GFOD2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012891
Fusion event
HBV-GFOD2 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
Polymerase|
Start
1041
Orient
-
Integrated sequence
GAATGTTTTAGAAAACTTCCTATTAACAGGCCTATTGATTGGAAAGTATGTCAACGAATTGTGGGTCTTTTGGGTTTTGCTGCCCCTTTTACACAATGTG| |GTTATCCTGCGTTGATGCCTTTGTATGCATGTATTCAATCTAAGCAGGCTTTCACTTTCTCGCCAACTTACAAGGCCTTTCTGTGTAAACAATACCTGAA
Host Sequence
Chromosome
chr16
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
67709419/67675516 (Hg38)
End
67709419/67675516 (Hg38)
Orient
+
Location type
Exonic
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/473121; hsa-mir-11401/Downstream/557910;
Nearest TSS
ENST00000527434/Upstream/8208; ENST00000562633/Downstream/1968;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/8065, chr16-CpG: 60/Downstream/43430
Upstream sequence
ACATCCTGGGGCCCCTGCTCAGGCAGTCCTGCGCCCACTGCCAGCGAGTCCCTCAAGAGCAGCTCCTCTTGCGTGGCAGAGTTCTTCTGCCCATAGAGGT
Downstream sequence
CGGCTCCCCGGGCGACGAGGCGTCCTGCAGAGCCTACCACCATGACTTCATGCACAAAGGCGCCTGGCATGTTGAAGTTGAGTGTCACTGTGCTACACAC
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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