TPK1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019833
Fusion event
HBV-TPK1 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
1799
Integrated sequence
GAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGG| |TCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGG
Host Sequence
Chromosome
chr7
Cytoband
q35
Reference genome
GRCh37.55
Start
144190867/144493774 (Hg38)
End
144190867/144493774 (Hg38)
Location type
Intron1
Target gene
TPK1
miRNAs that regulate target gene
hsa-mir-3064-3p ; hsa-mir-4704-3p ; hsa-mir-4717-3p ; hsa-mir-371a-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548t-5p ; hsa-mir-548az-5p
Nearest miRNA
hsa-mir-10399/Upstream/1110974; hsa-mir-153-2/Downstream/2884243;
Nearest TSS
ENST00000635602/Upstream/83547; ENST00000637105/Downstream/152340;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/89727, chr7-CpG: 66/Downstream/341895
Upstream sequence
ggcacaaacacacacattagcttaggcctacacatggtcaggatcatgaatttcattgtcttccacctccataccttttcccgctggaagttcttcaggg
Downstream sequence
tcaaaccttaactcatcatttataaaaataaattcaagatgtatcatggatctacatgtaagagcaaaaactataacatttccagaagaaacataagaaa
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