Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018275
Fusion event
HBV-FAM83C integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1719
Host Sequence
Chromosome
chr20
Cytoband
q11.22
Reference genome
Start
End
33882424/35294621 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-6867-5p ; hsa-mir-3682-3p ; hsa-mir-1272 ; hsa-mir-580-5p ; hsa-mir-545-3p ; hsa-mir-451b ; hsa-mir-512-5p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-4664-3p ; hsa-mir-1180-3p ; hsa-mir-4497 ; hsa-mir-6807-5p ; hsa-mir-526b-5p ; hsa-mir-3177-5p ; hsa-mir-1233-3p ; hsa-mir-1225-3p ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-3650
Nearest miRNA
hsa-mir-103a-2/Upstream/304124; hsa-mir-1-1/Downstream/159333;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/2209, chr20-CpG: 41/Downstream/139588
Upstream sequence
gggttcatcatcacgacctaattacctcccaaagacccaaccttctaacaccatcaccttgggggttgggatttcaacatacgaattttggccaagacac
Downstream sequence
GTTTGCGTGTCACTGAGTTAGTTTTGTTTATCTTGCAGTGTGTATACATCTACTTCAGGTACATATCTTTGGCTCTGTAtcttttaattgtggtaaaata
Reference
Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13