From fa034ae6c18e950a308d02f41e16632db39bd2d6 Mon Sep 17 00:00:00 2001 From: Christopher Morrison Date: Thu, 21 Nov 2024 12:47:17 -0800 Subject: [PATCH] Add link to WMB taxonomy page. --- .../Zeng_Aging_Mouse_clustering_analysis_and_annotation.ipynb | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/notebooks/Zeng_Aging_Mouse_clustering_analysis_and_annotation.ipynb b/notebooks/Zeng_Aging_Mouse_clustering_analysis_and_annotation.ipynb index 882cad0..6fc51f5 100644 --- a/notebooks/Zeng_Aging_Mouse_clustering_analysis_and_annotation.ipynb +++ b/notebooks/Zeng_Aging_Mouse_clustering_analysis_and_annotation.ipynb @@ -6,7 +6,7 @@ "source": [ "# Mouse Aging clustering analysis and annotation \n", "\n", - "The Mouse Aging dataset [Jin et al] is a comprehensive single-cell RNA sequencing (scRNA-seq) dataset containing ~1.2 million high-quality single-cell transcriptomes of brain cells from young adult and aged mice of both sexes, from regions spanning the forebrain, midbrain, and hindbrain. High-resolution de novo clustering of all cells results in 847 cell clusters and reveals at least 12 age-biased clusters that are mostly glial types. Clusters in the study were mapped to the whole mouse brain taxonomy (WMB-taxonomy) to provide class, subclass and supertype annotations. At the broader cell subclass and supertype levels, age-associated gene expression signatures were analyzed resulting in a list of 2,449 differentially expressed genes (age-DE genes) for many neuronal and non-neuronal cell types. \n", + "The Mouse Aging dataset [Jin et al] is a comprehensive single-cell RNA sequencing (scRNA-seq) dataset containing ~1.2 million high-quality single-cell transcriptomes of brain cells from young adult and aged mice of both sexes, from regions spanning the forebrain, midbrain, and hindbrain. High-resolution de novo clustering of all cells results in 847 cell clusters and reveals at least 12 age-biased clusters that are mostly glial types. Clusters in the study were mapped to the whole mouse brain taxonomy (WMB-taxonomy, [Yao et al.](https://www.biorxiv.org/content/10.1101/2023.03.06.531121v1)) to provide class, subclass and supertype annotations. At the broader cell subclass and supertype levels, age-associated gene expression signatures were analyzed resulting in a list of 2,449 differentially expressed genes (age-DE genes) for many neuronal and non-neuronal cell types. \n", "\n", "The purpose of this set of notebooks is to provide an overview of the data, the file organization, and how to combine data and metadata through example use cases.\n", "\n",