Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42000995
Fusion event
EBV-ATP12A 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
74023
Orient
+
Integrated sequence
GCTCCGCCCATGCCGAGGAGCCAAAGACCTCCCCCAGCTCGGCCAGGGACGTGACGGCGGCCAGGCTCTGACCAGACTCGGAAGTAAATAGCTCCGTGAG| |GTGCGCCAGGGTCTCAATCGTACAAGGAATGCCCCAAAAATAGTAAGCAGCCGTGACTAGCACGAACTGGGCCTCGTGGGAGCCAAAGGTGCTAATGAAC
Host Sequence
Chromosome
chr13
Cytoband
q12.12
Reference genome
Start
End
25256349/24682211 (Hg38)
Orient
+
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-2276/Upstream/519707; hsa-mir-1267/Downstream/14981823;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/1256, chr13-CpG: 29/Downstream/36396
Upstream sequence
actaccatcaccatcaccaccatcctcaccagcaccatcagcaccacaacattaatcaccattaccaccactatcaccaccaccatcagcaccatcaacg
Downstream sequence
ccaccaccatccctatcaccatcaccatcaAATGCATACATGCACAGTCTTTCCAACCCTCAGTTTCTATGAATGAAAAAACTGAATCTGTCAGCAGGTG
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.