Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018139
Fusion event
HBV-MARCKS 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
50
Host Sequence
Chromosome
chr6
Cytoband
q21
Reference genome
End
114179070/113857894 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-155-5p ; hsa-mir-122-5p ; hsa-mir-1-3p ; hsa-mir-877-5p ; hsa-mir-15b-5p ; hsa-mir-142-3p ; hsa-mir-4282 ; hsa-mir-518a-5p ; hsa-mir-527 ; hsa-mir-548l ; hsa-mir-3973 ; hsa-mir-548aw ; hsa-mir-5010-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-4453 ; hsa-mir-4538 ; hsa-mir-23b-3p ; hsa-mir-218-5p ; hsa-mir-205-5p ; hsa-mir-563 ; hsa-mir-380-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-4687-3p ; hsa-mir-7974 ; hsa-mir-135b-5p ; hsa-mir-135a-5p ; hsa-mir-889-5p ; hsa-mir-8076 ; hsa-mir-5011-5p ; hsa-mir-5585-3p ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-5688 ; hsa-mir-495-3p ; hsa-mir-34c-3p
Nearest miRNA
hsa-mir-10398/Upstream/7073674; hsa-mir-1202/Downstream/5211153;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/1490366, chr6-CpG: 205/Downstream/664
Nearest cancer related gene
MARCKS(TSG, No orient, 0)
Upstream sequence
ctcaaaaaaataaaaaataaaaaaagaaagaaGTAAGAGTCAACCTCATTAAATATCCAATTTGTCACTTAAGAGTACAATAATACCCATTTTTTACACA
Downstream sequence
CTTCCCTCCTGGTGGCTCCCAAGGCTCATTCGTGGAGAGGAGTGTGGCTGGATTCTAGTCTGAAAGTTGAATGGAAATGGATAGCCTAAATTGTGGATTT
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