DSCAM _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008897
Fusion event
HBV-DSCAM 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
S protein|Polymerase|large S protein|middle S protein|
Start
654
Orient
+
Integrated sequence
GTATCCCTCCTGTTGCTGTACCAAACCTTCGGACGGAAATTGCACCTGTATTCCCATCCCATCATCCTGGGCTTTCGGAAAATTCCTATGGGAGTGGGCC| |TCAGCCCGTTTCTCCTGGCTCAGTTTACTAGTGCCATTTGTTCAGTGGTTCGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGTTATATGGATGATGTGGT
Host Sequence
Chromosome
chr21
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
41839921/40467994 (Hg38)
End
41839921/40467994 (Hg38)
Orient
+
Location type
Intronic
Target gene
DSCAM
Nearest miRNA
hsa-let-7c/Upstream/255563; hsa-mir-3197/Downstream/699563;
Nearest TSS
ENST00000624081/Upstream/84911; ENST00000433378/Downstream/379145;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/284962, chr21-CpG: 34/Downstream/373590
Upstream sequence
ttttattccaaaataagatagctacaaagattaaccaaaaaaaaaaaaaaaaaaaaactacatagctccctcacaatttgcccactaggaaattccttgc
Downstream sequence
gggccccaagatctttaccctaaaatagttctgttgcatttcaccctgacgagataaattgatagcttatcttcacaggtgcgggacgaaggacagaact
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