Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014985
Fusion event
HBV-HTR2C integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
HBVgp3 X protein
Start
1766
Orient
+
Integrated sequence
CTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGG| |TCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTT
Host Sequence
Chromosome
chrX
Reference genome
End
113875804/113875804 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-let-7f-2/Upstream/1095016; hsa-mir-105-1/Downstream/763631;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/1034217, chrX-CpG: 18/Downstream/514693
Upstream sequence
ATAGAATACTTGAACTCAGACTGTTCCAGAAATCTACTTATATTACGCTAAAACTTATAGCTAAAATCGAAACAAAATCCTGAAAGAAGTGATTTTTTAA
Downstream sequence
TTGCATAGTCCTTATATTTTAGAACATGAAATCATTTACCCCTGTACTCTGTTAGAAGCTCTTCTGATATGGTGACATTGATTAGTATATTCTCATTTAA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.