GDPD4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016232
Fusion event
HBV-GDPD4 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1790
End
1811
Orient
+
Integrated sequence
ATAAATTGGTCTGCGCACCAGC
Host Sequence
Chromosome
chr11
Cytoband
q13.5
Reference genome
GRCh37/hg19
Start
76945909/77234864 (Hg38)
End
76946058/77235013 (Hg38)
Orient
-
Location type
Intronic
Target gene
GDPD4
Nearest miRNA
hsa-mir-10392/Upstream/1899678; hsa-let-7a-2/Downstream/2167009;
Nearest TSS
ENST00000527297/Upstream/10562; ENST00000598970/Downstream/52405;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/54924, chr11-CpG: 33/Downstream/176678
Upstream sequence
TTTCTGGAATAGAAACACATTATCATTGAAAGTTTGGGTAGAGCTAGATAATTTATGAATGAATTTCTCATCTGCATTGTGGGTCAAAATGATTTGGGAA
Downstream sequence
ttttttttttttttttttttttttgactttttagtaatagccattctgactggtgtgagatggtatctcatcagggttttgatttgtatctctctgatga
Target sequence
taatgggattgctgggtcaaatggtagttacatttttagttctttgagaaatctctaaactgctttccccaggggctgaactaatttacattcccaccaacagtgtctaagcatttccttctctctgcaaccttgtcaatatctgtttt
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate