LARP1B _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018893
Fusion event
HBV-LARP1B integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1631
Integrated sequence
CTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCC| |ACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGA
Host Sequence
Chromosome
chr4
Cytoband
q28.2
Reference genome
GRCh37.55
Start
129084084/128162929 (Hg38)
End
129084084/128162929 (Hg38)
Location type
Intron12
Target gene
LARP1B
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-423-3p
Nearest miRNA
hsa-mir-12113/Upstream/2655622; hsa-mir-1305/Downstream/15180531;
Nearest TSS
ENST00000502981/Upstream/40812; ENST00000508648/Downstream/16385;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/100606, chr4-CpG: 133/Downstream/124213
Upstream sequence
GAAACTTTGTGGGTCAATAGAAGTTAGCAGTTAATTTTCTACAAATCATCCTCAGGGTAAAGTGAGTCATATTCTGTTTCCGCAGGGTGCTCTGGTCTGA
Downstream sequence
aatcacatgattcatatttttttgtccttaaagatttctgtatgtgtctttaaaaagataagggctatatcttttaacacataaatagcaggacattatc
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.
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