #ELIXIR #deNBI

Is spatial transcriptomics data preprocessing giving you a headache? You're not alone! 🤯
Join our webinar designed for new researchers to simplify the complex world of image-based spatial omics. We'll walk through the practical workflow step-by-step, from initial cell segmentation to cleaning up your data.
Get the foundational skills you need. 📅 Sign up here: https://t1p.de/lqbg1

#Transcriptomics #SpatialTranscriptomics #Omics #DataScience #ResearchWebinar #GHGA #ELIXIR #deNBI

Is spatial transcriptomics data preprocessing giving you a headache? You're not alone! 🤯
Join our webinar designed for new researchers to simplify the complex world of image-based spatial omics. We'll walk through the practical workflow step-by-step, from initial cell segmentation to cleaning up your data.
Get the foundational skills you need. 📅 Sign up here: https://t1p.de/lqbg1

#Transcriptomics #SpatialTranscriptomics #Omics #DataScience #ResearchWebinar #GHGA #ELIXIR #deNBI

Is spatial transcriptomics data preprocessing giving you a headache? You're not alone! 🤯
Join our webinar designed for new researchers to simplify the complex world of image-based spatial omics. We'll walk through the practical workflow step-by-step, from initial cell segmentation to cleaning up your data.
Get the foundational skills you need. 📅 Sign up here: https://t1p.de/lqbg1

#Transcriptomics #SpatialTranscriptomics #Omics #DataScience #ResearchWebinar #GHGA #ELIXIR #deNBI

Is spatial transcriptomics data preprocessing giving you a headache? You're not alone! 🤯
Join our webinar designed for new researchers to simplify the complex world of image-based spatial omics. We'll walk through the practical workflow step-by-step, from initial cell segmentation to cleaning up your data.
Get the foundational skills you need. 📅 Sign up here: https://t1p.de/lqbg1

#Transcriptomics #SpatialTranscriptomics #Omics #DataScience #ResearchWebinar #GHGA #ELIXIR #deNBI

Want a sneak peek or to try it on your own data? Try EnrichMap https://enrichmap.readthedocs.io/en/latest/
#SpatialTranscriptomics #ComputationalBiology #EnrichMap #spatialomics

Want a sneak peek or to try it on your own data? Try EnrichMap https://enrichmap.readthedocs.io/en/latest/
#SpatialTranscriptomics #ComputationalBiology #EnrichMap #spatialomics

🧬🔬🧪 We are seeking a Scientist to push the limits of spatial transcriptomics in zebrafish! Come join us! #MolBio #SpatialTranscriptomics #DevelopmentalBiology #ScienceJobs 🧫🐟🔍 job-boards.greenhouse.io/chanzuckerbe...

Scientist, Spatial Molecular C...

#job alert: junior/mid-career PI opportunities in cancer research @ Oxford university: https://www.ludwig.ox.ac.uk/news/vacancies-assistant-or-associate-professor-level-cancer-researchers

Areas we're looking for:
#epigenetics #chromatin #epitranscriptomics #RNA #myeloidCells #spatialTranscriptomics

Please boost for visibility! @academicchatter #hiring

#job alert: junior/mid-career PI opportunities in cancer research @ Oxford university: https://www.ludwig.ox.ac.uk/news/vacancies-assistant-or-associate-professor-level-cancer-researchers

Areas we're looking for:
#epigenetics #chromatin #epitranscriptomics #RNA #myeloidCells #spatialTranscriptomics

Please boost for visibility! @academicchatter #hiring

#job alert: junior/mid-career PI opportunities in cancer research @ Oxford university: https://www.ludwig.ox.ac.uk/news/vacancies-assistant-or-associate-professor-level-cancer-researchers

Areas we're looking for:
#epigenetics #chromatin #epitranscriptomics #RNA #myeloidCells #spatialTranscriptomics

Please boost for visibility! @academicchatter #hiring

#job alert: junior/mid-career PI opportunities in cancer research @ Oxford university: https://www.ludwig.ox.ac.uk/news/vacancies-assistant-or-associate-professor-level-cancer-researchers

Areas we're looking for:
#epigenetics #chromatin #epitranscriptomics #RNA #myeloidCells #spatialTranscriptomics

Please boost for visibility! @academicchatter #hiring

#job alert: junior/mid-career PI opportunities in cancer research @ Oxford university: https://www.ludwig.ox.ac.uk/news/vacancies-assistant-or-associate-professor-level-cancer-researchers

Areas we're looking for:
#epigenetics #chromatin #epitranscriptomics #RNA #myeloidCells #spatialTranscriptomics

Please boost for visibility! @academicchatter #hiring

Tools (#preprint from 10x Genomics).
'Here, we introduce Visium HD Spatial Gene Expression (“Visium HD”) and demonstrate its use as a discovery platform for profiling CRC in multiple patients using FFPE tissue blocks. Visium HD slides provide a dramatically increased oligonucleotide barcode density over the Visium v2 slides (11,000,000 continuous features in a 6.5 mm Visium HD capture area, compared to 5,000 features with gaps between them in a 6.5 mm Visium v2 capture area). The single cell scale resolution of Visium HD allowed us to map distinct populations of immune cells, specifically macrophages and T cells, and evaluate differential gene expression at the tumor boundary to explore the potential contribution of these immune cell populations in the TME.'
#Immunology #Immunotherapy #SpatialTranscriptomics
https://www.biorxiv.org/content/10.1101/2024.06.04.597233v1

Some really great talks and discussions today on advances in virus-livestock omics at the #Turing institute, who kindly supported the event. Talks include those by Ge Wu and Marie Di Placido (pictures) from the #Pirbright Institute.

Great to have input from the #BBSRC and #SFTC #Harttree Centre too.

Looking forward to new adventures in this area...

#livestock #virus #genomics #antibody #genome #mutation #pangenome #omics #transcriptomics #spatialtranscriptomics #fmdv​

Last chance to register for our meeting "Advancing virus-livestock omics" on Thurs 28th Sept at the Alan Turing Institute.

Registration closes end of Mon 25th.

See https://www.turing.ac.uk/events/advancing-virus-livestock-omics

Register here: https://t.ly/wYA7d

Schedule below

Zoom stream possible for those from further afield

#livestock #virus #genomics #antibody #genome #mutation #pangenome #omics #transcriptomics #spatialtranscriptomics #fmdv

Marius Lange #BC2basel: increasing complexity of #SingleCell data leads to problems of temporal, spatial and spatio-temporal mapping. The solution proposed is optimal transport applications, implemented in Moscot:
https://moscot.readthedocs.io/en/latest/
https://www.biorxiv.org/content/10.1101/2023.05.11.540374v2 #SpatialTranscriptomics #scRNAseq

Excellent conclusions of Jean Fan #BC2basel on #machinelearning applied to #scRNAseq #SpatialTranscriptomics

Impressive work by Jean Fan's lab #BC2basel: aligning different spatial transcriptomics results, not only from different experiments but different protocols, e.g. MERFISH - Visium. Combining with #scRNAseq clustering and her lab's spot deconvolution allows to compare directly gene expression between these different experiments, https://www.biorxiv.org/content/10.1101/2023.04.11.534630v2.abstract #SpatialTranscriptomics

Computational Scientist

Icahn School of Medicine at Mount Sinai

Come join our team as a #computationalScientist: #multiOmics modeling of #myeloma, including #singleCell, #spatialTranscriptomics and #flowCytometry

See the full job description on jobRxiv: https://jobrxiv.org/job/icahn-school-of-medicine-at-mount-sinai-27778-computational-scientist-5/?feed_id=47998

#ScienceJobs #hi...
https://jobrxiv.org/job/icahn-school-of-medicine-at-mount-sinai-27778-computational-scientist-5/?feed_id=47998

Postdoctoral Researcher

Icahn School of Medicine at Mount Sinai

Come join our team as a #bioinformatics postdoc: #multiOmics modeling of #myeloma, including #singleCell, #spatialTranscriptomics and #flowCytometry

See the full job description on jobRxiv: https://jobrxiv.org/job/icahn-school-of-medicine-at-mount-sinai-27778-postdoctoral-researcher-4/?feed_id=47893

#ScienceJobs #hi...
https://jobrxiv.org/job/icahn-school-of-medicine-at-mount-sinai-27778-postdoctoral-researcher-4/?feed_id=47893

Computational Scientist

Icahn School of Medicine at Mount Sinai

Come join our team as a #computationalScientist: #multiOmics modeling of #myeloma, including #singleCell, #spatialTranscriptomics and #flowCytometry

See the full job description on jobRxiv: https://jobrxiv.org/job/icahn-school-of-medicine-at-mount-sinai-27778-computational-scientist-5/?feed_id=45913

#ScienceJobs #hi...
https://jobrxiv.org/job/icahn-school-of-medicine-at-mount-sinai-27778-computational-scientist-5/?feed_id=45913

Cell type-specific inference of differential expression in spatial transcriptomics tinyurl.com/2djnaafv

Link to package: github.com/dmcable/spacexr #spatialtranscriptomics #bioinformatics

The latest issue of @genomeresearch is live. Follow the link to new research on #spatialtranscriptomics, mosaic loss of #ChromosomeY in aging and disease, and more! http://ow.ly/9UBf50LssyP

The latest issue of @genomeresearch is live. Follow the link to new research on #spatialtranscriptomics, mosaic loss of #ChromosomeY in aging and disease, and more! http://ow.ly/9UBf50LssyP

The latest issue of @genomeresearch is live. Follow the link to new research on #spatialtranscriptomics, mosaic loss of #ChromosomeY in aging and disease, and more! http://ow.ly/9UBf50LssyP

The latest issue of @genomeresearch is live. Follow the link to new research on #spatialtranscriptomics, mosaic loss of #ChromosomeY in aging and disease, and more! http://ow.ly/9UBf50LssyP

The latest issue of @genomeresearch is live. Follow the link to new research on #spatialtranscriptomics, mosaic loss of #ChromosomeY in aging and disease, and more! http://ow.ly/9UBf50LssyP