Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018098
Fusion event
HBV-chr19 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
461
Host Sequence
Chromosome
chr19
Cytoband
q13.12
Reference genome
Start
End
36212708/35721806 (Hg38)
Location type
Intronic
Fragile sites / regions
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-7515 ; hsa-mir-302a-5p ; hsa-mir-3154 ; hsa-mir-6782-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-5692a ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-20b-5p ; hsa-mir-153-3p ; hsa-mir-1224-3p ; hsa-mir-1294 ; hsa-mir-1914-3p ; hsa-mir-214-3p ; hsa-mir-31-5p ; hsa-mir-3184-5p ; hsa-mir-3619-5p ; hsa-mir-3689d ; hsa-mir-423-5p ; hsa-mir-4316 ; hsa-mir-4426 ; hsa-mir-4440 ; hsa-mir-4459 ; hsa-mir-4647 ; hsa-mir-4662b ; hsa-mir-4688 ; hsa-mir-4722-5p ; hsa-mir-5194 ; hsa-mir-6085 ; hsa-mir-6165 ; hsa-mir-6734-5p ; hsa-mir-6738-5p ; hsa-mir-6743-5p ; hsa-mir-6789-5p ; hsa-mir-6813-5p ; hsa-mir-6851-5p ; hsa-mir-761 ; hsa-mir-7704 ; hsa-mir-885-3p
Nearest miRNA
hsa-mir-10395/Upstream/376178; hsa-let-7e/Downstream/3687817;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1781, chr19-CpG: 24/Downstream/1920
Upstream sequence
ACCCTGTCACCCTGCAGAACCTCCACACATGGAACTCATCCCTGCTGGACCTGGAGACGCTGAGCCTACAGAGCAGAGCTGCCAGGCTGCTCAAACGCAG
Downstream sequence
GAGTGTGGTCCCTGGGCCCAGCGGCACACCCAGCCATCCAGCCTCCATTCTTTGCAACCCCCTAACCTTCCGCCTCCTTGGACACTTTCCAGCATTGCGG
Target sequence
T
Reference
Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13