Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016036
Fusion event
HBV-DAAM2 integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1825
Orient
-
Host Sequence
Chromosome
chr6
Cytoband
p21.2
Reference genome
Start
End
39784989/39817213 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-19b-3p ; hsa-mir-18a-5p ; hsa-mir-335-5p ; hsa-mir-4707-3p ; hsa-mir-7108-3p ; hsa-mir-589-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-943 ; hsa-mir-4439 ; hsa-mir-3136-5p ; hsa-mir-4711-5p ; hsa-mir-7112-3p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-6752-3p ; hsa-mir-4793-5p ; hsa-mir-5196-3p
Nearest miRNA
hsa-mir-1236/Upstream/742832; hsa-mir-10398/Downstream/1781510;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/24563, chr6-CpG: 17/Downstream/84590
Upstream sequence
tggttcaattttctgaaataatttttcaactctatcttcctaaccttgcattaaagtactgttttattcaattataaattgaattttccaaagttcttgc
Downstream sequence
AGGCCAGGATCAAAATCCTTTTATGATTCTATTACTTTTCTGGGTTTCTCTCCTTGCCCCCTAATGTCTTAAATCTAAGATAAACAATGAGCACTtcagt
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.