Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018442
Fusion event
HBV-RGS17 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1788
Integrated sequence
CGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAG| |GCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTG
Host Sequence
Chromosome
chr6
Cytoband
q25.2
Reference genome
End
153345924/153024789 (Hg38)
Location type
Intron2
Target gene
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-32-5p ; hsa-mir-203a-3p ; hsa-mir-410-3p ; hsa-mir-4524a-3p ; hsa-mir-551b-5p ; hsa-mir-222-5p ; hsa-mir-4635 ; hsa-mir-3129-5p ; hsa-mir-199b-3p ; hsa-mir-199a-3p ; hsa-mir-936 ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-3973 ; hsa-mir-5007-5p ; hsa-mir-1264 ; hsa-mir-498 ; hsa-mir-6836-3p ; hsa-mir-5001-3p ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-6821-3p ; hsa-mir-1304-3p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-660-3p ; hsa-mir-6736-3p ; hsa-mir-6890-3p ; hsa-mir-6809-3p ; hsa-mir-6868-3p ; hsa-mir-4753-3p ; hsa-mir-508-3p ; hsa-mir-942-5p ; hsa-mir-130b-5p ; hsa-mir-10a-3p ; hsa-mir-4279 ; hsa-mir-514b-5p ; hsa-mir-513c-5p ; hsa-mir-4465 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6727-3p ; hsa-mir-6747-3p ; hsa-mir-4722-3p ; hsa-mir-5697 ; hsa-mir-6877-3p ; hsa-mir-6819-3p ; hsa-mir-562
Nearest miRNA
hsa-mir-10398/Upstream/1922013; hsa-mir-1202/Downstream/1828571;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/21604, chr6-CpG: 164/Downstream/105193
Upstream sequence
ACACCAGGCAGTTCTTCACTGGAGATGTCTGTGAGTCATCCTCTCAAGAGGAATGCCCCCTTCTTGCCAAGTCAGATTTGCTTCTTTTATACAGAGGCTT
Downstream sequence
AGCTTGGAAATGTTCAAACTTTAACAATGTGTTGCAAGTTGATAGAAACTGTCTGTAAGTGACTAAGGACAACATGAATTTTTTCTTTGCCTCTAATCAG
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.