FN1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016298
Fusion event
HBV-FN1 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
51
End
63
Orient
+
Integrated sequence
TATTTCCCTGCTG
Host Sequence
Chromosome
chr2
Cytoband
q35
Reference genome
GRCh37/hg19
Start
216259327/215394604 (Hg38)
End
216259389/215394666 (Hg38)
Orient
+
Location type
Intronic
Target gene
FN1
miRNAs that regulate target gene
hsa-mir-200c-3p ; hsa-mir-200b-3p ; hsa-mir-1-3p ; hsa-let-7g-5p ; hsa-mir-26b-5p ; hsa-mir-615-3p ; hsa-mir-218-5p ; hsa-mir-140-3p
Nearest miRNA
hsa-mir-10b/Upstream/1636445; hsa-mir-1244-1/Downstream/2505847;
Nearest TSS
ENST00000437798/Upstream/883; ENST00000412951/Downstream/15284;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/82195, chr2-CpG: 43/Downstream/40878
Upstream sequence
TAAGAAACAGATAGATCAGGCCTAAGTACTATTATAATGAGTCAACGATACATTTGTATGAATTACAAGAATATTATAATGAATCACGGGCTAAGTATAC
Downstream sequence
ATTTCCCTGCTGGCCGTTTGTAGGGGTTGTGGTAATTCTATAACCAGTAATGTCTGGAGAAAAAAGAAAAGGGAAGTTATTGCACAGAGGATCTGTGAGC
Target sequence
CCGGGACTCAGGTTATCAAAAGTGCAGGAGCTCTGATCAGCATGGACCACTTCTTCCAAAGA
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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