Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016469
Fusion event
HBV-chr2 integration
Validated
No
Detection method
WGS
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
2941
End
2976
Orient
+
Integrated sequence
TTGGGACTTCAATCCCAACAAGGACACCTGGCCAGA
Host Sequence
Chromosome
chr2
Cytoband
q13
Reference genome
End
109810265/109193809 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
miRNAs that regulate target gene
hsa-mir-708-5p ; hsa-mir-106b-3p ; hsa-mir-421 ; hsa-mir-423-3p ; hsa-mir-186-5p ; hsa-mir-125b-5p ; hsa-let-7g-5p ; hsa-mir-92a-3p ; hsa-let-7e-5p ; hsa-let-7a-5p ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-1200 ; hsa-mir-378a-5p ; hsa-mir-539-5p ; hsa-mir-3124-3p ; hsa-mir-3140-5p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-3973 ; hsa-mir-551b-5p ; hsa-mir-6507-3p ; hsa-mir-4311 ; hsa-mir-4439 ; hsa-mir-943 ; hsa-mir-6826-3p ; hsa-mir-3136-5p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6795-3p ; hsa-mir-6887-3p ; hsa-mir-5003-5p ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-4501 ; hsa-mir-8087 ; hsa-mir-7161-5p ; hsa-mir-548u
Nearest miRNA
hsa-mir-1285-2/Upstream/52186; hsa-mir-10b/Downstream/119762;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/63397, chr2-CpG: 246/Downstream/419520
Upstream sequence
GAAGTAAAGAGACTTTGTGTCAGTTATTTCTTAGATCAATTAAATTCCTATATTCTAGCTTATACTACGTATAATTACTCTAGCTTATACTATGTATCCT
Downstream sequence
GGGTGTTTTCTACCCAGCACCTGATTTAAGTCTCGTCTAGCCCCGGGGATGGGTTTTCTGATAATCTccgtttacagggtttggcaggctgcaagccttg
Target sequence
AAAGAACATTTGTGCAGTGCTTAGTGCCTTAGAAA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.