Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007088
Fusion event
HBV-KMT2B integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Not given
Start
1341
End
1484
Orient
+
Host Sequence
Chromosome
chr19
Cytoband
q13.12
Reference genome
Start
End
36213281/35722379 (Hg38)
Orient
+
Location type
Exon
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-7515 ; hsa-mir-302a-5p ; hsa-mir-3154 ; hsa-mir-6782-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-5692a ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-20b-5p ; hsa-mir-153-3p ; hsa-mir-1224-3p ; hsa-mir-1294 ; hsa-mir-1914-3p ; hsa-mir-214-3p ; hsa-mir-31-5p ; hsa-mir-3184-5p ; hsa-mir-3619-5p ; hsa-mir-3689d ; hsa-mir-423-5p ; hsa-mir-4316 ; hsa-mir-4426 ; hsa-mir-4440 ; hsa-mir-4459 ; hsa-mir-4647 ; hsa-mir-4662b ; hsa-mir-4688 ; hsa-mir-4722-5p ; hsa-mir-5194 ; hsa-mir-6085 ; hsa-mir-6165 ; hsa-mir-6734-5p ; hsa-mir-6738-5p ; hsa-mir-6743-5p ; hsa-mir-6789-5p ; hsa-mir-6813-5p ; hsa-mir-6851-5p ; hsa-mir-761 ; hsa-mir-7704 ; hsa-mir-885-3p
Nearest miRNA
hsa-mir-10395/Upstream/376752; hsa-let-7e/Downstream/3687244;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/2355, chr19-CpG: 24/Downstream/1347
Upstream sequence
ggcatcagccaccacacccagcTCCCTGTCCCTATCTTTCCTCACTGTCCAGCCCCTGACCCTGTTTATTCCCTGCCAGCTGAGCCCTGGAGGGCAGATG
Downstream sequence
GAGGAGGTGGCCGGGGCTGTCAAGCAGATCTCCGACAGAGGCCCTGTCCGGTCTGAAGATGAGTCGGTGGAAGCTAAGAGAGAGCGGCCCTCAGTATGCA
Reference
Kawai-Kitahata, F., et al. Comprehensive analyses of mutations and hepatitis B virus integration in hepatocellular carcinoma with clinicopathological features. J Gastroenterol ,2016,51(5): 473-486.