RORC _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018793
Fusion event
HBV-RORC integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1774
Integrated sequence
CTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTA| |CTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTC
Host Sequence
Chromosome
chr1
Cytoband
q21.3
Reference genome
GRCh37.55
Start
151782199/151809723 (Hg38)
End
151782199/151809723 (Hg38)
Location type
Intron1
Fragile sites / regions
FRA1F
Target gene
RORC
miRNAs that regulate target gene
hsa-mir-30b-3p ; hsa-mir-335-5p ; hsa-mir-148b-3p ; hsa-mir-26b-5p ; hsa-mir-1236-3p
Nearest miRNA
hsa-mir-101-1/Upstream/263832; hsa-mir-1182/Downstream/1879982;
Nearest TSS
ENST00000473358/Upstream/3569; ENST00000434182/Downstream/5066;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/18192, chr1-CpG: 143/Downstream/28261
Upstream sequence
GTAACTTTCTCTAATATTTCATTTTTCTTCCATCTGCTGCTCACTAGATCATGACAGCCTCAGTGTCTTGTTCAGGATTTGCTTGGAAACTAGGTGAAGA
Downstream sequence
AAGATAAAAGCCAACAATTGAGCAAGCATGTAGATTGCCTTTGTTTGGATTCTCAAGTTCTCTCTGGGTGCAGCCATGTTCACCCCAAGTCCATGCCCCT
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.
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