NMU _STAD.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42000972
Fusion event
EBV-NMU integration
Validated
No
Detection method
GenCap Enrichment+NGS
Data source
Curated
Sample type
Tumor
Disease
Gastric carcinoma (GC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25355872
Virus Sequence
Virus name
EBV
Reference genome
NC007605
Start
11621
Orient
-
Integrated sequence
TGTATAATTAATCATGCATTTGATTTTAAAAAAGTAGGTTACACTCATTTTAGGCCAGACTTTATTTGCAGATTAATAATTTATGTGATTCTCCTTCCCT| |CTAGGACTGAAGAAACAGCCTCCTGCACGTGAGCATGTATCTGAAATAATTATTATGTCATAAGTGTAATGATTAGAAAGTCATAAACCCACTTCCCTTT
Host Sequence
Chromosome
chr4
Cytoband
q12
Reference genome
GRCh37/hg19
Start
56483571/55617404 (Hg38)
End
56483571/55617404 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA4B
Target gene
NMU
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p
Nearest miRNA
hsa-mir-12113/Upstream/2904657; hsa-mir-1243/Downstream/5305215;
Nearest TSS
ENST00000502981/Upstream/25192; ENST00000504250/Downstream/13058;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/70214, chr4-CpG: 73/Downstream/18341
Upstream sequence
TAGAGAATAACAAAGGTATAAGATATTACAGAAAAAGCATAAGCTTATGTCTCCTTCCTTTTTATCCTCACAGAACTTTTATCCTCCTTTTATCCTCATC
Downstream sequence
TTCCCTTTATGTCCCAAATATTTGGGGAATTGTTTGTTCCACTCATCCTTTGCACCCACCCACCTGGTCCCTCTTCCTTGCCATACAAACCTGAAATCAT
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.
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