diff --git a/README.md b/README.md index 237bbad69c3e8e5e0bba55b3a02be4d06ef6bb13..bdee34d7986ab9132c302acba3342158fff1acd8 100755 --- a/README.md +++ b/README.md @@ -30,11 +30,11 @@ Data Analysis * sc_PC.Score.NE (PCA analysis of Neurocrine Epithelia protein marker signature, projecction to PC1 used as "NE Score", highest scoring cells identified as Neuroendocrine Cells) * sc_QuSAGE.LGEA.Epi (Epithelial clusters correlated to top 20 DEGs from scRNA-seq of human lung Basal Cells, Alveolar Type 2 Cells, Club/Goblet Cells to determine similarity to lung epithelial cell types) * sc_QuSAGE.LGEA.St (Stromal clusters correlated to human orthologs of mouse lung stromal DEGs from scRNA*seq to determine similarity to:) - * Proliferative Fibrobblasts - * Myofibroblast/Smooth Muscle-Like Cells - * Matrix Fibroblasts - * Endothelial Cells - * Myeloid/Immune Cells + * Proliferative Fibrobblasts + * Myofibroblast/Smooth Muscle-Like Cells + * Matrix Fibroblasts + * Endothelial Cells + * Myeloid/Immune Cells * sc_DEG (generate DEG lists between important cell types and predict surface and nuclear markers from them) * sc_Table (produce tables of population differences between samples) @@ -54,10 +54,10 @@ Data Analysis * "Normal AT2 cells-signature-genes.csv" scRNA-Sequecing Lung Map generated top 20 DEGs for human lung Alveolar Type 2 Cells * "Club\_Goblet cells-signature-genes.csv" scRNA-Sequencing Lung Map generated top 20 DEGs for human lung Club/Goblet Cells * "journal.pcbi.1004575.s026.XLSX" scRNA-Sequencing Lung Map generated DEGs for E16.5 mouse lung stromal subtypes (genes converted to human othologs with Ensembl): - * Proliferative Fibroblasts - * Myofibroblast/Smooth Muscle-like Cells - * Pericytes, Matrix Fibroblasts - * Endothelial Cells - * Myeloid/Immune Cells + * Proliferative Fibroblasts + * Myofibroblast/Smooth Muscle-like Cells + * Pericytes, Matrix Fibroblasts + * Endothelial Cells + * Myeloid/Immune Cells * ["DWS.scStress.txt"](genesets/DWS.scStress.txt) DWS generated DEGs of Stressed Cells from scRNA-Sequencing * ["DWS.scNE.txt"](genesets/DWS.scNE.txt) DWS generated DEGs of Neuroendocrine Cells from scRNA-Sequencing