Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42001090
Fusion event
EBV-FAM122B 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
102537
Orient
+
Integrated sequence
TGTCGGGAATTGGGGCACGAGAGGACCATCAGGAGTATCGGGACGGAATTATATGAGGCAACGAAGGAAATAATAGAGTCGCTCAACTCCACGTTCATCC| |CCCAGTTTACGGAGGTGACCATCGAGTACCTTCCGAGGAGCGACGAGTATGTGGCCTACTACTGTGGCCGCCGCATCAGGCTGCATGTGCTCTTCCCCCC
Host Sequence
Chromosome
chrX
Cytoband
q26.3
Reference genome
End
133930546/134796516 (Hg38)
Orient
+
Location type
UTR5
Target gene
miRNAs that regulate target gene
hsa-mir-425-5p ; hsa-mir-124-3p ; hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-877-3p ; hsa-mir-877-5p ; hsa-mir-3148 ; hsa-mir-3610 ; hsa-mir-144-3p ; hsa-mir-548e-5p ; hsa-mir-6838-5p ; hsa-mir-15a-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-891a-3p ; hsa-mir-3688-5p ; hsa-mir-299-3p ; hsa-mir-4491 ; hsa-mir-4657
Nearest miRNA
hsa-let-7f-2/Upstream/249805; hsa-mir-105-1/Downstream/1754362;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/245083, chrX-CpG: 53/Downstream/241
Upstream sequence
acttacccacccatctacccacccttccatttatccatccacctctccatccatccatctatccatccacccacccacccatccatccacccatccactg
Downstream sequence
gagggaGGAGGGAAGAGGGAGGGAAAAGGATAGGTGGAAAAGCAGGAGGACAGAGAGGATAAGAGGAGGGCAGAGgggggaaagggagaggaagggggcg
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.