Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006954
Fusion event
HBV-STAT1 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
C2
Reference genome
Region type
Polymerase; pre-S1/pre-S2/S
Start
3215
Integrated sequence
CAGCACCTCCTCCTGCCTCCACCAATCGGCAGTCAGGAAGACAGCCTACTCCCATCTCTCCACCTCTAAGAGACAGTCATCCTCAGGCCATGCAGTGGAA| |
Host Sequence
Chromosome
chr2
Cytoband
q32.2
Reference genome
End
191836387/190971661 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-146a-5p ; hsa-mir-34a-5p ; hsa-mir-615-3p ; hsa-mir-653-5p ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-4693-5p ; hsa-mir-5009-3p ; hsa-mir-501-5p ; hsa-mir-1183 ; hsa-mir-500a-5p ; hsa-mir-605-5p ; hsa-mir-140-5p ; hsa-mir-150-5p ; hsa-mir-223-3p ; hsa-mir-203a-3p ; hsa-mir-450a-5p ; hsa-mir-155-5p
Nearest miRNA
hsa-mir-10b/Upstream/1838550; hsa-mir-1244-1/Downstream/15811573;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/89788, chr2-CpG: 70/Downstream/42221
Nearest cancer related gene
STAT1(TSG, No orient, 0)
Upstream sequence
AGCCTCTGGAGAACTTTTTTTTAATCCCAAGTGCTCAATAGTGTGTGGTACATAGTGGGCTCTTAGGAAAATTATTTTGGATTGAAAAGCACAGTGAAAG
Downstream sequence
TGTTGCCCCTATGTTTCAGTCTAGCTTATGTTTCTCttttctttttctttctttttttttttcaaattggagacggagtcttcctctgttgcccagactg
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.