Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016233
Fusion event
HBV-GDPD4 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1801
End
1823
Orient
-
Integrated sequence
TGCGCACCAGCACCATGCAACTT
Host Sequence
Chromosome
chr11
Cytoband
q13.5
Reference genome
Start
End
76946338/77235293 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-10392/Upstream/1899859; hsa-let-7a-2/Downstream/2166729;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/55105, chr11-CpG: 33/Downstream/176398
Upstream sequence
cattgttaggactttgcgagaactagtaagctcatggagtgtttagcaatatgatttttttaaaaagacaattttgaattctttgttaagaatTCACCAA
Downstream sequence
atgcagcaaggtttttttgtacaattagcaagtggattataagattcatatggaaaagcacagccctacaataattaaaacaatctgaaaaaaaaatagt
Target sequence
agtaatagccattctgactggtgtgagatggtatctcatcagggttttgatttgtatctctctgatgattagtgatgctgaggatgttttcatatgtttgttagttgcttgtatgtcttcttttgagaagtgtctgttcatatcctttacccactttcttaaacaagtggagtgacatatgtgttcatggattggaaattcaatgtagtaaagatgtcagttctccctcaaatagatctgtaagtttg
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.