Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019765
Fusion event
HBV-KMT2B integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
2071
Integrated sequence
TTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTGCACTCAGGC| |AAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAA
Host Sequence
Chromosome
chr19
Cytoband
q13.12
Reference genome
Start
End
36212652/35721750 (Hg38)
Location type
Exon3
Fragile sites / regions
Target gene
miRNAs that regulate target gene
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/376123; hsa-let-7e/Downstream/3687873;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1726, chr19-CpG: 24/Downstream/1976
Upstream sequence
gtgcctataatctcagctactctacttgggaggctgaggcgggagaatcggttgaaccctggaagtggaagttgcagtaagccgagatcccaccactgta
Downstream sequence
CAGCTATTCAAGATCGATCAGCAGCAGCAGCAGAAGGTGGCAGCTTCCATGCCGGTGAGTGTGGTCCCTGGGCCCAGCGGCACACCCAGCCATCCAGCCT
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