Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006868
Fusion event
HBV-SHF integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
B2
Reference genome
Region type
pre-core/core
Start
2464
Integrated sequence
CCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGAC| |ACATAAGGTGGGAAACTTTACGGGGCTTTATTCTTCTACGGTACCTTGCTTTAATCCTAAATGGCAAACTCCTTCTTTTCCTGACATTCATTTGCAGGAG
Host Sequence
Chromosome
chr15
Cytoband
q21.1
Reference genome
Start
End
45462771/45170573 (Hg38)
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-10393/Upstream/452680; hsa-mir-11181/Downstream/262477;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/3191, chr15-CpG: 79/Downstream/16738
Upstream sequence
gtatgacagctggaaaaaaagcgataatctatcaactcatttggcaaaggtagaaaccgaggctcggagatattaagtgatttccctaggatcacatagc
Downstream sequence
tagtgtatcaaatccaagaatagaactcaggttacctgactatagtccggcactttttctattatctttttcttttttttttttttttttttctgagaca
Reference
Yan, H., et al. Characterization of the genotype and integration patterns of hepatitis B virus in early- and late-onset hepatocellular carcinoma. Hepatology ,2015,61(6): 1821-1831.