COL28A1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016505
Fusion event
HBV-COL28A1 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
399
End
434
Orient
-
Integrated sequence
ATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTC
Host Sequence
Chromosome
chr7
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
7522264/7482633 (Hg38)
End
7522299/7482668 (Hg38)
Orient
+
Location type
Intronic
Target gene
COL28A1
Nearest miRNA
hsa-mir-339/Upstream/415588; hsa-mir-10399/Downstream/10644552;
Nearest TSS
ENST00000635602/Upstream/45198; ENST00000433056/Downstream/37405;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/299290, chr7-CpG: 85/Downstream/84073
Upstream sequence
ACTTCTGAAGCCTGGTAAGGAGAAGAAAGGAGCCCTACATTTCTATACTTGGAAAGGACCTGAAGTTCATAATAAACTTTGTGACTCAGTGTTAGGAAAA
Downstream sequence
AAAGCAAGCAAGCAAGCAAgaatttcatgttctggtaatattgttaaaaactctcaactacaaacagttagaaagacaggtaatatacgttttttaagat
Target sequence
TCCCAATTAAGTATAACTCTGTAATTATGACTTGG
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
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