CALD1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005154
Fusion event
HBV-CALD1 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
2136
Orient
-
Integrated sequence
AACATTGTTCACCTCACCATACAGCACTCAGGCAAGCTATTCTGTGTTGGGGTGAGTTGATGAATCTGGCCACCTGGGTGGGAAGTAATTTGGAAGACCC| |AGCATCCAGGGAATTAGTAGTCAGCTATGTCAATGTTAATATGGGCCTAAAAATCAGACAACTATTGTGGTTTCACATTTCCTGTCTTACTTTTGGAAGA
Host Sequence
Chromosome
chr7
Cytoband
q33
Reference genome
GRCh37/hg19
Start
134645618/134960867 (Hg38)
End
134645618/134960867 (Hg38)
Orient
+
Location type
Intron
Target gene
CALD1
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-34a-5p ; hsa-mir-21-5p ; hsa-mir-149-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-mir-10525/Upstream/1669879; hsa-mir-10399/Downstream/246127;
Nearest TSS
ENST00000635602/Upstream/336; ENST00000480638/Downstream/4344;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/501556, chr7-CpG: 63/Downstream/25501
Upstream sequence
GCCACTGGTGAAATGCTATTGAAGTTCAAAAGACCCAGATAAGGTATGCAGAGCCCTGGGCTGGAAGTGAATTCAACAGTGATGATAACTATGGCTGTGG
Downstream sequence
CAGCTAGAATACTGAGGCAGTTCAAATTTAGATCCTTTACTCGTCTATTTGTTTAGCTTCTATTCTATAAATTCTGGATAGAAATTTGAAAATGAAAGGT
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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