TF _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018722
Fusion event
HBV-TF 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
424
End
715
Integrated sequence
GCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGACCTGCATGACTACTGCTCAAGGAACCTCTATGTATCCCTCCTGTTGCTGTACCAAACCTTCGGACGGAAATTGCACCTGTATTCCCATCCCATCATCCTGGGCTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTT
Host Sequence
Chromosome
chr3
Cytoband
q22.1
Reference genome
GRCh37.55
Start
133467250/133748406 (Hg38)
End
133467428/133748584 (Hg38)
Location type
Exon2
Target gene
TF
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-19a-3p
Nearest miRNA
hsa-let-7g/Upstream/1762475; hsa-mir-1224/Downstream/619220;
Nearest TSS
ENST00000440867/Upstream/266; ENST00000462495/Downstream/17694;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/1830, chr3-CpG: 35/Downstream/35133
Upstream sequence
TGAATGGTTTTGGGACTGATGTGGGGGCCCCATATTGGCTCACTCATTTCTTCAAGCAACACTGACACAACATTTCTTCAGCGCAGCAGATTTTACATAa
Downstream sequence
GTAAGTCGCTGCTGCCTAAAAGAGAGTGGAAGAAAGCCATACTTTCTCTGTTTCCAGTCACTTTGGAACAATTCTTTACTCACAGGTAGGAGGCTGATAT
Target sequence
CCCAGGGCTGTGTCTGGCTGTCCCTGATAAAACTGTGAGATGGTGTGCAGTGTCGGAGCATGAGGCCACTAAGTGCCAGAGTTTCCGCGACCATATGAAAAGCGTCATTCCATCCGATGGTCCCAGTGTTGCTTGTGTGAAGAAAGCCTCCTACCTTGATTGCATCAGGGCCATTGCG
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.
Curate