#SpatialTranscriptomics
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genesndiseases.bsky.social
How do #NeuralStemCells shape #microglial behavior?

This study reveals that CCN1 regulates microglial distribution and activation through region-specific CSF1 and IL2 signaling during #BrainDevelopment. #SpatialTranscriptomics

#GenesAndDiseases: doi.org/10.1016/j.ge...
Ccn 1 plays as a “balance-keeper” for region-specific NSCs-microglia interaction.
November 2, 2026 at 6:29 AM
nonchev.bsky.social
Read our perspective: auroraomics.org/news/virtual...

#SpatialTranscriptomics #DeepSpotM #ComputationalBiology #DigitalPathology #AIforScience
Virtual spatial transcriptomics goes global | Aurora
Researchers at institutions across every inhabited continent have now been granted access to DeepSpot-M or the TCGA Virtual Spatial Transcriptomics Atlas.
auroraomics.org
November 2, 2026 at 8:12 PM
medicalsciences.bsky.social
🧬 Immune responses depend on tissue context, not just cell identity. This review explores how spatial organisation shapes inflammation and therapeutic outcomes. 🔬

👨‍🔬 Caio Santos Bonilha | University of Glasgow, UK

🔗 www.mdpi.com/2076-3271/14...

#Immunology #Inflammation #SpatialTranscriptomics
October 28, 2026 at 6:35 AM
genesndiseases.bsky.social
Can tumour geography predict cancer progression?
#SpatialTranscriptomics identified #ProstateCancer progression-linked genes, including SLC4A4 and H2AFJ, as potential #biomarkers for disease advancement and risk assessment.
#OpenAccess in #GenesAndDiseases: doi.org/10.1016/j.ge...
October 19, 2026 at 3:07 PM
nonchev.bsky.social
Learn more: lnkd.in/emCEijSd
Access Aurora Direct: www.auroraomics.org/log-in

#BreastCancerAwarenessMonth #BreastCancerResearch #SpatialTranscriptomics
#DigitalPathology
LinkedIn
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lnkd.in
October 20, 2026 at 6:51 AM
labspagnoli.bsky.social
🚨 Updated pre-print on @biorxiv-devbio.bsky.social

doi.org/10.64898/202...

#PancreasDevelopment #SpatialTranscriptomics #multilineage-organoids
doi.org
October 13, 2026 at 5:43 PM
ajcrussell.bsky.social
🔬 Postdoc: Spatial Lineage Tracing and Single-Cell Multiomics
Closes 25th Oct
fa-evzn-saasfaukgovprod1.fa.ocs.oraclecloud.com/hcmUI/Candid...

#PostdocJobs #SpatialTranscriptomics #SingleCell #LineageTracing
MRC Postdoctoral Research Scientist
Salary: £42,694 plus London allowance £5,560 per annum* | Fixed term 3 years | Full time | Closing date 25 October
fa-evzn-saasfaukgovprod1.fa.ocs.oraclecloud.com
October 13, 2026 at 3:15 PM
gurbanguly.bsky.social
🧬 SCAPeSCLC v1.4.0 | New Update
Added 126 #EpiFactors associated genes with ROI- and patient-level expression data, functional annotations, and gene-mapping quality control.
zenodo.org/records/2328...
#SCAPeSCLC #Epigenetics #SpatialTranscriptomics
zenodo.org
October 11, 2026 at 2:01 PM
earlhaminst.bsky.social
A new preprint introduces two standardized, end-to-end pipelines for single-cell RNA-seq and imaging-based #spatialtranscriptomics analysis.

EISCA supports droplet- and plate-based scRNA-seq, while EISTA is tailored for high-resolution spatial platforms.

#SingleCell #RNAseq
Preprint: EISCA and EISTA: Full-Spectrum Pipelines for Single-Cell and Spatial Transcriptomics Analysis
Scientists at Earlham Institute, John Innes Centre, University of Freiburgh, and University Medical Center Rotterdam present EISCA and EISTA, two standardized, end-to-end pipelines for single-cell RNA- seq and imaging-based spatial transcriptomics analysis.
okt.to
October 6, 2026 at 1:00 PM
mspcf.bsky.social
(2/2) Proud to present our new #SpatialOmics platform w/ Aina Bonet & highlight our advances in MS-based #SpatialProteomics (Poster 1 - Session 2). Looking forward to future collaborations!

#MALDIImaging
#DeepVisualProteomics
#SpatialTranscriptomics
#IRBBarcelonaResearchTechnologies
#ESSB
October 5, 2026 at 3:36 PM
nonchev.bsky.social
#BioTechX #SpatialTranscriptomics #DigitalPathology
October 4, 2026 at 8:59 AM
nonchev.bsky.social
🔗 Read the perspective: auroraomics.org/news/the-une... #SpatialTranscriptomics #SpatialBiology #DigitalPathology #ComputationalPathology
The unequal geography of spatial transcriptomics | Aurora
Fewer than 1% of the spatial transcriptomics papers we analysed had a first author in a low- or lower-middle-income economy.
auroraomics.org
October 2, 2026 at 3:36 PM
mapjournals.bsky.social
#Targetome
Spatial-seq 2.0 maps how Panax notoginseng versus ginseng saponins differently protect brain regions after acute ischemic stroke.
Details: https://www.maxapress.com/article/doi/10.48130/targetome-0026-0038
#Panax #Stroke #SpatialTranscriptomics #Neuroprotection
October 2, 2026 at 10:22 AM
biorxiv-bioinfo.bsky.social
SFUMATO: Bayesian probabilistic clustering for uncertainty-aware spatialtranscriptomics analysis and mapping https://www.biorxiv.org/content/10.64898/2026.09.25.754409v1
October 1, 2026 at 5:46 PM
biorxivpreprint.bsky.social
SFUMATO: Bayesian probabilistic clustering for uncertainty-aware spatialtranscriptomics analysis and mapping https://www.biorxiv.org/content/10.64898/2026.09.25.754409v1
October 1, 2026 at 5:46 PM
drmagalhaes.bsky.social
Using spatial transcriptomics, we characterized the molecular and microenvironmental changes associated with the progression of oral epithelial dysplasia (OED) to oral squamous cell carcinoma (OSCC).
#SpatialTranscriptomics #Cancer #OralPathology #CancerResearch aacrjournals.org/mcr/article-...
Spatial transcriptomic analysis of progressing oral epithelial dysplasia reveals unique differentially expressed genes and microenvironmental changes.
Abstract. Oral squamous cell carcinoma (OSCC) often arises from oral epithelial dysplasia (OED); however, the gene expression changes during OED progression and its microenvironment are not fully unde...
aacrjournals.org
October 1, 2026 at 2:40 AM
earlhaminst.bsky.social
📃 In a new preprint, scientists introduce two standardized, end-to-end pipelines for single-cell RNA-seq and imaging-based #spatialtranscriptomics analysis.

EISCA supports droplet- and plate-based scRNA-seq, while EISTA is tailored for high-resolution spatial platforms.

#SingleCell #RNAseq
September 30, 2026 at 9:00 AM
scilifelab.se
For his “ground-breaking contributions to #MolecularBiotechnology and #genomics, in particular the development of #SpatialTranscriptomics”, Joakim Lundeberg (SciLifeLab/KTH) is awarded the @scienceacademyswe.bsky.social Gold Medal 2026! 🧪

More ↓
www.iva.se/en/published...
Joakim Lundeberg close to the camera with blurry office environment and lab space with yellow walls in the background.
September 28, 2026 at 12:28 PM
imm.ox.ac.uk
#WIMMReads

🧪 Can AI turn routine pathology images into molecular information?

A new review from Kexin Xu, Hashem Koohy and Agne Antanaviciute explores advances in predicting spatial gene expression directly from tissue images.

#SpatialTranscriptomics #DigitalPathology #MRCWIMM #AcademicSky
Predicting spatial transcriptomics from histology images: Progress, challenges, and directions
Spatial transcriptomics (ST) maps gene expression within intact tissues, but its cost and technical complexity limit broad adoption. A growing body of deep-learning methods now seeks to infer ST direc...
www.sciexplor.com
September 24, 2026 at 9:59 AM
exo-beyondthecell.bsky.social
New review in EXO - Beyond the Cell!
Title: Predicting spatial transcriptomics from histology images: Progress, challenges, and directions
Explore AI-powered virtual molecular profiling from H&E slides:
sciexplor.com/exo/articles...
#SpatialTranscriptomics #DigitalPathology #AI
September 24, 2026 at 2:29 AM
lingting-shi.bsky.social
Shoutout to co-first authors Ajna Uzuni and Ximi Wang, and to Michael Pressler
@michaelppressler.bsky.social
. Thanks also to the McFaline-Figueroa Lab
@jlmcfalinefigueroa.bsky.social
for their support. Check out our paper!
#GVHD #SingleCell #TCR #SpatialTranscriptomics #Immunology
September 17, 2026 at 6:15 PM
gpbees.bsky.social
🧵 How can we reconstruct cellular spatial organization when spatial transcriptomics lacks single-cell resolution?

A new #GPB study introduces SPCC, a deep-learning framework integrating #scRNAseq and #SpatialTranscriptomics to infer spatial cell–cell interactions. 1/6
September 17, 2026 at 9:14 AM
cancers-mdpi.bsky.social
🧬Spatial #Transcriptomics in #LungCancer and Pulmonary Diseases: A Comprehensive Review

🧑‍🔬by Da Hyun Kang, Yoonjoo Kim et al. from Chungnam National University

📊Cited 19 times!

Read it here🔗 www.mdpi.com/2072-6694/17...

#SpatialTranscriptomics #PulmonaryDisease #TumorMicroenvironment
Figure 4. Spatial transcriptomic signatures across pulmonary diseases: cellular niches and molecular pathways.
September 17, 2026 at 10:17 AM
onesinglecell.bsky.social
Our paper is out in Nature Methods! 🧑‍💻 There are 50+ methods for spatially-aware clustering on spatial transcriptomics data. How should we use them? A thread 🧵 (1/7)
📄 doi.org/10.1038/s415...
#spatialtranscriptomics #bioinformatics #computationalbiology
Beyond benchmarking: an expert-guided consensus approach to spatially aware clustering - Nature Methods
Benchmarking spatially aware clustering is challenging. SACCELERATOR is an open-source, extensible framework that formalizes expert-guided spatial clustering analysis.
doi.org
September 13, 2026 at 10:11 AM