CeDAR: incorporating cell type hierarchy improves cell type-specific differential analyses in bulk omics data

Table 1 Identification of CeDAR-enriched pathways by TOAST, TCA, CellDMC, and csSAM

Pathways reported in Fig. 7c	CeDAR	TOAST	TCA	CellDMC	csSAM
Phospholipase D signaling pathway	Yes	Yes	Yes	Yes	No
Wnt signaling pathway	Yes	Yes	No	Yes	No
Focal adhesion	Yes	Yes	Yes	Yes	No
EGFR tyrosine kinase inhibitor resistance	Yes	Yes	No	No	No
Sphingolipid signaling pathway	Yes	No	No	No	No
Regulation of actin cytoskeleton	Yes	Yes	No	Yes	No

There are six enriched KEGG pathways (with adjusted p-value < 0.2) based on CeDAR uniquely identified csDMCs. We check whether they can be identified by performing the same enrichment analysis on csDMCs identified by TOAST, TCA, CellDMC, and csSAM. In the table, “Yes” means the pathway is enriched by csDMCs reported by corresponding method, while “No” means it is not.

ISSN: 1474-760X