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Fusion gene ID: 29306

FusionGeneSummary for PTGDS_CLU

Fusion gene summary

Fusion gene information	Fusion gene name: PTGDS_CLU
	Fusion gene ID: 29306
		Hgene	Tgene
	Gene symbol	PTGDS	CLU
	Gene ID	5730	1191
	Gene name	prostaglandin D2 synthase	clusterin
	Synonyms	L-PGDS\|LPGDS\|PDS\|PGD2\|PGDS\|PGDS2	AAG4\|APO-J\|APOJ\|CLI\|CLU1\|CLU2\|KUB1\|NA1/NA2\|SGP-2\|SGP2\|SP-40\|TRPM-2\|TRPM2
	Cytomap	9q34.3	8p21.1
	Type of gene	protein-coding	protein-coding
	Description	prostaglandin-H2 D-isomerasePGD2 synthasebeta-trace proteincerebrin-28glutathione-independent PGD synthaseglutathione-independent PGD synthetaselipocalin-type prostaglandin D synthaseprostaglandin D synthaseprostaglandin D2 synthase 21kDa (brain)	clusterinaging-associated protein 4apolipoprotein Jcomplement cytolysis inhibitorcomplement lysis inhibitorcomplement-associated protein SP-40,40ku70-binding protein 1sulfated glycoprotein 2testosterone-repressed prostate message 2
	Modification date	20180519	20180527
	UniProtAcc	P41222	P10909
	Ensembl transtripts involved in fusion gene	ENST00000224167, ENST00000371625, ENST00000460340,	ENST00000316403, ENST00000546343, ENST00000560366, ENST00000405140, ENST00000523500,
Fusion gene scores	* DoF score	11 X 8 X 3=264	14 X 17 X 5=1190
	# samples	13	18
	** MAII score	log2(13/264*10)=-1.02202630633 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(18/1190*10)=-2.72489276186563 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: PTGDS [Title/Abstract] AND CLU [Title/Abstract] AND fusion [Title/Abstract]
Functional or gene categories assigned by FusionGDB annotation	Tumor suppressor gene involved fusion gene, in-frame but not retained their domain. Tumor suppressor gene involved fusion gene, retained protein feature but frameshift. DDR (DNA damage repair) gene involved fusion gene, in-frame but not retained their domain.

* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	PTGDS	GO:0001516	prostaglandin biosynthetic process	20667974
Tgene	CLU	GO:0000902	cell morphogenesis	15857407
Tgene	CLU	GO:0001774	microglial cell activation	15857407
Tgene	CLU	GO:0017038	protein import	24446231
Tgene	CLU	GO:0032463	negative regulation of protein homooligomerization	22179788\|23106396
Tgene	CLU	GO:0032464	positive regulation of protein homooligomerization	22179788
Tgene	CLU	GO:0032760	positive regulation of tumor necrosis factor production	15857407
Tgene	CLU	GO:0045429	positive regulation of nitric oxide biosynthetic process	15857407
Tgene	CLU	GO:0050821	protein stabilization	11123922
Tgene	CLU	GO:0051131	chaperone-mediated protein complex assembly	17412999
Tgene	CLU	GO:0051788	response to misfolded protein	19996109
Tgene	CLU	GO:0061077	chaperone-mediated protein folding	11123922
Tgene	CLU	GO:0061518	microglial cell proliferation	15857407
Tgene	CLU	GO:1900221	regulation of amyloid-beta clearance	24446231
Tgene	CLU	GO:1901214	regulation of neuron death	17412999
Tgene	CLU	GO:1901216	positive regulation of neuron death	15857407
Tgene	CLU	GO:1902430	negative regulation of amyloid-beta formation	12047389\|17412999
Tgene	CLU	GO:1905907	negative regulation of amyloid fibril formation	22179788

Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.

Data type	Source	Cancer type	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
TCGA	LD	LGG	TCGA-CS-4944-01A	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-

* LD: Li Ding group's fusion gene list
RV: Roel Verhaak group's fusion gene list
ChiTaRs fusion database

Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
In-frame	ENST00000224167	ENST00000316403	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
Frame-shift	ENST00000224167	ENST00000546343	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
Frame-shift	ENST00000224167	ENST00000560366	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
In-frame	ENST00000224167	ENST00000405140	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
Frame-shift	ENST00000224167	ENST00000523500	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
In-frame	ENST00000371625	ENST00000316403	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
Frame-shift	ENST00000371625	ENST00000546343	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
Frame-shift	ENST00000371625	ENST00000560366	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
In-frame	ENST00000371625	ENST00000405140	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
Frame-shift	ENST00000371625	ENST00000523500	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
intron-3CDS	ENST00000460340	ENST00000316403	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
intron-3CDS	ENST00000460340	ENST00000546343	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
intron-3CDS	ENST00000460340	ENST00000560366	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
intron-3CDS	ENST00000460340	ENST00000405140	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-
intron-3CDS	ENST00000460340	ENST00000523500	PTGDS	chr9	139872144	+	CLU	chr8	27455767	-

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FusionProtFeatures for PTGDS_CLU

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
PTGDS P41222	CLU P10909

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Fusion gene ID: 29306

FusionGeneSummary for PTGDS_CLU

FusionProtFeatures for PTGDS_CLU