🚨PREPRINT ALERT🚨. Systematic comparison of sequencing-based spatial transcriptomic methods🫶. #ST #benchmark #Visium #HDST #BMKMANUS1000 #SlideSeq #StereoSeq #PIXELSeq #DBiTseq. 👉

#SlideSeq uses sequencing to build detailed tissue maps without need for a microscope; shows numerous cell types and patterns of gene expression

#spacexr (advanced ver #RTCD) .Cell type-specific inference of differential expression/C-SIDE. Requiring annotated single-cell reference. Work with #Visium #Slideseq #MERFISH. For #Visium data, "skipping segmentation did not substantially change C-SIDE DE

Historical chart from a review: #spatial #transcriptomics #Visium #HDST #GeoMx #APEXSeq #SlideSeq #seqFISH+ #osmFISH #STARmap #BaristaSeq #ProximID

With Rodriques et al's Slideseq data on the mouse cerebellum, we investigated spatial density variations in granule cell localization, identifying the gene set that is differentially expressed only in densely-packed granule cells, and not expressed in other cell types. 7/

Leveraging deep learning, we integrate morphological features from the H&E image to discover unique tissue compartments. We also demonstrate the versatility of chrysalis using #Visium, #Slideseq, and #Stereoseq data. 🧵 (4/6)

"Single-cell visualization techniques are taking the research community by storm." Our VP of Biology Tarjei Mikkelsen tells @nature how 10x is helping lead the way in this rapidly growing area. #SingleCell #SlideSeq

Furthermore, we train machine learning models to increase the number of matches between the optically decoded and the Illumina sequenced barcodes. This boosts the total number of beads on a puck in both our (custom) and published datasets (SlideSeq) (3/4)

Leveraging deep learning, we integrated morphological features from H&E images to uncover tissue compartments defined by morphology and expression. We also tested Chrysalis on multiple platforms, such as #VisiumHD, #SlideSeq, and #StereoSeq. 🧵 (5/7)

In a new paper led by @mantri_madhav.out today in @NatureCVR, we used single cell and spatial transcriptomics (@10xGenomics and SlideSeq) and lots of single molecule FISH to learn about the processes by which viral infection leads to myocarditis. @Innov_Medicine

La rubrique « Chroniques génomiques » de Bertrand Jordan est consacrée à la technique « #slideseq », une puissante méthode d’analyse de l’expression des #gènes sur coupes de tissus, avec une résolution quasi-#cellulaire.

Vesalius performs tissue anatomization from spatial transcriptomics data. It features detection of tissue territory and anatomy associated genes. By @pcnmartin #transcriptomics #HDST #SlideSeq .

#Slideseq | A scalable technology for #high_spatial_resolution RNA capture from tissue | Evan Macosko @broadinstitute @MIT @sciencemagazine

WHAT is your favorite paper applying .#ST Spatial Transcriptomics .technologies in research/clinics?. #visium #st #stereoseq #scopeseq #pixelseq #dbitseq #zipseq #scispace #xyzeq #slideseq #hdst.

３月３０日　SlideSeq：組織学情報と細胞学情報の融合（３月２９日号Science掲載論文） | AASJホームページ "この論文を含む最近の組織学的方法の革命については４月１１日夕方７時より吉田医師を聞き手にYoutubeで動画解説を配信します".

Very interesting new technique called Slide-seq has just come out. It allows you to look at genome-wide expression profiles in tissue slices at 10-micron resolution. #neuroscience #brain #neuron #Slideseq #scRNAseq #transcriptome

「SlideSeqが普及できるとしても、値段は高いと思う。この組織学的革命を大きなラボだけが導入できて、若い独立した研究者にハンディがつかないようぜひ対応策を考えて欲しいと読みながら思う」. これな。。.

Leveraging deep learning, we integrated morphological features from H&E images to uncover tissue compartments defined by morphology and expression. We also tested Chrysalis on multiple platforms, such as #VisiumHD, #SlideSeq, and #StereoSeq.

DNA microscopy。SlideSeqの親戚かとおもたら全然違う。各DNA/RNA分子を発信基地、増幅DNAを電波、近接の発信基地との近さ＝拡散した増幅DNAの重なり度合い、重なり度合い＝増幅DNA同士で作られたハイブリッド分子、と捉えて２Dに発信基地＝DNAをマップする！

#Spatial_Transcriptomics | Highly sensitive at near-cellular resolution with #SlideSeq_V2 | Fei Chen @broadinstitute @NatureBiotech