Integrated Genome-Wide Analysis of Gene Expression and DNA Copy Number Variations Highlights Stem Cell-Related Pathways in Small Cell Esophageal Carcinoma

Table 1

Oncogenic signatures gene sets significantly altered in SCEC.

Name	Size	NES	NOM val	FDR val
PTEN_DN.V2_UP	10	2.06	0.00252	0.0270
RB_P107_DN.V1_DN	13	2.04	0.00278	0.0264
RB_P130_DN.V1_DN	11	2.01	0.00270	0.0272
KRAS.300_UP.V1_DN	14	1.98	0.00882	0.0285
WNT_UP.V1_DN	13	1.84	0.0158	0.0580
IL2_UP.V1_UP	21	1.81	0	0.0630
IL15_UP.V1_UP	19	1.56	0.0262	0.221
KRAS.600.LUNG.BREAST_UP.V1_DN	27	1.55	0.0350	0.212
NOTCH_DN.V1_UP	18	1.51	0.0327	0.191
MEK_UP.V1_UP	28	1.50	0.0464	0.234
ERB2_UP.V1_UP	25	1.49	0.0425	0.207

Differentially expressed genes (DEGs) were annotated by gene set enrichment analysis (GSEA). Threshold values: size ≥ 10 and NOM val < 0.05. FDR = false discover rate; NOM val = nominal value; NES = normalized enrichment score.