The spatial landscape of gene expression isoforms in tissue sections

<strong>This upload provides raw in situ sequencing (ISS) data used to validate Spatial Isoform Transcriptomics (SiT), as well as R scripts required for SiT analysis.</strong> <strong>GenePlots.zip and Reads.zip are ISS data </strong><strong>generated and collected by the CARTANA ISS service</strong>. <strong>The following data description is cited from the report provided by CARTANA ISS service:</strong> <em>"Folder "Reads" contains coordinates and gene information of segmented spots.<br> The coordinates are in pixel unit. Scaling factor is 0.32 um/pixel. (0,0) is at northwest (top-left corner).<br> With Low/High Threshold, we refer to the quality thresholding. Our technology is fluorescence based, i.e. with the thresholding one can balance how certain the signals are.</em> <em>Files ending with _LowThreshold: reads not matching with any known barcode were already discarded.</em> <em>Files ending with _HighThreshold: has information only about spots that passed additional quality check.</em> <em>Folder "GenePlots" has plotted images in static .png format, fully zoomed out. LowThreshold and HighThreshold follow the same thresholding strategy as in reads files."</em> <strong>SiT-master.zip is a download of the GitHub repository </strong>https://github.com/ucagenomix/SiT, <strong>providing figures and analysis scripts for SiT.</strong> <strong>Related SiT data are deposited through GEO, accession number GSE153859</strong>