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Table 3 Differentially expressed genes across clinical parameters

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

Comparison Official gene namea 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
  1. along non-coding RNAs use names from lncipedia.org
  2. “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