GFOD2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008508
Fusion event
HBV-GFOD2 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
precore/core protein|Core and e antigen|
Start
2179
Orient
+
Integrated sequence
CTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATA| |TGGGCCTAAAGTTCAGGCAACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGAT
Host Sequence
Chromosome
chr16
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
67727463/67693560 (Hg38)
End
67727463/67693560 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16B
Target gene
GFOD2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-421
Nearest miRNA
hsa-mir-1225/Upstream/491165; hsa-mir-11401/Downstream/539866;
Nearest TSS
ENST00000527434/Upstream/7948; ENST00000562633/Downstream/25740;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/26109, chr16-CpG: 60/Downstream/25386
Upstream sequence
agggttccatcatgttgcccaagctggtctcaaactcctgggctcaagcaatcctcctgccttggcctcccaaattgctgggattacaggcatgagccat
Downstream sequence
ggtccctggcTAGAATCTTTTTTGGGAAgtggaaaaatgtacattacagaatgtaccattttaaaccatttttaggtgtacagttcagtgcactaataca
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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