Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016290
Fusion event
HBV-HECW2 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
508
End
695
Orient
+
Integrated sequence
CGGGACCATGCCGGACCTGCATGACTACTGCTCAAGGAACCTCTATGTATCCCTCCTGTTGCTGTACCAAACCTTCGGACGGAAATTGCACCTGTATTCCCATCCCATCATCCTGGGCTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTTTACTAGTGCCATTTGTT
Host Sequence
Chromosome
chr2
Cytoband
q32.3
Reference genome
End
197171981/196307257 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-944 ; hsa-mir-7977 ; hsa-mir-617 ; hsa-mir-499b-5p ; hsa-mir-6507-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-1254 ; hsa-mir-1910-3p ; hsa-mir-2114-3p ; hsa-mir-2467-3p ; hsa-mir-3116 ; hsa-mir-3202 ; hsa-mir-3714 ; hsa-mir-377-5p ; hsa-mir-4252 ; hsa-mir-4257 ; hsa-mir-4533 ; hsa-mir-455-3p ; hsa-mir-5694 ; hsa-mir-605-3p ; hsa-mir-6086 ; hsa-mir-6499-3p ; hsa-mir-6511a-5p ; hsa-mir-6516-5p ; hsa-mir-6807-5p ; hsa-mir-6823-3p
Nearest miRNA
hsa-mir-10b/Upstream/7174068; hsa-mir-1244-1/Downstream/10475977;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/135520, chr2-CpG: 138/Downstream/285411
Upstream sequence
TAAGTCCAAAAATATTGTAGCTGTAAAAATGTGGGTGATTCTACCTTCAGAAACTGTGCTTTTTGTGTTGGTGGAGAAAAATGCATGAACTAAGACTAAA
Downstream sequence
ATTCCAGCAGCATTTAAGAGATGGGACTCAACTGCTCCCCAAGAGTCTAGAACTTTTCACTATCTTCTCAGCTTCAACTATTTCCTCCTCCAACCCCCAT
Target sequence
TTGGTATTTTCCTCAGGCCTCTCATTGGTCATGGTTCTGCGGATACTCTGATATCTAAAATCATGAGCCTAGAGTTAC
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.