BRAF _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015788
Fusion event
HBV-BRAF integration
Validated
No
Detection method
MAPS
Data source
Curated
Sample type
Adjacent tissue
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2012
PubMed ID
23236287
Virus Sequence
Virus name
HBV
Reference genome
AY800389.1;AY800390.1;AY800391.1;AY800392.1
Orient
+
Host Sequence
Chromosome
chr7
Cytoband
q34
Reference genome
GRCh37/hg19
Start
140526924/140827124 (Hg38)
End
140526924/140827124 (Hg38)
Orient
+
Location type
Intronic
Target gene
BRAF
miRNAs that regulate target gene
hsa-mir-744-5p ; hsa-mir-378a-5p ; hsa-mir-191-5p ; hsa-mir-143-3p ; hsa-mir-145-5p ; hsa-mir-579-3p
Nearest miRNA
hsa-mir-10399/Upstream/1782967; hsa-mir-11400/Downstream/1647403;
Nearest TSS
ENST00000635602/Upstream/2726; ENST00000563442/Downstream/9109;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/129640, chr7-CpG: 90/Downstream/97073
Nearest cancer related gene
BRAF(OG, No orient, 0)
Upstream sequence
TCTTGATTTAAACCTCATCATCTATGAA
Junction sequence
TCTTGATTTAAACCTCATCATCTATGAAGTATGGTGCTGGTGAACAGACCAATTTATGCCTACAGCCTCCT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Ding, D., et al. Recurrent targeted genes of hepatitis B virus in the liver cancer genomes identified by a next-generation sequencing-based approach. PLoS Genet ,2010,8(12): e1003065.
Curate