FN1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019822
Fusion event
HBV-FN1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
457
Integrated sequence
ACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTATC| |AAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGACCTGCATGACTACTGCTCAAGGAACCTCTATGTA
Host Sequence
Chromosome
chr2
Cytoband
q35
Reference genome
GRCh37.55
Start
216299409/215434686 (Hg38)
End
216299546/215434823 (Hg38)
Location type
Exon45
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/1676527; hsa-mir-1244-1/Downstream/2465690;
Nearest TSS
ENST00000437798/Upstream/13416; ENST00000412951/Downstream/1244;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/122277, chr2-CpG: 43/Downstream/721
Upstream sequence
gttacagatttgctacccgaaagaaccttaataggcttgagaaatcagccagattagtacgacaaaattaatttgagccaaatgtaaacacatgcactta
Downstream sequence
GCTGCAAATAATTGAAGGAAAACGTTACATTTGCATTTCTCCTTTTCCCAAAATTATGGAATTTTCTTCATGTGAATATTGACGTACATATTTTTTTCCT
Target sequence
GTCACTTACCTTCAGGTTTACTCTCGCAGTTAAAACCTCGGCTTCCTCCATAACAAGTACAAACCAACGCATTGCCTAGGTAGGTCCGCTCCCACTGTTGATTTATCTGATAGTGTTTTCCATTGTCATAACAACCG
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
Curate