Single-Cell RNA-seq Data from Moauro et al 2023
收藏资源简介：
These experiments are described in the paper: <strong>OCT4 is expressed in extraembryonic endoderm stem (XEN) cell progenitors during somatic cell reprogramming</strong> Alexandra Moauro, Stephanie L. Hickey, Michael A. Halbisen, Anthony Parenti, and Amy Ralston* *Correspondence: aralston@msu.edu All code and results files can be found at https://github.com/slepphickey/scRNA_seq_Moauro_et_al_2023 <strong>Files:</strong> <strong>`matrix.tsv.gz`</strong>: Each element of the matrix is the number of UMIs associated with a feature (row) and a detected cell-associated barcode (column) from the cellranger output for the 17 day MEF reprogramming scRNA-seq data. <strong>`barcodes.tsv.gz`</strong>: detected cell-associated barcodes from the cellranger output for the 17 day MEF reprogramming scRNA-seq data. <strong>features.tsv.gz`</strong>: genes from the cellranger output for the 17 day MEF reprogramming scRNA-seq data. <strong>`Day17_Reprogramming_scRNA_seq_QC_filtered_SeuratObject.Rdata`</strong>: a Seurat object containing the filtered UMI count data, normalized count data, and cluster assignments from all cells. <strong>`Day17_Reprogramming_scRNA_seq_Pou5f1_expressing_QC_filtered_SeuratObject.Rdata`</strong>: a Seurat object containing the filtered UMI count data, normalized count data, and cluster assignments from Pou5f1 expressing cells. <strong>`Day17_Reprogramming_scRNA_seq_Sox2_expressing_QC_filtered_SeuratObject.Rdata`</strong>: a Seurat object containing the filtered UMI count data, normalized count data, and cluster assignments from Sox2 expressing cells. <strong>`Mohammed_seurat.rdata`: </strong>a Seurat object containing the filtered UMI count data, normalized count data, and cluster assignments from <em>Single-Cell Landscape of Transcriptional Heterogeneity and Cell Fate Decisions during Mouse Early Gastrulation, Mohammed et al. 201</em>7 (GSE100597). <strong>`Mohammed2017_TabS1_set_table.Rdata` </strong>: Mohammed et al. cluster enriched genes copied from Table S1 -- tab: `SC3 Cluster specific genes` -- Columns: `Enriched genes by SC3 clustering for each lineage (All genes)` <strong>`GSE69321_Non-normalized_data.txt.gz`: </strong>Raw Illumina beadarray data from Wamaitha et. al., 2015, <em>Gata6 potently initiates reprograming of pluripotent and differentiated cells to extraembryonic endoderm stem cells,</em> Genes & Dev. 2015. 29: 1239-1255, doi:10.1101/gad.257071.11. (GSE69321). <strong>`probe_raw.txt`</strong>: `GSE69321_Non-normalized_data.txt.gz` filtered for mESC and eXEN data.
