cluster identification and DEGs in single cell data
0
0
Entering edit mode
2.2 years ago

Hello everyone I am working on single cell data (multiple samples) in which samples are grouped based on the condition (control and treated). For the data analysis, I have been using seurat package for pre-processing, normalization (SCT) and identified multiple clusters. Later, for each cluster, performed "DEGs" analysis based on the condition. From DEGs list, I found that the same gene is differential expressed in multiple cluster. Example : Gstm1 was identified in all three clusters as differential expressed gene during comparison of control and treated. Another gene Acaa1b was found as DEG in 2 clusters.

        Cluster 0   Cluster 1   Cluster 2
"Gstm1"     1   1   1
"Acaa1b"    1   1   0

Is it normal in single cell data to identified same gene (significant differential expressed) in multiple clusters?

Please let me know if I am doing something wrong.

deg cluster seurat analysis • 694 views
ADD COMMENT
1
Entering edit mode

It's normal since many genes are expressed in multiple cell types.

ADD REPLY
0
Entering edit mode

Thanks for the confirmation :)

ADD REPLY

Login before adding your answer.

Traffic: 2364 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6