DEG analysis and cell number(proportion or frequency) comparison in scRNA-seq
Hi all,
I have a question about the relationship between DEG and cell number (or proportion or frequency) comparison in scRNA-seq. DEG analysis and comparison of cell number were performed to compare control and disease group. When pseudo-bulk DEG analysis was performed using DESeq2, gene A was up-regulated in Cluster X. But cell number of Cluster X was decreased in disease group.
In this case, can it be said that gene A was actually up-regulated in the disease group? Or what if we want to show that gene A expression is increased?
Thank you.
Best,
Joonhong
• 690 views
•
link
written
by
joonhong kwon •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
scRNAseq analysis with a few samples (n=2 per group)
written by Song •
-
Paired vs Unpaired t-test: Compositional analysis in the Human snRNA-seq data
written by joonhong kwon •
-
ambient RNA quality control in scRNA-seq
written by joonhong kwon •
-
How to choose the important clusters for RNAseq data of different groups for downstream analysis/a…
written by alwayshope •
-
Trajectory analysis using Monocle3 with Seurat sub-clustering
written by joonhong kwon •
-
Why are some cells of Cell type A located in Cell type B in scRNA-seq clustering?
written by joonhong kwon •
-
Pseudo-bulk DEG analysis with Multi-tissue in scRNA-seq
written by joonhong kwon •
-
Limma Pairwise (Paired sample) DEG analysis
written by joonhong kwon •
-
Single cell RNA-seq DEG analysis on multi-tissue
written by joonhong kwon •
-
Difference in results from DESeq to EdgeR
written by Rogerio Ribeiro •
