PMPCB _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007325
Fusion event
HBV-PMPCB integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
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
2575
Orient
-
Integrated sequence
GGGGAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTCATTGGAAAACACCATCTTTTCCTAATATACATTTACACCAAGACATTATC| |AAAAAATGTGAACAGTTTGTAGGCCCACTCACAGTTAATGAGAAAAGAAGATTGCAATTGATTATGCCTGCCAGGTTTTATCCAAAGGTTACCAAATATT
Host Sequence
Chromosome
chr7
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
102946298/103305851 (Hg38)
End
102946298/103305851 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA7F
Target gene
PMPCB
miRNAs that regulate target gene
hsa-mir-218-5p
Nearest miRNA
hsa-mir-10525/Upstream/834320; hsa-mir-10399/Downstream/11347494;
Nearest TSS
ENST00000635602/Upstream/8394; ENST00000469560/Downstream/4727;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/24784, chr7-CpG: 40/Downstream/38559
Upstream sequence
gaaaaagatactttctagtttttatctgaagatatttcctttttcaccattggcctcaatgcactcagaaatatcacttcggagattcttcaaaaacagt
Downstream sequence
CCTTGGAAATGGGACAAGAGACTTGTTAGATGGGTCCTCAACAACCAAGCTTTCTGGGACCTCTCTGCCATTGTTGGTGGCATGTGGACAAAATGAGTTT
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.
Curate