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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:GPC3-PPARG (FusionGDB2 ID:34172)

Fusion Gene Summary for GPC3-PPARG

check button Fusion gene summary
Fusion gene informationFusion gene name: GPC3-PPARG
Fusion gene ID: 34172
HgeneTgene
Gene symbol

GPC3

PPARG

Gene ID

2719

5468

Gene nameglypican 3peroxisome proliferator activated receptor gamma
SynonymsDGSX|GTR2-2|MXR7|OCI-5|SDYS|SGB|SGBS|SGBS1CIMT1|GLM1|NR1C3|PPARG1|PPARG2|PPARgamma
Cytomap

Xq26.2

3p25.2

Type of geneprotein-codingprotein-coding
Descriptionglypican-3glypican proteoglycan 3heparan sulphate proteoglycanintestinal protein OCI-5secreted glypican-3peroxisome proliferator-activated receptor gammaPPAR-gammanuclear receptor subfamily 1 group C member 3peroxisome proliferator-activated nuclear receptor gamma variant 1
Modification date2020031520200329
UniProtAcc

P51654

P37231

Ensembl transtripts involved in fusion geneENST00000370818, ENST00000394299, 
ENST00000543339, 		ENST00000287820, 
ENST00000309576, ENST00000397000, 
ENST00000397010, ENST00000397012, 
ENST00000397015, ENST00000397026, 
ENST00000539812, 
Fusion gene scores* DoF score9 X 8 X 4=28811 X 14 X 10=1540
# samples 1023
** MAII scorelog2(10/288*10)=-1.52606881166759
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(23/1540*10)=-2.74322458463789
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GPC3 [Title/Abstract] AND PPARG [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGPC3(133087077)-PPARG(12421203), # samples:4
Anticipated loss of major functional domain due to fusion event.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneGPC3

GO:0060828

regulation of canonical Wnt signaling pathway

14610063

HgeneGPC3

GO:0090263

positive regulation of canonical Wnt signaling pathway

24496449

HgeneGPC3

GO:2000050

regulation of non-canonical Wnt signaling pathway

14610063

TgenePPARG

GO:0000122

negative regulation of transcription by RNA polymerase II

12700342

TgenePPARG

GO:0006919

activation of cysteine-type endopeptidase activity involved in apoptotic process

18293083

TgenePPARG

GO:0007165

signal transduction

9568716

TgenePPARG

GO:0010742

macrophage derived foam cell differentiation

26504087

TgenePPARG

GO:0010745

negative regulation of macrophage derived foam cell differentiation

19114110

TgenePPARG

GO:0010871

negative regulation of receptor biosynthetic process

12700342

TgenePPARG

GO:0010887

negative regulation of cholesterol storage

19114110

TgenePPARG

GO:0010891

negative regulation of sequestering of triglyceride

12700342

TgenePPARG

GO:0016525

negative regulation of angiogenesis

28566713

TgenePPARG

GO:0030224

monocyte differentiation

9568716

TgenePPARG

GO:0032526

response to retinoic acid

16239304

TgenePPARG

GO:0042953

lipoprotein transport

9568716

TgenePPARG

GO:0043537

negative regulation of blood vessel endothelial cell migration

28566713

TgenePPARG

GO:0045713

low-density lipoprotein particle receptor biosynthetic process

9568716

TgenePPARG

GO:0045944

positive regulation of transcription by RNA polymerase II

9568715|12700342|16239304|17611579

TgenePPARG

GO:0048469

cell maturation

9568716

TgenePPARG

GO:0048662

negative regulation of smooth muscle cell proliferation

20622039

TgenePPARG

GO:0051091

positive regulation of DNA-binding transcription factor activity

18293083

TgenePPARG

GO:0061614

pri-miRNA transcription by RNA polymerase II

28566713

TgenePPARG

GO:0071404

cellular response to low-density lipoprotein particle stimulus

9568716

TgenePPARG

GO:1904706

negative regulation of vascular smooth muscle cell proliferation

28522568


check buttonFusion gene breakpoints across GPC3 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across PPARG (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4BLCATCGA-BL-A0C8-01AGPC3chrX

133087077

-PPARGchr3

12421203

+
ChimerDB4BLCATCGA-BL-A0C8-01BGPC3chrX

133087077

-PPARGchr3

12353879

+
ChimerDB4BLCATCGA-BL-A0C8-01BGPC3chrX

133087077

-PPARGchr3

12421203

+
ChimerDB4BLCATCGA-BL-A0C8GPC3chrX

133087076

-PPARGchr3

12421202

+


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Fusion Gene ORF analysis for GPC3-PPARG

check button 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
5CDS-5UTRENST00000370818ENST00000287820GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000370818ENST00000287820GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000370818ENST00000309576GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000370818ENST00000309576GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-5UTRENST00000370818ENST00000309576GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000370818ENST00000397000GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000370818ENST00000397000GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000370818ENST00000397010GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000370818ENST00000397010GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-5UTRENST00000370818ENST00000397010GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000370818ENST00000397012GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000370818ENST00000397012GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-5UTRENST00000370818ENST00000397012GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000370818ENST00000397015GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000370818ENST00000397015GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000370818ENST00000397026GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000370818ENST00000397026GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-5UTRENST00000370818ENST00000397026GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000370818ENST00000539812GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000370818ENST00000539812GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000394299ENST00000287820GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000394299ENST00000287820GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000394299ENST00000309576GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000394299ENST00000309576GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-5UTRENST00000394299ENST00000309576GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000394299ENST00000397000GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000394299ENST00000397000GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000394299ENST00000397010GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000394299ENST00000397010GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-5UTRENST00000394299ENST00000397010GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000394299ENST00000397012GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000394299ENST00000397012GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-5UTRENST00000394299ENST00000397012GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000394299ENST00000397015GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000394299ENST00000397015GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000394299ENST00000397026GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000394299ENST00000397026GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-5UTRENST00000394299ENST00000397026GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-5UTRENST00000394299ENST00000539812GPC3chrX

133087077

-PPARGchr3

12421203

+
5CDS-5UTRENST00000394299ENST00000539812GPC3chrX

133087076

-PPARGchr3

12421202

+
5CDS-intronENST00000370818ENST00000287820GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-intronENST00000370818ENST00000397000GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-intronENST00000370818ENST00000397015GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-intronENST00000370818ENST00000539812GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-intronENST00000394299ENST00000287820GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-intronENST00000394299ENST00000397000GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-intronENST00000394299ENST00000397015GPC3chrX

133087077

-PPARGchr3

12353879

+
5CDS-intronENST00000394299ENST00000539812GPC3chrX

133087077

-PPARGchr3

12353879

+
intron-5UTRENST00000543339ENST00000287820GPC3chrX

133087077

-PPARGchr3

12421203

+
intron-5UTRENST00000543339ENST00000287820GPC3chrX

133087076

-PPARGchr3

12421202

+
intron-5UTRENST00000543339ENST00000309576GPC3chrX

133087077

-PPARGchr3

12421203

+
intron-5UTRENST00000543339ENST00000309576GPC3chrX

133087077

-PPARGchr3

12353879

+
intron-5UTRENST00000543339ENST00000309576GPC3chrX

133087076

-PPARGchr3

12421202

+
intron-5UTRENST00000543339ENST00000397000GPC3chrX

133087077

-PPARGchr3

12421203

+
intron-5UTRENST00000543339ENST00000397000GPC3chrX

133087076

-PPARGchr3

12421202

+
intron-5UTRENST00000543339ENST00000397010GPC3chrX

133087077

-PPARGchr3

12421203

+
intron-5UTRENST00000543339ENST00000397010GPC3chrX

133087077

-PPARGchr3

12353879

+
intron-5UTRENST00000543339ENST00000397010GPC3chrX

133087076

-PPARGchr3

12421202

+
intron-5UTRENST00000543339ENST00000397012GPC3chrX

133087077

-PPARGchr3

12421203

+
intron-5UTRENST00000543339ENST00000397012GPC3chrX

133087077

-PPARGchr3

12353879

+
intron-5UTRENST00000543339ENST00000397012GPC3chrX

133087076

-PPARGchr3

12421202

+
intron-5UTRENST00000543339ENST00000397015GPC3chrX

133087077

-PPARGchr3

12421203

+
intron-5UTRENST00000543339ENST00000397015GPC3chrX

133087076

-PPARGchr3

12421202

+
intron-5UTRENST00000543339ENST00000397026GPC3chrX

133087077

-PPARGchr3

12421203

+
intron-5UTRENST00000543339ENST00000397026GPC3chrX

133087077

-PPARGchr3

12353879

+
intron-5UTRENST00000543339ENST00000397026GPC3chrX

133087076

-PPARGchr3

12421202

+
intron-5UTRENST00000543339ENST00000539812GPC3chrX

133087077

-PPARGchr3

12421203

+
intron-5UTRENST00000543339ENST00000539812GPC3chrX

133087076

-PPARGchr3

12421202

+
intron-intronENST00000543339ENST00000287820GPC3chrX

133087077

-PPARGchr3

12353879

+
intron-intronENST00000543339ENST00000397000GPC3chrX

133087077

-PPARGchr3

12353879

+
intron-intronENST00000543339ENST00000397015GPC3chrX

133087077

-PPARGchr3

12353879

+
intron-intronENST00000543339ENST00000539812GPC3chrX

133087077

-PPARGchr3

12353879

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for GPC3-PPARG


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
GPC3chrX133087076-PPARGchr312353878+1.17E-050.9999883
GPC3chrX133087076-PPARGchr312421202+1.04E-060.9999989
GPC3chrX133087076-PPARGchr312421202+1.04E-060.9999989
GPC3chrX133087076-PPARGchr312421202+1.04E-060.9999989
GPC3chrX133087076-PPARGchr312353878+1.17E-050.9999883
GPC3chrX133087076-PPARGchr312421202+1.04E-060.9999989
GPC3chrX133087076-PPARGchr312421202+1.04E-060.9999989
GPC3chrX133087076-PPARGchr312421202+1.04E-060.9999989

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.
genomic feature of top 1%

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Fusion Protein Features for GPC3-PPARG


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:133087077/:12421203)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
GPC3

P51654

PPARG

P37231

FUNCTION: Cell surface proteoglycan that bears heparan sulfate (PubMed:14610063). Negatively regulates the hedgehog signaling pathway when attached via the GPI-anchor to the cell surface by competing with the hedgehog receptor PTC1 for binding to hedgehog proteins (By similarity). Binding to the hedgehog protein SHH triggers internalization of the complex by endocytosis and its subsequent lysosomal degradation (By similarity). Positively regulates the canonical Wnt signaling pathway by binding to the Wnt receptor Frizzled and stimulating the binding of the Frizzled receptor to Wnt ligands (PubMed:16227623, PubMed:24496449). Positively regulates the non-canonical Wnt signaling pathway (By similarity). Binds to CD81 which decreases the availability of free CD81 for binding to the transcriptional repressor HHEX, resulting in nuclear translocation of HHEX and transcriptional repression (By similarity). Inhibits the dipeptidyl peptidase activity of DPP4 (PubMed:17549790). Plays a role in limb patterning and skeletal development by controlling the cellular response to BMP4 (By similarity). Modulates the effects of growth factors BMP2, BMP7 and FGF7 on renal branching morphogenesis (By similarity). Required for coronary vascular development (By similarity). Plays a role in regulating cell movements during gastrulation (By similarity). {ECO:0000250|UniProtKB:Q6V9Y8, ECO:0000250|UniProtKB:Q8CFZ4, ECO:0000269|PubMed:14610063, ECO:0000269|PubMed:16227623, ECO:0000269|PubMed:17549790, ECO:0000269|PubMed:24496449}.FUNCTION: Nuclear receptor that binds peroxisome proliferators such as hypolipidemic drugs and fatty acids. Once activated by a ligand, the nuclear receptor binds to DNA specific PPAR response elements (PPRE) and modulates the transcription of its target genes, such as acyl-CoA oxidase. It therefore controls the peroxisomal beta-oxidation pathway of fatty acids. Key regulator of adipocyte differentiation and glucose homeostasis. ARF6 acts as a key regulator of the tissue-specific adipocyte P2 (aP2) enhancer. Acts as a critical regulator of gut homeostasis by suppressing NF-kappa-B-mediated proinflammatory responses. Plays a role in the regulation of cardiovascular circadian rhythms by regulating the transcription of ARNTL/BMAL1 in the blood vessels (By similarity). {ECO:0000250|UniProtKB:P37238, ECO:0000269|PubMed:16150867, ECO:0000269|PubMed:20829347, ECO:0000269|PubMed:23525231, ECO:0000269|PubMed:9065481}.; FUNCTION: (Microbial infection) Upon treatment with M.tuberculosis or its lipoprotein LpqH, phosphorylation of MAPK p38 and IL-6 production are modulated, probably via this protein. {ECO:0000269|PubMed:25504154}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page


* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for GPC3-PPARG


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for GPC3-PPARG


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for GPC3-PPARG


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for GPC3-PPARG


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource