#spatialtranscriptomics 搜索结果
🧬 14 spatial clustering methods benchmarked across ~600 #SpatialTranscriptomics datasets 💻 Covering 10 technologies & 8 organs 📊 Reveals how data traits & spatial patterns shape accuracy ⚙️ Recommends optimal preprocessing & method selection 🔗 doi.org/10.1002/imt2.7……
CoCo-ST detects global and local biological structures in spatial transcriptomics datasets. #SpatialTranscriptomics #VarianceIdentification @NatureCellBio nature.com/articles/s4155…
Accurate cell segmentation is integral to #spatialtranscriptomics—that's why we never stop improving ours. Large cells? Tissues with dense nuclei? We’ve got you covered. See how you can segment cells more accurately than ever before: bit.ly/4m1nEcz
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…
How do we uncover cell-cell interactions from #SpatialTranscriptomics data? Excited to share Niche-DE (doi.org/10.1186/s13059…). Niche-DE asks how does a cell’s transcriptome depend on its spatial neighbors, by identifying Niche-Differentially Expressed genes. 1/9
#SpatialTranscriptomics Visium #CerebralMalaria 🐭+P.berghei ANKA -/+Artesunate Malaria infection▶️ ⏫🧠#EndothelialCell, immune cells SPATA spatial trajectory inference of EC-rich spots in infected🧠▶️ ⏫EC antigen processing/presentation + leukocyte adhesion ⏬BBB Partially…
#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…
#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…
"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
Thrilled 🎉 to shared I received my R01 NoA today @NIH_NIAMS! We will continue pushing the frontiers of autoimmune research by developing novel #AI #MachineLearning for #SpatialTranscriptomics and #SingleCell modalities 🧬💻💊! @CUAnschutz @CUDeptMedicine @CUBiomedInfo
#SpatialTranscriptomics 🐭#Stroke #Visium @10xGenomics #Photothrombosis 3 dpi Stroke▶️ ⏫Microglia/Macrophage Galectin-1/3/9➡️ Astrocyte/Oligodendrocyte CD44 at peri-infarct zone▶️ ⏫remyelination ⏫neurobehavioral performance Post-stroke benefits of LGALS9-expressing…
⚡️Exciting Breakthrough in Progressive Multiple Sclerosis⚡️ Much humbled to contribute to this exciting project from @Pluchinolab . Analysing 200+ sections from 50+ patients, showcases the power of #spatialtranscriptomics in rare cell localization. 🧠 @IBT_CAS @LukasValihrach
Proud to see our work out in @NeuroCellPress ! cell.com/neuron/fulltex… With Bongsoo Park, Dimitris Tsitsipatis @DanielZucha @LukasValihrach @irina_mohorianu @Pluchinolab @BeermanHSCaging !
cell.com
Integrated omics reveals disease-associated radial glia-like cells with epigenetically dysregulated...
Park, Nicaise, Tsitsipatis, and colleagues discover transcriptional and epigenetic markers in human PMS iNSCs and fibroblasts that may underlie their senescent and inflammatory state. Novel DARGs...
🚨 Exciting Opportunity! 🚨 @OhioStatePIIO + @OSUWexMed Pathology are recruiting a Tenure-Track Faculty in Spatial Immuno-Oncology Research 🧬🔬 Lead cutting-edge work in #SpatialTranscriptomics, #SpatialProteomics & #ImmunoOncology to decode the #TumorMicroenvironment.…
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
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
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
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
🧬 14 spatial clustering methods benchmarked across ~600 #SpatialTranscriptomics datasets 💻 Covering 10 technologies & 8 organs 📊 Reveals how data traits & spatial patterns shape accuracy ⚙️ Recommends optimal preprocessing & method selection 🔗 doi.org/10.1002/imt2.7……
CoCo-ST detects global and local biological structures in spatial transcriptomics datasets. #SpatialTranscriptomics #VarianceIdentification @NatureCellBio nature.com/articles/s4155…
Wrapping up an incredible week at #AGTA2025! Grateful to everyone who dropped by our booth. Big thanks to Damian for his talk on the world-first @ParseBio experiment in human malaria–infected spleen samples. #Genomics #SpatialTranscriptomics #EnablingDiscovery
New in the October 15 issue from the Cancer Research special series— From Harmony to Discord: Multicellular Coordination in Tissues and Its Rewiring in Cancer doi.org/10.1158/0008-5… @drmervedede @kchenken @MDAndersonNews #SingleCellTranscriptomics #SpatialTranscriptomics
#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…
⚡️Exciting Breakthrough in Progressive Multiple Sclerosis⚡️ Much humbled to contribute to this exciting project from @Pluchinolab . Analysing 200+ sections from 50+ patients, showcases the power of #spatialtranscriptomics in rare cell localization. 🧠 @IBT_CAS @LukasValihrach
Proud to see our work out in @NeuroCellPress ! cell.com/neuron/fulltex… With Bongsoo Park, Dimitris Tsitsipatis @DanielZucha @LukasValihrach @irina_mohorianu @Pluchinolab @BeermanHSCaging !
cell.com
Integrated omics reveals disease-associated radial glia-like cells with epigenetically dysregulated...
Park, Nicaise, Tsitsipatis, and colleagues discover transcriptional and epigenetic markers in human PMS iNSCs and fibroblasts that may underlie their senescent and inflammatory state. Novel DARGs...
ChatGPT-Like AI Model Details 1,300 Regions/Subregions in Mouse Brain Map Tissue-agnostic CellTransformer can be used on other organs and tissues, including cancerous tissue, for which large-scale #spatialtranscriptomics data is available @UCSF #brain #AI hubs.li/Q03MQQXq0
🚀 Pilot Now Open: @ST_Omics OMNI with @SA_genomics & Decode Science Perfect for generating pilot data, exploring new projects, and strengthening grant applications. 🔗 Learn more: app-ap1.hubspotdocuments.com/documents/2389… #SpatialTranscriptomics #SingleCell #Genomics #EnablingDiscovery
Now Open! STOmics OMNI pilot - SAGC, @Decode_Science - spatial RNA from FFPE—end-to-end service. Why STOmics OMNI? ✅ Species-agnostic ✅ Random hexamers (total RNA) ✅ 10×10 mm area at high res (500 nm) ✅ End-to-end workflow Get your projects ready→ap1.hubs.ly/y0hZyD0
#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…
Sequencing-free whole-genome spatial transcriptomics at single-molecule resolution. #SpatialTranscriptomics #SingleMolecule @CellCellPress cell.com/cell/fulltext/…
What can we learn from over 200 spatial transcriptomic projects? linkedin.com/pulse/targets-… via @LinkedIn #SpatialTranscriptomics #SpatialMultiomics #SpatialBiology #SingleCell #SingleCellSequencing #SpatialStandards #Bioinformatics @BrukerSpatial
🧬 14 spatial clustering methods benchmarked across ~600 #SpatialTranscriptomics datasets 💻 Covering 10 technologies & 8 organs 📊 Reveals how data traits & spatial patterns shape accuracy ⚙️ Recommends optimal preprocessing & method selection 🔗 doi.org/10.1002/imt2.7……
Accurate cell segmentation is integral to #spatialtranscriptomics—that's why we never stop improving ours. Large cells? Tissues with dense nuclei? We’ve got you covered. See how you can segment cells more accurately than ever before: bit.ly/4m1nEcz
CoCo-ST detects global and local biological structures in spatial transcriptomics datasets. #SpatialTranscriptomics #VarianceIdentification @NatureCellBio nature.com/articles/s4155…
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…
🚨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)
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
How do we uncover cell-cell interactions from #SpatialTranscriptomics data? Excited to share Niche-DE (doi.org/10.1186/s13059…). Niche-DE asks how does a cell’s transcriptome depend on its spatial neighbors, by identifying Niche-Differentially Expressed genes. 1/9
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…
#SpatialTranscriptomics 🐭#Stroke #Visium @10xGenomics #Photothrombosis 3 dpi Stroke▶️ ⏫Microglia/Macrophage Galectin-1/3/9➡️ Astrocyte/Oligodendrocyte CD44 at peri-infarct zone▶️ ⏫remyelination ⏫neurobehavioral performance Post-stroke benefits of LGALS9-expressing…
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…
#SpatialTranscriptomics Visium #CerebralMalaria 🐭+P.berghei ANKA -/+Artesunate Malaria infection▶️ ⏫🧠#EndothelialCell, immune cells SPATA spatial trajectory inference of EC-rich spots in infected🧠▶️ ⏫EC antigen processing/presentation + leukocyte adhesion ⏬BBB Partially…
#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…
"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
A spatial long-read approach at near-single-cell resolution reveals developmental regulation of splicing and polyadenylation sites in distinct cortical layers and cell types. #LongReads #SingleCell #Spatialtranscriptomics #IsoSeq #PolyA @NatureComms nature.com/articles/s4146…
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
Now online in @CD_AACR: #SpatialTranscriptomics of Intraductal Papillary Mucinous Neoplasms (#IPMN) of the Pancreas Identifies NKX6-2 as a Driver of Gastric Differentiation and Indolent Biological Potential @Marta_Sans_ @Aiims1742 @MDAndersonNews doi.org/10.1158/2159-8…
High-resolution mapping of single cells in spatial context. #SingleCell #SpatialTranscriptomics #Bioinformatics @NatureComms nature.com/articles/s4146…
#SpatialTranscriptomics #BrainOrganoid #Glioblastoma Striatal implant of Brain organoids +Mutant TERT p.C228T TP53 R248Q➡️SOX11+ Proneural GBM subtype +Mutant TERT p.C228T PTENΔ NF1Δ➡️ERBB3+ Mesenchymal GBM subtype In-depth single-cell spatial transcriptional & CNV landscape…
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