Type III interferons induce pyroptosis in gut epithelial cells and impair mucosal repair: processed single-cell RNA-seq data

Type III interferons induce pyroptosis in gut epithelial cells and impair mucosal repair To investigate the transcriptional program within the intestinal epithelial cells (IECs) controlling the impact of type III interferons (IFN-λ) on intestinal recovery, we performed a single-cell RNA sequencing (scRNA-seq) on murine IECs following irradiation. Mice deficient for the IFN-λ receptor in IECs and wild-type mice underwent targeted irradiation. 96h after irradiation, IECs were isolated by fluorescence-activated cell sorting (FACS) based on the expression of EPCAM and analyzed using scRNA-seq. What this record is This is the entry point for the processed single-cell RNA-seq data of this study. It holds only the documentation: the manifest of every archive and the instructions below. The data itself lives in the 13 records listed below. The 13 data records Core analysis outputs — start here RecordArchiveSizeDOIWT — corecore_WT.tar36.1 GB10.5281/zenodo.22944746KO — corecore_KO.tar36.8 GB10.5281/zenodo.22944748Merged (all cells) — corecore_MergeAllCells.tar42.5 GB10.5281/zenodo.22944750Merged — corecore_Merge01.tar14.0 GB10.5281/zenodo.22944752 R session images — optional RecordArchiveSizeDOIWT — session imagesrdata_WT.tar40.4 GB10.5281/zenodo.22944754WT — session images, enterocytesrdata_WT_05b_Enterocytes.tar25.7 GB10.5281/zenodo.22944756KO — session imagesrdata_KO.tar28.6 GB10.5281/zenodo.22944758Merged (all cells) — session imagesrdata_MergeAllCells.tar31.6 GB10.5281/zenodo.22944760Merged — session imagesrdata_Merge01.tar6.8 GB10.5281/zenodo.22944762 Cell Ranger alignments — optional RecordArchiveSizeDOIWT — BAM, position-sortedbam_WT_possorted.tar33.1 GB10.5281/zenodo.22944764WT — BAM, cell-sortedbam_WT_cellsorted.tar32.1 GB10.5281/zenodo.22944766KO — BAM, position-sortedbam_KO_possorted.tar38.7 GB10.5281/zenodo.22944768KO — BAM, cell-sortedbam_KO_cellsorted.tar36.9 GB10.5281/zenodo.22944770 How the collection is organised Four datasets, each with up to three levels of detail: core — Seurat objects, rendered reports, references and containers. Self-contained: enough to reconstruct and read the whole analysis. rdata — R session images for the clustering resolutions consumed downstream. Optional. bam — Cell Ranger alignments. Optional, and fully regenerable from the raw FASTQ files deposited in GEO. How to use them Every archive stores paths relative to the same root, 002_IFNL_Recovery_scRNAseq/. Download what you need and extract everything into one empty directory: tar xf *.tar Each file lands in its correct place. The core records alone give a complete but lightweight tree; the others fill it in without overwriting anything. Related resources Raw reads: GEO GSE246333 and GSE247149 Analysis code: CIML-bioinformatic/ABlab_IFNLGutRestitution Bulk RNA-seq dataset: 10.57745/MB71AU