PKHD1L1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015943
Fusion event
HBV-PKHD1L1 integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22962577
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1791
Orient
+
Host Sequence
Chromosome
chr8
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
110460652/109448423 (Hg38)
End
110460652/109448423 (Hg38)
Orient
+
Location type
Intron
Target gene
PKHD1L1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-642a-5p ; hsa-mir-6845-3p ; hsa-mir-4469 ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-6887-3p ; hsa-mir-3675-3p
Nearest miRNA
hsa-mir-12123/Upstream/4963958; hsa-mir-10400/Downstream/3195070;
Nearest TSS
ENST00000518652/Upstream/85946; ENST00000533183/Downstream/32128;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/85859, chr8-CpG: 33/Downstream/91084
Upstream sequence
AGCTCGGAGCCACGCACAGCGGGTACCTGTGCAATAACCACGCAGCACTCGCTCTCCATGAACCGCTTCCTCATGGTGTGCGCACACTCCCGGGCACCCT
Downstream sequence
TTTGTTTCAGTAAACACTTATTTAGAAACCTTATTTAGAAAATAATATGTTACTCAAACACATAAAATTTCTAGTGttttttttgtttgtttggtttttt
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate