Systematic reconstruction of molecular pathway signatures using scalable single-cell perturbation screens
DOI10.5281/zenodo.14518762Zenodo14518762MaRDI QIDQ6675132
Dataset published at Zenodo repository.
Gila Lithwick-Yanai, Rahul Satija, Hans-Hermann Wessels, Doron Lipson, Longda Jiang, Nika Iremadze, Carol Dalgarno, Huiyoung Yun, Efthymia Papalexi, Isabella Mascio
Publication date: 18 December 2024
Copyright license: Lua error in Module:HelperMethods at line 124: attempt to call global 'makeWikiLink' (a nil value).
This repo contains Seurat objects, differential expression analysis results, and pathway gene lists for the manuscript "Systematic reconstruction of molecular pathway signatures using scalable single-cell perturbation screens"List of files: 1. Seurat_object_IFNB_Perturb_seq.rds: Seurat object of the Perturb-seq data for Interferon-beta pathway2. Seurat_object_IFNG_Perturb_seq.rds: Seurat object of the Perturb-seq data for Interferon-gamma pathway3. Seurat_object_TNFA_Perturb_seq.rds: Seurat object of the Perturb-seq data for TNF-alpha pathway4. Seurat_object_TGFB1_Perturb_seq.rds: Seurat object of the Perturb-seq data for TGF-beta1 pathway5. Seurat_object_INS_Perturb_seq.rds: Seurat object of the Perturb-seq data for insulin pathway6. Pathway_genelist.rds: The pathway gene lists from MultiCCA analysis7. Pathway_Exclusive_genelist.rds: The pathway exclusive gene lists generated from Pathway_genelist.rds8. HClust_Pathway_celltype_specific_genelist.rds: The cell-line specific pathway gene lists from hierarchical clustering analysis independently done on each cell line9. DE_results_all_pathway.zip: The DE test results for all the regulators, cell lines, and pathways (from Mixscale weighted DE test.)10. Bulk_RNAseq_Seurat_object_IFNG_and_TGFB_stim.rds: Seurat object for the bulk RNA-seq data for interferon-gamma and TGF-beta stimulation experiments11. Parse_Guide_Capture_Protocol.pdf: The guide RNA capture protocol developed for Parse Evercode Whole Transcriptome kit
This page was built for dataset: Systematic reconstruction of molecular pathway signatures using scalable single-cell perturbation screens
