GLDN _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018850
Fusion event
HBV-GLDN integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1821
Integrated sequence
TGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAA| |CTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATA
Host Sequence
Chromosome
chr15
Cytoband
q21.2
Reference genome
GRCh37.55
Start
51646592/51354395 (Hg38)
End
51646592/51354395 (Hg38)
Location type
Intron1
Target gene
GLDN
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-218-5p ; hsa-mir-5682 ; hsa-mir-636 ; hsa-mir-4720-3p ; hsa-mir-4804-3p ; hsa-mir-6804-3p ; hsa-mir-7157-3p ; hsa-mir-6737-3p ; hsa-mir-5008-3p ; hsa-mir-1914-5p ; hsa-mir-103b ; hsa-mir-6871-3p ; hsa-mir-29c-3p ; hsa-mir-29b-3p ; hsa-mir-29a-3p
Nearest miRNA
hsa-mir-10393/Upstream/40286; hsa-mir-11181/Downstream/922722;
Nearest TSS
ENST00000557528/Upstream/12449; ENST00000561194/Downstream/5859;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/12274, chr15-CpG: 109/Downstream/267575
Upstream sequence
atcccagcagtttgggaggccgaggcaggcagattgcttgcggccaggagttcgagaccagcctggccaacacggcgaaaccctgtctctactaaaaata
Downstream sequence
TGGGGACCTTGGAATCAGTCTCTAAACAGGAAGACCTTTAGAGGAAAATCCTTCACAGTGACTGTGTGGAAAGCATGGGGGCACTGAAGAAGAGAGAAAA
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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