Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42001040
Fusion event
EBV-CST11 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
87175
Orient
-
Integrated sequence
ACAAGACAATCGGAAACTTTAAGCCATATTACCCGTGGAATGCACCACCTAATGAAAATCCATATCACGCGCGGAGAGGCATAAAAGAACACGTAATCCA| |GAACGCATTTCGAAAGGCACAAATACAGGGTTTATCAATGTTAGCAACGGGAGGTGAACCCAGAGGTGATGCTACTAGTGAAACGAGCAGTGATGAGGAC
Host Sequence
Chromosome
chr20
Cytoband
p11.21
Reference genome
Start
End
23431710/23451073 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-103a-2/Upstream/4980382; hsa-mir-1-1/Downstream/2757113;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/29416, chr20-CpG: 87/Downstream/186196
Upstream sequence
gagatgatggtggaagtacaatggaggtagagattatggtggaaatagtggtggaggaggtgCTAGAGTGACTGCTGATAATAGTAGAGGTGGAAGTAAA
Downstream sequence
tccatccttccattcatccctcatccatctccattcattcttccatttatccctccttccatccacccatccaTCTTTACTTCCTGACTTTGCTTCCTCT
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.