Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016122
Fusion event
HBV-SFTPD integration
Validated
No
Detection method
WGS
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
200
Orient
+
Integrated sequence
AGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCCGACTTCTTTCCTTCTATTCGAGATCTTCTCGACACCGCCTCTGCTCTGTATCGGGAG| |GCCTTAGAGTCTCCGGAACATTGTTCACCTCACCATACGGCACTCAGGCAAGCTATTCTGTGTTGGGGTGAGTTGATGAATCTAGCCACCTGGGTGGGAA
Host Sequence
Chromosome
chr10
Cytoband
q22.3
Reference genome
Start
End
81710117/79950361 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-1265/Upstream/4397808; hsa-mir-107/Downstream/6314333;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/45041, chr10-CpG: 110/Downstream/31111
Nearby gene
SFTPD(-1256) ; TMEM254-AS1(+95871) ;
Upstream sequence
AGATGTCTTGATGTTTAGGAGAAGAAATTCAAGTGGCAATAAAATGTAAACAACGATATTTATGGGAAAAGCAATAGTAATGATCAATTTTAATGCAAGC
Downstream sequence
ATCTGTGAGACCAGAAGTTGGGGCAACACAAATGATTTATAGACAAAGGTATGGCAAGTGCAAACTAATTTGTGAAGGGAGCTATCTTTGAAACGGAACC
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.