FAM135B _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013802
Fusion event
HBV-FAM135B 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
precore/core protein|
Start
1859
Orient
+
Integrated sequence
TTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCC| |TACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTG
Host Sequence
Chromosome
chr8
Cytoband
q24.23
Reference genome
GRCh37/hg19
Start
139457541/138445298 (Hg38)
End
139457541/138445298 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM135B
miRNAs that regulate target gene
hsa-mir-6823-3p ; hsa-mir-2114-3p ; hsa-mir-615-3p ; hsa-mir-361-3p
Nearest miRNA
hsa-mir-1204/Upstream/3640353; hsa-mir-10400/Downstream/2287266;
Nearest TSS
ENST00000518652/Upstream/19783; ENST00000518354/Downstream/14267;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/2987199, chr8-CpG: 119/Downstream/51254
Upstream sequence
aatgtaactttcctttaaatcccggccttaagtgtcctgggaaaacgtgtgtgacaTAGACAAGTGTTAGTTtctgtgattgattgagctggctggagct
Downstream sequence
tttatgaggccagcatcattctgataccaaagcctggcagagacacaacaaaaaaagagaattttagaccaatatccttgatgaacattgatgcaaaaat
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.
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