Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018188
Fusion event
HBV-JMJD1C 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
831
Host Sequence
Chromosome
chr10
Cytoband
q21.3
Reference genome
Start
End
65180738/63420978 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-326 ; hsa-let-7e-5p ; hsa-mir-374a-5p ; hsa-mir-718 ; hsa-mir-587 ; hsa-mir-6084 ; hsa-mir-5581-5p ; hsa-mir-4297 ; hsa-mir-145-3p ; hsa-mir-6880-3p ; hsa-mir-4485-5p ; hsa-mir-2681-5p ; hsa-mir-5579-3p ; hsa-mir-889-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-590-3p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-548n ; hsa-mir-23c ; hsa-mir-130a-5p ; hsa-mir-23a-3p ; hsa-mir-23b-3p ; hsa-mir-8081 ; hsa-mir-627-5p ; hsa-mir-937-5p ; hsa-mir-627-3p ; hsa-mir-205-5p ; hsa-mir-6500-3p ; hsa-mir-3614-5p ; hsa-mir-6875-3p ; hsa-mir-670-3p ; hsa-mir-4762-5p ; hsa-mir-513b-3p ; hsa-mir-3662
Nearest miRNA
hsa-mir-1265/Upstream/47930; hsa-mir-107/Downstream/3982373;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/287402, chr10-CpG: 122/Downstream/44132
Upstream sequence
CATTCTTATCTAGAAAGTGGCCAGGGTCAAAGATATTTGGATTAGGAAATTCTTTGTCATCATGTAGCACGGAAGTCAGTAATGCCATTATGGTTGTGCC
Downstream sequence
CTGGAAGTAACAAAACAGATAATCTGATTTATAAAGAAGTCCAGAAGTGAGGAGAAGTAGTGGACATCACGTAGCGCCATAACGTTGAtctatagatgag
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