CHL1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006404
Fusion event
HBV-CHL1 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
1826
Integrated sequence
GTCGTCCGCAGGATTCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGCCATGGAAACGATGTATAT| |TTGCGGGATAGGACAACAGAGTTATCAGTCCCGATAATGTTTGCTCCAGACCTGCTGCGAGCAAAACAAGCGGCTAGGAGTTCCGCAGTATGGATCGGCA
Host Sequence
Chromosome
chr3
Cytoband
p26.3
Reference genome
GRCh38
Start
311592 (Hg38)
End
311592 (Hg38)
Location type
Intron
Target gene
CHL1
miRNAs that regulate target gene
hsa-mir-10a-5p ; hsa-mir-335-5p ; hsa-mir-132-3p ; hsa-mir-181a-5p ; hsa-mir-590-5p ; hsa-mir-182-5p
Nearest miRNA
hsa-let-7g/Downstream/4938585;
Nearest TSS
ENST00000440867/Upstream/94057; ENST00000461289/Downstream/8091;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/2382, chr3-CpG: 182/Downstream/1786753
Nearest cancer related gene
CHL1(OG, No orient, 0)
Junction sequence
TCACCTGGAGGAGAGATAGCATTGAAAAGTTGCATGGGCTGGTG
* 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