Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016047
Fusion event
HBV-ZKSCAN1 integration
Validated
Yes
Detection method
LM PCR
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
1791
Orient
+
Host Sequence
Chromosome
chr7
Cytoband
q22.1
Reference genome
End
99618017/100020394 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-7154-5p ; hsa-mir-8060 ; hsa-mir-5571-5p ; hsa-mir-6869-5p ; hsa-mir-1200 ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-6789-3p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-3653-5p ; hsa-mir-544b ; hsa-mir-4324 ; hsa-mir-660-3p ; hsa-mir-4438 ; hsa-mir-6509-5p ; hsa-mir-6836-3p ; hsa-mir-5001-3p ; hsa-mir-4772-3p ; hsa-mir-6778-3p ; hsa-mir-8057 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-2116-3p ; hsa-mir-1304-3p ; hsa-mir-1281 ; hsa-mir-4485-5p ; hsa-mir-4716-5p ; hsa-mir-6890-3p ; hsa-mir-6802-5p ; hsa-mir-6800-5p ; hsa-mir-572 ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-1306-5p ; hsa-mir-4465 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-6513-3p
Nearest miRNA
hsa-mir-10525/Upstream/611130; hsa-mir-10399/Downstream/73166;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/4220, chr7-CpG: 81/Downstream/60751
Upstream sequence
atatatatatttatcaaaacatcatattctataccttaaatatataaaatAAAGATACATTTTTGAAATGGAAACAAAACTAACAAAAAGTTGGGAATAC
Downstream sequence
TAACTGCAAGGCTGTAGAGTTTTAGAAAGAATAATCTGAAAGGTGGATTGTGGGAGAGAAGGGAGAAAATGAAGGCAGGGAACCAAAGAAAGGAAGCTGG
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.