Table 1 The role of 34 amplified genes and 17 deleted genes with the highest scores according to PANTHER (http://pantherdb.org/)
From: The pattern of gene copy number alteration (CNAs) in hepatocellular carcinoma: an in silico analysis
Gene name | Protein class | Pathway(s) involved |
|---|---|---|
Amplified genes | ||
ADAM15 | Metalloprotease | – |
FLAD1 | Transferase | Flavin biosynthesis |
ZBTB7B | – | – |
PYGO2 | – | Wnt signaling pathway |
DCST2 | – | – |
LENEP | – | – |
SHC1 | Scaffold/adaptor protein | Inflammation mediated by chemokine and cytokine signaling pathway PDGF signaling pathway FGF signaling pathway CCKR signaling map Angiogenesis EGF receptor signaling pathway Integrin signaling pathway Ras Pathway Interleukin signaling pathway |
PBXIP1 | – | – |
PMVK | Kinase | Cholesterol biosynthesis |
DCST1 | – | – |
KCNN3 | Voltage-gated ion channel | – |
SLC50A1 | – | – |
DPM3 | Transferase | – |
SCAMP3 | Transfer/carrier protein | – |
FAM189B | – | – |
MTX1 | – | – |
KRTCAP2 | – | – |
GBA | – | – |
GBAP1 | – | – |
MUC1 | Cell adhesion molecule | – |
THBS3 | – | – |
TRIM46 | Ubiquitin–protein ligase | – |
ASH1L | Histone modifying enzyme | – |
RUSC1 | – | – |
CLK2 | Non-receptor serine/threonine protein kinase | – |
HCN3 | Ion channel | – |
FDPS | Acyltransferase | Cholesterol biosynthesis |
PKLR | Kinase | Glycolysis Pyruvate metabolism |
YY1AP1 | Transcription cofactor | – |
MSTO1 | – | – |
GON4L | Transcription cofactor | – |
RIT1 | Small GTPase C2H2 zinc finger transcription factor | – |
SYT11 | Membrane trafficking regulatory protein | Synaptic vesicle trafficking |
KIAA0907 | – | – |
Deleted genes | ||
TNFRSF10B | Transmembrane signal receptor | Apoptosis signaling pathway |
p53 pathway | ||
RHOBTB2 | Small GTPase | – |
PEBP4 | Protease inhibitor | FGF signaling pathway |
EGF receptore signaling pathway | ||
TNFRSF10C | Transmembrane signal receptor | Apoptosis signaling pathway |
CHMP7 | Membrane traffic protein | – |
TNFRSF10A | Transmembrane signal receptor | Apoptosis signaling pathway p53 pathway |
ENTPD4 | Nucleotide phosphatase | – |
EGR3 | C2H2 zinc finger transcription factor | – |
BIN3 | – | – |
PDLIM2 | Actin or actin-binding cytoskeletal protein | – |
R3HCC1 | Unknown | – |
LOXL2 | Oxidase | – |
STC1 | Peptide hormone | – |
PIWIL2 | Translation initiation factor | Â |
SLC25A37 | Unknown | – |
TNFRSF10D | Transmembrane signal receptor | Apoptosis signaling pathway p53 pathway |
CSMD1 | – | – |