Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014864
Fusion event
HBV-FRAS1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1808
Integrated sequence
CAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCA| |GCACCATGCAACTTTTTCCCCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACAT
Host Sequence
Chromosome
chr4
Cytoband
q21.21
Reference genome
Start
End
79048012/78126858 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-12113/Upstream/1551232; hsa-mir-1243/Downstream/4626479;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/67602, chr4-CpG: 34/Downstream/54888
Upstream sequence
TCCCCTGAAAGGCAGCAGAGGAACAGAAAAACAAGGGGGTTTGCTGTGATGAGACCCGCACCGTCTGCGTTCAGGAAGCCAGGGCCTTCTGCTGCTAGAG
Downstream sequence
TTTTAGTCAGTTTTTGTTCCAATTACAAGCAGATTAGTGGAACCTTGATGTGATAGCCTGAAGATAATGAAGTCACTCAGAATAAGCCCCAACCATTTat
Reference
Fujimoto, A., et al. Whole-genome sequencing of liver cancers identifies etiological influences on mutation patterns and recurrent mutations in chromatin regulators. Nat Genet,2012, 44(7): 760-764.