BBS2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015096
Fusion event
HBV-BBS2 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
HBVgp4 precore/core protein
Start
2196
Orient
+
Integrated sequence
AATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGG| |CAACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTT
Host Sequence
Chromosome
chr16
Cytoband
q13
Reference genome
GRCh37/hg19
Start
56539306/56505394 (Hg38)
End
56539306/56505394 (Hg38)
Orient
-
Location type
Intronic
Target gene
BBS2
miRNAs that regulate target gene
hsa-mir-433-3p ; hsa-mir-7154-5p
Nearest miRNA
hsa-mir-1225/Upstream/259771; hsa-mir-11401/Downstream/353124;
Nearest TSS
ENST00000527434/Upstream/3588; ENST00000219162/Downstream/769;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/53532, chr16-CpG: 59/Downstream/14223
Upstream sequence
AAGGTGCTAGAGAAAAGTAAAGATAAATCAAAGAAGAAAAGATAAGAATTTGCTGATCCCCTTCAGGCAATCCAACACTGACAGACAAGAAAGCGAGGGC
Downstream sequence
AAATGGTATCCATGGAGATCTGGCAGCTACCTAGGCAGCTTCTAAGAAGACAATCCTGACTTGCCAAAAGACTGTAAAAAATTCTGATTTGAAGTTAAAA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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