{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE296nnn/GSE296897/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Other"],"species":["Mus musculus"],"gds_type":["Other"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE296897"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"High-resolution spatial transcriptomics of DARLIN mouse [CRISPR array amplicon]","description":"Spatially-resolved single-cell lineage tracing is a powerful approach for studying cell lineages and fate decisions in situ. However, existing studies are limited to specific cell types such as lymphocytes and cancer cells. We recently developed DARLIN, a lineage tracing mouse model that has massive lineage barcodes and efficient barcode recovery. Here, we present Spatio-DARLIN, a generic spatial lineage tracing tool that integrates sequencing-based spatial transcriptomics with DALRIN mouse. Applying it to the small intestine, we observed a high-quality transcriptome with nearly single-cell resolution and recovered ~25% cells with reliable lineage barcodes, resulting in ~7000 clones with >1 cell per tissue section. These clones showed highly reproducible spatial localization across adjacent tissue sections, confirming their accuracy. With this high-throughput approach, we observed that intestinal epithelial clones were localized along the crypt-villus axis and underwent vertical expansion over a longer tracing period. Since DARLIN is publicly available and labels cells across most tissues, Spatio-DARLIN offers an accessible and efficient approach for spatial lineage tracing across various mouse tissues with high resolution.","dates":{"publication":"2026/04/12"},"accession":"GSE296897","cross_references":{"GSM":["GSM8979593","GSM8979592","GSM8979591","GSM8979590","GSM8979595","GSM8979594","GSM9463750","GSM9463752","GSM9463751","GSM9463754","GSM9463753","GSM9463756","GSM9463755","GSM9206540","GSM9206541","GSM9206542","GSM9475364","GSM9475363","GSM9475362","GSM9475361","GSM9475360","GSM9463749","GSM8979575","GSM8979574","GSM8979573","GSM8979572","GSM9475353","GSM9475352","GSM9475351","GSM9475350","GSM8979579","GSM8979578","GSM9463757","GSM9475359","GSM8979577","GSM9475358","GSM8979576","GSM9475357","GSM9475356","GSM9475355","GSM9475354","GSM8979582","GSM8979581","GSM8979580","GSM8979586","GSM8979585","GSM8979584","GSM8979583","GSM8979589","GSM9475349","GSM8979588","GSM9475348","GSM8979587","GSM9475347","GSM9475346","GSM9475345"],"GPL":["24247"],"GSE":["296897"],"taxon":["Mus musculus"]}}