XYLB _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018429
Fusion event
HBV-XYLB integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1825
Integrated sequence
TAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTT| |TTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGA
Host Sequence
Chromosome
chr3
Cytoband
p22.2
Reference genome
GRCh37.55
Start
38420206/38378715 (Hg38)
End
38420207/38378716 (Hg38)
Location type
Intron14
Target gene
XYLB
miRNAs that regulate target gene
hsa-mir-8081 ; hsa-mir-4452 ; hsa-mir-183-3p ; hsa-mir-889-3p
Nearest miRNA
hsa-mir-12127/Upstream/409235; hsa-let-7g/Downstream/759490;
Nearest TSS
ENST00000440867/Upstream/1794; ENST00000465020/Downstream/75135;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/31437, chr3-CpG: 213/Downstream/74881
Upstream sequence
TACAAAGGTCCTTTGAAACGGATCTAATTTGACTCCACAAAAGAATAGTAAGAGTTGTGAACAACCATCTTGCAAGTGTAGATATCCCCAGCGTATCAAC
Downstream sequence
TGCCAGAGAAGCAGGAGTGAGCCTGGGGTTGATGCCCATCAGTGCTAGCTTGAAGGACATGCCACAGGGGTGGGATCTCAGCGTAAGCTCGTGGCTCTCA
Target sequence
G
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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