HSPA12A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011232
Fusion event
HBV-HSPA12A integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
Polymerase|
Start
2534
Orient
+
Integrated sequence
CTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTCATTGGAAAA| |CACCATCTTTTCCTAATATACATTTACACCAAGACATTATCAAAAAATGTGAACAGTTTGTAGGCCCACTCACAGTTAATGAGAAAAGAAGATTGCAATT
Host Sequence
Chromosome
chr10
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
118484200/116724689 (Hg38)
End
118484200/116724689 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
HSPA12A
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-339-5p
Nearest miRNA
hsa-mir-107/Upstream/2550510; hsa-mir-202/Downstream/102799;
Nearest TSS
ENST00000439456/Upstream/16443; ENST00000512864/Downstream/17885;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/54347, chr10-CpG: 200/Downstream/16668
Upstream sequence
AGTGTGGGGTCCTGGCTGTTTCCTCCTTTCTTGCTTTGGATAATATTTCCTATAGTAAACACGTAAGTCTTCTGTCATGAGAACCAAAGCTGTCTCAGGT
Downstream sequence
TTTACCCAAAACCTTCCCAGGACAGTGTGGGGCAGAGGAGACAAGTGAGTGACGCCTCCTGTCCCTTCCTGTGGCCTCACTGGGTGCCCTGCGGCCCAGA
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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