Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42001070
Fusion event
EBV-ICA1 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
167492
Orient
-
Integrated sequence
CAGAGGTCTGATGTGTGTAGGAGGGGTGGGTTCAACGCAGGGGCGTTGGTGGCGGAGTCTGGCAACGCCCGGGTCCTTGCTACCTGTGTGGTGTGTTAAG| |GGCTGGGTAAAGGTGTCTGCCAATTCTCGCATGTCCTCCTTTCCCCTTGTTTTGAAATAGAATATGAATGTGGCTTTTCAGCCTAGACAGACAGTGTGGC
Host Sequence
Chromosome
chr7
Cytoband
p21.3
Reference genome
Start
End
8192358/8152728 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-339/Upstream/1085683; hsa-mir-10399/Downstream/9974492;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/182864, chr7-CpG: 118/Downstream/108673
Upstream sequence
CATTCCGACTCCTGCCTGTCTCTTCCCGTCCAAGGAACATGGACCCTAAGTCGTGCAGGTGCGGATGACCATGGGCAGAATTAGGGGCCGTGGCACAAAA
Downstream sequence
caccaccaccacaaccaccatctccttcatcaccactacccccaccactatcaccatcaccatcacctccaccaccaccaccaccatctccttcaacacc
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.