Comprehensive transcriptomic analyses of tissue, serum, and serum exosomes from hepatocellular carcinoma patients

BMC Cancer

Table 3 Differentially expressed genes across clinical parameters

Comparison	Official gene name^a	Ensemble gene name	Fold change	Adjusted P-value
HBV vs Non-HBV in Normal Tissue
	KANK4	ENSG00000132854	−1.798	0.021
	GRHL1	ENSG00000134317	−0.618	0.021
	lnc-C2orf54–2:1	NA	−1.626	0.034
	RRN3P2	ENSG00000103472	0.785	0.034
	ST13	ENSG00000100380	−0.603	0.044
	USP41	ENSG00000161133	−0.753	0.047
	lnc-METTL4–1:1	NA	0.358	0.047
	PATZ1	ENSG00000100105	−0.557	0.047
	NA	ENSG00000274021	−0.508	0.048
	lnc-C1orf222–1:1	NA	−0.478	0.048
	SPDYC	ENSG00000204710	−0.443	0.048
	PTGER4P2-CDK2AP2P2	ENSG00000275450	−0.505	0.048
	AK126423	ENSG00000278934	−0.441	0.048
Cirrhosis vs Non-Cirrhosis in Tumor Tissue
	HOXB13	ENSG00000159184	−2.198	0.011
	NAP1L6	ENSG00000204118	−1.501	0.011
	EIG121	ENSG00000116299	−1.461	0.013
	CSMD3	ENSG00000164796	−0.598	0.024
	VPS9D1	ENSG00000261373	−0.822	0.024
	KIAA1324	ENSG00000116299	−1.250	0.031
	KCNMB2	ENSG00000197584	−0.617	0.037
	LOC101929022	NA	−0.595	0.037
	TCP1	ENSG00000120438	−0.751	0.037
	MB	ENSG00000198125	−0.991	0.037
	TTLL6	ENSG00000170703	−0.697	0.038
	AXDND1	ENSG00000162779	−0.722	0.038
	lnc-CCRN4L-7:1	NA	−0.885	0.038
	PLCH1	ENSG00000114805	−0.413	0.044
Transplantation vs Resection in Normal Tissue
	AL355096	ENSG00000258460	−1.059	0.004
	FGF23	ENSG00000118972	2.370	0.004
	TMED11P	ENSG00000215367	−0.430	0.016
	TCONS_l2_00028727	NA	0.685	0.034
	MT1H	ENSG00000205358	−3.002	0.038

^along non-coding RNAs use names from lncipedia.org
“Comparison” shows the clinical parameters between which the comparison was performed; “Official Gene Name” shows the official gene symbol; “Ensemble Gene Name” shows the Ensemble gene name; “Fold Change” shows the log2 fold change value for the gene; “Adjusted P-value” shows the Benjamini-Hochberg asdjusted p-value. “NA” indicates that the name is not available. Positive fold change indicates upregulation in HBV, Cirrhosis or Transplantation for the three different comparisons

ISSN: 1471-2407