Web1 de out. de 2024 · Here, we developed high-definition spatial transcriptomics, which captures RNA from histological tissue sections on a dense, spatially barcoded bead … Web21 de jun. de 2024 · While early spatial transcriptomic technologies are often small in scale with relatively low spatial resolution [11, 12], recent technologies, such as Slide-seq [13, 14] and high-definition spatial transcriptomics (HDST) , have enabled transcriptome-wide profiling at micron resolution on tens or hundreds of thousands of spatial locations.
High-definition spatial transcriptomics for in situ tissue profiling
Web10 de abr. de 2024 · Similarly, Vickovic et al. [42] developed high-definition spatial transcriptomics (HDST) by randomly spreading capture oligonucleotides-bearing beads into the 2 μm wells of a hexagonal array. ... High-definition spatial transcriptomics for in situ tissue profiling. Nat. Methods, 16 (2024), pp. 987-990. CrossRef View in Scopus … Web18 de jan. de 2024 · Spatial transcriptomics (ST, ... (FFPE) tissues. 42 The upgraded method named high-definition spatial transcriptomics (HDST) was then developed with resolution at 2 μm. 43 This approach opens the avenue of spatial quantification of complex tissues at the single-cell resolution. how many sharps and flats in each key
Clinical challenges of tissue preparation for spatial transcriptome
Web14 de nov. de 2024 · The High-Definition Spatial Transcriptomics (HDST) method uses microwell-based fluorescence spatial indexing beads to capture transcripts, and fluorescence signals reveal transcript positions in tissue samples. The barcoded RNA is sequenced, and sequencing data is mapped to fluorescence data. FASTQ files were processed using the ST Pipeline v.1.5.1 software23. The forward read contained both the barcode the bridge sequences and were trimmed retaining the following bases: 1–15, 31–45 and 61–76. This created a forward read containing only a spatial barcode followed by a UMI. R2 transcripts were … Ver mais We used a split-and-pool approach to generate a total of 2,893,865 different quality controlled 2 μm silica beads. A primer precursor containing (1) the T7 promoter, (2) an … Ver mais The complete bead pool was used to load a total of 1,467,270 individual hexagonal wells covering a 13.7 mm2 area (5.7 × 2.4 mm2). The wells were etched using a weak acid in a planar … Ver mais Adult C57BL/6J mice (at 12 weeks of age) were euthanized and their MOB dissected. The samples were then frozen in an isopentane (Sigma … Ver mais Two sets of complementary and fluorescently labeled (FAM and Cy3) oligonucleotides were synthesized, deprotected and purified. An additional set of unlabeled but still … Ver mais Web9 de set. de 2024 · Here, we developed High-Definition Spatial Transcriptomics (HDST), which captures RNA from histological tissue sections on a dense spatially barcoded bead array. Each experiment recovers several hundred thousand transcript-coupled spatial barcodes at 2μm resolution, as demonstrated in mouse brain and primary breast cancer. how did jesus fulfill the passover