Single-cell RNA sequencing (scRNA-seq) data from six acne vulgaris patients were obtained from the GEO database (GSE175817), filtered, and integrated. Differentially expressed genes (DEGs) were identified and subjected to functional enrichment analysis to explore the underlying pathogenesis. Gene set...
Thus, the pathway-trajectory analysis provides information on the transient effects of a drug along the inferred cell trajectory. Fig. 1: Overview of the proposed method. a–d, This method consists of two stages: drug-induced single-cell transcriptome imputation (a,b) and pathway-trajectory ...
T cell single-cell RNA-seq single-cell pathway analysis SCPA cytokines metabolism pathway analysis gene set arachidonic acid type I interferon Research topic(s) CP: Immunology Introduction Dysregulation of T cell responses is a hallmark of a large spectrum of human disorders, including autoimmunity,...
Cell signaling analysis can be performed in each of your samples in a single experiment. Simple Western can analyze up to 96 samples in a single overnight run using only 5 μL of sample, which is ideal for gaining a comprehensive overview of many targets together with their phosphorylated iso...
CommPath is an R package for inference and analysis of ligand-receptor interactions from single cell RNA sequencing data. Installation CommPath R package can be easily installed from Github using devtools: devtools::install_github("yingyonghui/CommPath") library(CommPath) Dependencies library(Matrix...
Pathway analysis Gene expression Benchmark 1. Introduction With the advance of single-cell RNA sequencing (scRNA-seq) technologies, a growing and large number of studies[1],[2],[3]have been reported for revealing heterogeneity of cellular populations at unprecedented resolution. scRNA-seq analysis ...
Analysis of bone marrow precursors Yong Yu et al. use single-cell RNA-seq to analyse mouse bone marrow innate lymphoid cell (ILC) precursors. Analysis of single-cell RNA-seq data reveals branching of ILC1s, ILC2s and ILC3s from a common programmed death protein 1 (PD-1)-expressing precur...
一篇NC文章(Single-cell analysis identifies conserved features of immune dysfunction in simulated microgravity and spaceflight)上看到的,不过这篇文章中做了富集分析,这个不是重点,重点是这个文章提供了代码(https://github.com/FEI38750/Immune_Dysfunction_in_Microgravity/blob/main/7_IPA_comparison_dotplot.r)...
et al. Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data. Genome Biol 21, 36 (2020). https://doi.org/10.1186/s13059-020-1949-z 3. PROGENy安装及使用 3.1 安装 截止到本文发布前,PROGENy存储在Bioconductor的版本已经是最新的v1.20版本,和...
Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data - saezlab/FootprintMethods_on_scRNAseq