MTHFD2L _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015206
Fusion event
HBV-MTHFD2L integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
HBVgp1 Polymerase;HBVgp2 pre-S1/pre-S2/S
Start
2872
Orient
+
Integrated sequence
TATATTATATAAGAGAGAAACAACACATAGCGCCTCATTTTGTGGGTCACCATATTCTTGGGAACAAGATCTACAGCATGGGGCAGAATCTTTCCACCAG| |CAATCCTCTGGGATTCTTTCCCGACCACCAGTTGGATCCAGCCTTCAGAGCAAACACCGCAAATCCAGATTGGGACTTCAATCCCAACAAGGACACCTGG
Host Sequence
Chromosome
chr4
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
75116243/74250526 (Hg38)
End
75116243/74250526 (Hg38)
Orient
+
Location type
Intronic
Target gene
MTHFD2L
miRNAs that regulate target gene
hsa-mir-96-5p ; hsa-mir-195-3p
Nearest miRNA
hsa-mir-12113/Upstream/7973598; hsa-mir-1243/Downstream/2323042;
Nearest TSS
ENST00000502981/Upstream/26458; ENST00000490128/Downstream/29715;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/92043, chr4-CpG: 55/Downstream/194443
Upstream sequence
acattcacagggtgcaaatataattttagttacatggatatattgcatagtagtgaagtcagggcttttagtgtatttatcaccagaataatgtgcattg
Downstream sequence
cacatagtagctattcagcaaatttctattgaaATATTGGAAATATTTTTCTATCTGGATATTGTTCTACTATTTCCTGGATAGTGCTAAAACTTTAAAG
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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