Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42000989
Fusion event
EBV-SOX5 integration
Validated
No
Detection method
GenCap Enrichment+NGS
Data source
Curated
Sample type
Disease
Gastric carcinoma (GC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
Virus Sequence
Virus name
EBV
Reference genome
Start
70424
Orient
+
Integrated sequence
TCGCCTCCCACGTTTCCCTTCGCGTGAGGCATCCGATATGACTGAATTTTCGCAGTCTCTTTTCCCTCTTCCCTTGTTATTCCCATAGAATTACAGTGAG| |GTTACACAGGTGGAGATTCAGTTTAACCATTTATTGATTTAATCCAGGAACAAAAAACAGTCCTAGTGACCCAGTGCCCGGAGAGAGAATGGCCCTGACA
Host Sequence
Chromosome
chr12
Cytoband
p12.1
Reference genome
Start
End
23721729/23568795 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-194-5p ; hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-96-5p ; hsa-mir-130a-3p ; hsa-mir-181a-5p ; hsa-mir-132-3p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-1231 ; hsa-mir-632 ; hsa-mir-4288 ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-4766-5p ; hsa-mir-1277-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-574-5p ; hsa-mir-5580-3p ; hsa-mir-555 ; hsa-mir-374a-3p ; hsa-mir-136-3p ; hsa-mir-4704-5p ; hsa-mir-3529-3p ; hsa-mir-6759-5p ; hsa-mir-6793-5p ; hsa-mir-6748-5p ; hsa-mir-933 ; hsa-mir-4783-5p ; hsa-mir-3607-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/5895401; hsa-let-7i/Downstream/643626;
Nearest CpG islands
Upstream sequence
AAAACCTAATCTGGAGACTTAGAATTAGGAATAAACTAAGATAAATTTGAATTTGATGTAAGTAGTTGTTTAGAGCCGTTTCAGTAGGTAAAGCATCTAA
Downstream sequence
TTGTGTCTAGGTGTTTGCATATCTTTCAGTGTTGCTGTTTgtgaggcagcctggaagacattaccttaaccaggtgatcaaggtaagcatccccagtaat
Reference
Cao, S., et al.High-throughput RNA sequencing-based virome analysis of 50 lymphoma cell lines from the Cancer Cell Line Encyclopedia project. J Virol,2015, 89(1): 713-729.