FDPS _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006324
Fusion event
HBV-FDPS integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
27453547
Virus Sequence
Virus name
HBV
Reference genome
V01460.1
Start
1760
Integrated sequence
CCCCGTGGTCGGTCGGAACGGCAGACGGAGAAGGGGACGAGAGAGTCCCAAGCGACCCCGAGAAGGGTCGTCCGCAGGATTCAGCGCCGACGGGACGTAA| |ACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGCCATGGAAACGATGTATATTTGCGGGATAGGACAACAGAGTTATCAGTCCCGA
Host Sequence
Chromosome
chr1
Cytoband
q22
Reference genome
GRCh38
Start
155314931 (Hg38)
End
155314931 (Hg38)
Location type
Intron
Target gene
FDPS
miRNAs that regulate target gene
hsa-mir-30c-2-3p ; hsa-let-7e-5p
Nearest miRNA
hsa-mir-101-1/Upstream/119659; hsa-mir-1182/Downstream/31419;
Nearest TSS
ENST00000473358/Upstream/5946; ENST00000492887/Downstream/3244;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/5979, chr1-CpG: 34/Downstream/5884
Nearest cancer related gene
FDPS(OG, No orient, 0)
Upstream sequence
TGGTGGTGGCTGAAACAAGATTGTC
Junction sequence
TGGTGGTGGCTGAAACAAGATTGTCATCTAATCTCCTCCCCCAAC
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.
Curate