BIRC3 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20003855
Fusion event
HPV-BIRC3 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
28928286
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
L1
Start
407
Host Sequence
Chromosome
chr11
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
102188180/102317449 (Hg38)
End
102188180/102317449 (Hg38)
Location type
Exon1
Target gene
BIRC3
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-375 ; hsa-mir-98-5p
Nearest miRNA
hsa-mir-10392/Upstream/797544; hsa-let-7a-2/Downstream/1532457;
Nearest TSS
ENST00000527297/Upstream/86527; ENST00000528940/Downstream/1;
Nearest CpG islands
chr11-CpG: 22/Target, None/Upstream, None/Downstream
Nearest cancer related gene
BIRC3(OG, No orient, 0)
Upstream sequence
cttatacacatcagttggtaactaccaatcattcttacatattcattaaagtaggccTTTGGGTATCAGTATTCATCCAAAACCATCATTTTTCTCACAT
Downstream sequence
AAAATAATTTAGAAATAGAAAAATAATCTATTCTATATTGTTATTAATTCAGTTTAGCTTTTTTTTTTCTGGCTCAACTATAATGGCAACCCACACCATT
Reference
Koneva, L. A., et al. HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers. Mol Cancer Res ,2018,16(1): 90-102.
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