NEUROD4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012025
Fusion event
HBV-NEUROD4 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
precore/core protein|Core and e antigen|Polymerase|
Start
2450
Orient
+
Integrated sequence
GACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATG| |TTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTCATTGGAAAACACCATCTTTTCCTAA
Host Sequence
Chromosome
chr12
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
55414608/55020824 (Hg38)
End
55414608/55020824 (Hg38)
Orient
-
Location type
Intronic
Target gene
NEUROD4
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/683510; hsa-let-7i/Downstream/2173680;
Nearest TSS
ENST00000382841/Upstream/879; ENST00000641374/Downstream/105582;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/432017, chr12-CpG: 33/Downstream/625380
Upstream sequence
TAGGGCTATGCAAGGACGGAGGGGGAGGCAGGGAAAGGAAAACAGAATGAGGAATCAGAGAAGATTGTGGAAAATCCTCGGGGTAGATTCTCACCATTAA
Downstream sequence
CTATTTTGTTTACTAAAAATGCTTGAATAGTTGGCACAGGGTGGGGGAAATTTCCTTTTCCTCAGCTCTTTCAGATGGGAAATTAGAAGAAAAAGATTGT
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