#spatialtranscriptomics risultati di ricerca
Standardized metrics for assessment and reproducibility of imaging-based spatial transcriptomics datasets.#SpatialTranscriptomics #StandardizedMetrics #DataRepository #BestPractices #OpenSourceSoftware #Genomics #Bioinformatics @NatureBiotech nature.com/articles/s4158…
#SpatialTranscriptomics Visium @10xGenomics Human Left Atrial Appendage (n=2 donors) & Pulmonary Vein (n=8 donors) Spatial location of #AtrialFibrillation risk genes PITX2 SHOX2 HCN4 @CVpathol 2025 sciencedirect.com/science/articl…
Comparative analysis of commercial Imaging-based #SpatialTranscriptomics methods Xenium CosMx 1k MERSCOPE Tissue Microarray 17 tumors + 16 normal tissues Transcript count Corr. with reference bulk TCGA GTEx RNAseq or scRNAseq Segmentation (Precision Recall F1 score) Accuracy:…
#SpatialTranscriptomics STcompare github.com/JEFworks-Lab/S… Test your gene of interest if it is differentially spatially patterned (r, p, s)🤠 Spatial correlation Spatial fold change Control for spatial autocorrelation Comparisons will be straightforward with Alignment (STalign)…
Systematic comparisons among 4 subcellular-resolution #SpatialTranscriptomics methods Stereo-seq v1.3 Visium HD FFPE CosMx 6k Xenium 5k Human Tumors Ground truth CODEX, +scRNAseq Gene detection sensitivity (CosMx performance...🙁) (Spatial) false positives Transcript-protein…
#SpatialTranscriptomics Visium @10xGenomics Tuberous sclerosis complex-associated Renal Angiomyolipoma (n=1) vs sporadic AML (n=1) vs Renal Cell Carcinoma (n=1) Melanocytic traits in AML MITF MLANA PMEL @RyutaWatanab999 @SciReports 2025 nature.com/articles/s4159…
Diabetic #T2D db/db 🐭 heart-coronary resistance microvessel multiomics FFPE-scRNAseq #SpatialTranscriptomics Visium @10xGenomics Proteomics Septal Coronary resistance microvessels (how to isolate?😮) Traits of Fatty acid β-oxidation & ketogenesis (Hmgcs2, Acot2) in diabetic…
Integrated #pathology annotation on the Xenium platform is now available! See for yourself how easy it is enhance your spatial insights by bridging pathology and #spatialtranscriptomics in a new tutorial. Check it out now: bit.ly/43l7fsX #AMPath2025
Comparing single-cell #SpatialTranscriptomics methods on FFPE human tumor #TissueMicroArray CosMx 1k vs MERFISH 500 vs Xenium-UM/-MM 339 93 common genes lung adenocarcinoma pleural mesothelioma Corr. Bulk RNAseq, GeoMx "better F1-scores with Xenium-MM (median, > 75%) than…
Congrats to Dr. Savannah LaBuda on being one of the winners of the Young Investigator Poster Award at #AMPath2025! 🎉👏 #SpatialTranscriptomics #GYNpath #MolPath @AMPath @pvhernandezmd @whosainastro
"We all love the pretty pictures we get from #SpatialTranscriptomics but the real value lies in the ability to precisely determine the cellular composition & cell-cell relationships - not possible with bulk RNA or even scRNA approaches" 💯% well said @bayraktar_lab! 👏 #FoG2025
STORIES SpatioTemporal Omics eneRgIES Learning Waddington epigenetic (+regulon) landscape from multi-time-point Stereo-seq #SpatialTranscriptomics Potential-based Fused Gromov-Wasserstein #OptimalTransport Linear▶️gene expression error Quadratic▶️spatial consistency @gjhuizing…
CoCo-ST detects global and local biological structures in spatial transcriptomics datasets. #SpatialTranscriptomics #VarianceIdentification @NatureCellBio nature.com/articles/s4155…
GOD IS GOOD! Today, I passed my #PhD Dissertation Defense!!! 🎉 Thank you to everyone who believed in me. Thank you to all my mentors, friends, and family. 🥰 I would not be where I am today without all of you. 🙏❤️ @SBS_UNTHSC #SpatialTranscriptomics #DoubleDocs @A_P_S_A
Are you curious to know how using #SpatialTranscriptomics we have discovered a new organ in the 21th century? For this, an oral-gut neural physiological circuit and more you can visit my poster P2.21.23 at #ECI2024 poster session :) @y_efis @EFIS_Immunology
Excellent talk from @Sandy_Figiel in @Uroweb #EAUlab session at #EAU25 presenting our cool data (I'm bias!) on #SpatialTranscriptomics & #ClonalAnalysis to detect unique features of metastasing clones in #ProstateCancer. @OxPCaBiol #SPACE_Study #3DLightsheet
Diabetic #T2D db/db 🐭 heart-coronary resistance microvessel multiomics FFPE-scRNAseq #SpatialTranscriptomics Visium @10xGenomics Proteomics Septal Coronary resistance microvessels (how to isolate?😮) Traits of Fatty acid β-oxidation & ketogenesis (Hmgcs2, Acot2) in diabetic…
#SpatialTranscriptomics STcompare github.com/JEFworks-Lab/S… Test your gene of interest if it is differentially spatially patterned (r, p, s)🤠 Spatial correlation Spatial fold change Control for spatial autocorrelation Comparisons will be straightforward with Alignment (STalign)…
#SpatialTranscriptomics Visium @10xGenomics Human Left Atrial Appendage (n=2 donors) & Pulmonary Vein (n=8 donors) Spatial location of #AtrialFibrillation risk genes PITX2 SHOX2 HCN4 @CVpathol 2025 sciencedirect.com/science/articl…
🧬 IICD Monthly Research Roundup – November 2025 #IICDResearch #CancerGenomics #SpatialTranscriptomics #CancerResearch
New publication by our student, Odmaa Bayaraa: 'Multi-region #SpatialTranscriptomics reveals region specific differences in response to amyloid beta (Aβ) plaque induced changes in #Alzheimers disease (#AD)' So proud of this work & Odmaa! Check it out 🧬🧠 pubmed.ncbi.nlm.nih.gov/41318546/
Accurately deciphering the spatial gene expression characteristics of individual cells represents a core demand in spatial transcriptomics research. #SpatialTranscriptomics #CellSegmentationTech #SpatialOmics #SingleCellSpatialExpression
Unlocking the true power of precision therapeutics: Spatial RNA medicine maps gene expression within tissues to target treatments exactly where they're needed. 🧬🔬 Curious how this changes drug design? Read more: news-medical.net/life-sciences/… #PrecisionMedicine #SpatialTranscriptomics
🚨New #SpatialTranscriptomics #Bioinformatics data resource out in @naturemethods. SODB, a platform with >2,400 manually curated spatial experiments from >25 spatial omics technologies & interactive analytical modules. This🧵will walk you through all the features of SODB [1/33]
![simocristea's tweet image. 🚨New #SpatialTranscriptomics #Bioinformatics data resource out in @naturemethods.
SODB, a platform with >2,400 manually curated spatial experiments from >25 spatial omics technologies & interactive analytical modules.
This🧵will walk you through all the features of SODB [1/33]](https://pbs.twimg.com/media/FpqfK6HaUAAQZAo.jpg)
Comparing single-cell #SpatialTranscriptomics methods on FFPE human tumor #TissueMicroArray CosMx 1k vs MERFISH 500 vs Xenium-UM/-MM 339 93 common genes lung adenocarcinoma pleural mesothelioma Corr. Bulk RNAseq, GeoMx "better F1-scores with Xenium-MM (median, > 75%) than…
Standardized metrics for assessment and reproducibility of imaging-based spatial transcriptomics datasets.#SpatialTranscriptomics #StandardizedMetrics #DataRepository #BestPractices #OpenSourceSoftware #Genomics #Bioinformatics @NatureBiotech nature.com/articles/s4158…
Ruochen Dong, @linheng_li lab, gave an outstanding presentation on using #SpatialTranscriptomics to interrogate HSC-niche interaction in the mouse fetal liver at #ISSCR2023. He also received merit and travel awards. Congratulations! @ISSCR
Systematic comparisons among 4 subcellular-resolution #SpatialTranscriptomics methods Stereo-seq v1.3 Visium HD FFPE CosMx 6k Xenium 5k Human Tumors Ground truth CODEX, +scRNAseq Gene detection sensitivity (CosMx performance...🙁) (Spatial) false positives Transcript-protein…
CoCo-ST detects global and local biological structures in spatial transcriptomics datasets. #SpatialTranscriptomics #VarianceIdentification @NatureCellBio nature.com/articles/s4155…
#SpatialTranscriptomics Visium @10xGenomics Human Left Atrial Appendage (n=2 donors) & Pulmonary Vein (n=8 donors) Spatial location of #AtrialFibrillation risk genes PITX2 SHOX2 HCN4 @CVpathol 2025 sciencedirect.com/science/articl…
Comparative analysis of commercial Imaging-based #SpatialTranscriptomics methods Xenium CosMx 1k MERSCOPE Tissue Microarray 17 tumors + 16 normal tissues Transcript count Corr. with reference bulk TCGA GTEx RNAseq or scRNAseq Segmentation (Precision Recall F1 score) Accuracy:…
We’re all wondering what the future of #spatialtranscriptomics (ST) has in store. Well, I think the near future will look a lot like the new 6000-plex dataset reviewed here (link to the original source at the end of this post). SAMPLE An entire 100 mm² intact 5 µm FFPE section…
Excited to share our #SingleCell and #SpatialTranscriptomics analysis of #ExerciseTraining remodeling of #WhiteAdiposeTissue through innervation, vascularization, and #ExtracellularMatrix in mouse and human with #LaurieGoodyear #JanWillemMiddelbeek @PasqualeNigro9 @MVamvini…
#WernerSyndrome hiPSC-derived engineered vessel #SpatialTranscriptomics #Visium @10xGenomics + #Metabolomics▶️ #BranchedChainKetoAcid⬇️ #MonohydroxyFattyAcid⬆️ in Werner vessels with traits of #PrematureAging Aligned #SmoothMuscleCell in Collagen hydrogel➡️ Roll-up around φ…
1st single-cell #SpatialTranscriptomics map of human coronary #Atherosclerosis published in peer-reviewed format🤠 CosMx 1k + GeoMx @brukerspatial Immune cell-focused analysis Use CosMx data to deconvolve GeoMx cell composition...😆 @EmboMolMed 2025 embopress.org/doi/full/10.10…
We are very very VERY excited to be running #cosmx #singlecell #spatialtranscriptomics experiments in @UofGlasgow @UofGCancerSci @UofGMVLS Well done to the @LabSpatialNBJ team @nanostringtech
Excellent talk from @Sandy_Figiel in @Uroweb #EAUlab session at #EAU25 presenting our cool data (I'm bias!) on #SpatialTranscriptomics & #ClonalAnalysis to detect unique features of metastasing clones in #ProstateCancer. @OxPCaBiol #SPACE_Study #3DLightsheet
STORIES SpatioTemporal Omics eneRgIES Learning Waddington epigenetic (+regulon) landscape from multi-time-point Stereo-seq #SpatialTranscriptomics Potential-based Fused Gromov-Wasserstein #OptimalTransport Linear▶️gene expression error Quadratic▶️spatial consistency @gjhuizing…
🔬 A new computational approach pioneered by researchers at the @broadinstitute eliminates time-intensive imaging, enabling high-resolution spatial mapping of gene expression in tissue. See how they're making #SpatialTranscriptomics easier for everyone: bit.ly/3G9Hrau
Integrated #pathology annotation on the Xenium platform is now available! See for yourself how easy it is enhance your spatial insights by bridging pathology and #spatialtranscriptomics in a new tutorial. Check it out now: bit.ly/43l7fsX #AMPath2025
#SpatialOmics #ImagingMassSpec #SpatialTranscriptomics MISTy Multiview Intercellular SpaTial modeling framework bioconductor.org/packages/relea… View/spatial scale-specific feature interactions Intraview - same location (intra-to-multicellulat) Juxtaview - immediate neighborhood…
#SpatialTranscriptomics STcompare github.com/JEFworks-Lab/S… Test your gene of interest if it is differentially spatially patterned (r, p, s)🤠 Spatial correlation Spatial fold change Control for spatial autocorrelation Comparisons will be straightforward with Alignment (STalign)…
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