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TVIS10019932
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019932
Fusion event
HBV-FN1 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2013
PubMed ID
24085110
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Host Sequence
Chromosome
chr2
Cytoband
q35
Reference genome
GRCh37/hg19
Start
216248049/215383326 (Hg38)
End
216248501/215383778 (Hg38)
Location type
Intronic
Target gene
FN1
miRNAs that regulate target gene
hsa-mir-200c-3p
;
hsa-mir-200b-3p
;
hsa-mir-1-3p
;
hsa-let-7g-5p
;
hsa-mir-26b-5p
;
hsa-mir-615-3p
;
hsa-mir-218-5p
;
hsa-mir-140-3p
Nearest miRNA
hsa-mir-10b/Upstream/1625167; hsa-mir-1244-1/Downstream/2516735;
Nearest TSS
ENST00000437798/Upstream/1997;
ENST00000412951/Downstream/302;
Nearest CpG islands
None/Target,
chr2-CpG: 135/Upstream/70917
,
chr2-CpG: 43/Downstream/51766
Upstream sequence
AAATGTTTTTTAAAAGGACAGACAACAAATTTCTTAATTTGTTAGTGACTGAAAGTCTAGGTGATTGTTGAGTAAGGTATCTTTTAGTTTTTGAGACCAG
Downstream sequence
ctatgcctgtcgtattgcagacatgcggaatatatcgacaaaactgactgaacttcctgcccttggggtgcttccttctTTATCTGGCTCAAAACTCTGT
Target sequence
CCTGGACCTGCAGTTTTAGTTTTTGTTGGTCCTGGTCCATTTTTGGGAGTGGTGGTTACTCTGTAACCAGTAACAGGGGAACTTGAAGGCAGCCACTTGACACTAATGCTGTTGTCCTGAACATCGGTCACTTGCATCTGGGATGGTTTGTCAATTTCTACAAATAAAAGCAGGGAGAAACCAGTGAAGCCCCAGTCCTTGGAGACAAGATTGGACAAGTCCTCCTCTCTAGGTCTGGTACATATTCGAATGATC
Reference
Tang, K. W., et al.The landscape of viral expression and host gene fusion and adaptation in human cancer. Nat Commun,2013, 4: 2513.
Sample Information
×
Sample name
TCGA-BC-A10W-11A-11R-A131-07
Sample type
Nontumor
Gender
Female
CpG Island Information
×
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