FN1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015319
Fusion event
HBV-FN1 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23740984
Virus Sequence
Virus name
HBV
Reference genome
Not given
Region type
HBVgp2_Sprotein
Start
386
Host Sequence
Chromosome
chr2
Cytoband
q35
Reference genome
GRCh37/hg19
Start
216279398/215414675 (Hg38)
End
216279398/215414675 (Hg38)
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/1656516; hsa-mir-1244-1/Downstream/2485838;
Nearest TSS
ENST00000437798/Upstream/4725; ENST00000412951/Downstream/6595;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/102266, chr2-CpG: 43/Downstream/20869
Upstream sequence
TCTGTAACATAAAGAGCTAAATTCTTCCAAATACCAGCCCCCCCACCGCAAAAAAACAAAACCCAAAACCAAAACCAAAATCCCCTCAGTCTACAAGTCA
Downstream sequence
ATTTAATTGACCACATATTGTTTGTTCACTAAACAAATATAGTAAATGCTATAGGAATAGTTAATCAGAGTTGTTGGCTCAAAAGCTGGGAAAAAAAGAA
Reference
Khoury, J. D., et al. Landscape of DNA virus associations across human malignant cancers: analysis of 3,775 cases using RNA-Seq. J Virol,2013, 87(16): 8916-8926.
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