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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:CD55-NEK2 (FusionGDB2 ID:14555)

Fusion Gene Summary for CD55-NEK2

check button Fusion gene summary
Fusion gene informationFusion gene name: CD55-NEK2
Fusion gene ID: 14555
HgeneTgene
Gene symbol

CD55

NEK2

Gene ID

1604

4751

Gene nameCD55 molecule (Cromer blood group)NIMA related kinase 2
SynonymsCHAPLE|CR|CROM|DAF|TCHsPK21|NEK2A|NLK1|PPP1R111|RP67
Cytomap

1q32.2

1q32.3

Type of geneprotein-codingprotein-coding
Descriptioncomplement decay-accelerating factorCD55 antigenCD55 molecule, decay accelerating factor for complement (Cromer blood group)Cromer blood group antigenserine/threonine-protein kinase Nek2NIMA (never in mitosis gene a)-related kinase 2nimA-like protein kinase 1nimA-related protein kinase 2protein phosphatase 1, regulatory subunit 111
Modification date2020031320200313
UniProtAcc

P08174

P51955

Ensembl transtripts involved in fusion geneENST00000367067, ENST00000465534, 
ENST00000314754, ENST00000367062, 
ENST00000367063, ENST00000367064, 
ENST00000367065, ENST00000391920, 
ENST00000391921, 		ENST00000366999, 
ENST00000540251, ENST00000462283, 
ENST00000366998, 
Fusion gene scores* DoF score8 X 5 X 7=2803 X 4 X 3=36
# samples 94
** MAII scorelog2(9/280*10)=-1.63742992061529
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: CD55 [Title/Abstract] AND NEK2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCD55(207512762)-NEK2(211836970), # samples:1
CD55(207512762)-NEK2(211836994), # samples:1
Anticipated loss of major functional domain due to fusion event.CD55-NEK2 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
CD55-NEK2 seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
CD55-NEK2 seems lost the major protein functional domain in Tgene partner, which is a kinase due to the frame-shifted ORF.
* 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
HgeneCD55

GO:0007204

positive regulation of cytosolic calcium ion concentration

8223854

HgeneCD55

GO:0030449

regulation of complement activation

25284781

HgeneCD55

GO:0031664

regulation of lipopolysaccharide-mediated signaling pathway

12731067

HgeneCD55

GO:0035743

CD4-positive, alpha-beta T cell cytokine production

16818763

HgeneCD55

GO:0045916

negative regulation of complement activation

6211481

HgeneCD55

GO:1903659

regulation of complement-dependent cytotoxicity

25284781

HgeneCD55

GO:2000516

positive regulation of CD4-positive, alpha-beta T cell activation

16818763

HgeneCD55

GO:2000563

positive regulation of CD4-positive, alpha-beta T cell proliferation

16818763

TgeneNEK2

GO:0006468

protein phosphorylation

21076410

TgeneNEK2

GO:0007059

chromosome segregation

14978040

TgeneNEK2

GO:0046777

protein autophosphorylation

17626005

TgeneNEK2

GO:0051299

centrosome separation

18086858


check buttonFusion gene breakpoints across CD55 (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 NEK2 (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
ChimerDB4SKCMTCGA-D9-A1JW-06ACD55chr1

207512762

+NEK2chr1

211836970

-
ChimerDB4SKCMTCGA-D9-A1JW-06ACD55chr1

207512762

-NEK2chr1

211836994

-


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Fusion Gene ORF analysis for CD55-NEK2

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
3UTR-3CDSENST00000367067ENST00000366999CD55chr1

207512762

+NEK2chr1

211836970

-
3UTR-3CDSENST00000367067ENST00000366999CD55chr1

207512762

-NEK2chr1

211836994

-
3UTR-3CDSENST00000367067ENST00000540251CD55chr1

207512762

+NEK2chr1

211836970

-
3UTR-3CDSENST00000367067ENST00000540251CD55chr1

207512762

-NEK2chr1

211836994

-
3UTR-3CDSENST00000465534ENST00000366999CD55chr1

207512762

+NEK2chr1

211836970

-
3UTR-3CDSENST00000465534ENST00000366999CD55chr1

207512762

-NEK2chr1

211836994

-
3UTR-3CDSENST00000465534ENST00000540251CD55chr1

207512762

+NEK2chr1

211836970

-
3UTR-3CDSENST00000465534ENST00000540251CD55chr1

207512762

-NEK2chr1

211836994

-
3UTR-5UTRENST00000367067ENST00000462283CD55chr1

207512762

+NEK2chr1

211836970

-
3UTR-5UTRENST00000465534ENST00000462283CD55chr1

207512762

+NEK2chr1

211836970

-
3UTR-intronENST00000367067ENST00000366998CD55chr1

207512762

+NEK2chr1

211836970

-
3UTR-intronENST00000367067ENST00000366998CD55chr1

207512762

-NEK2chr1

211836994

-
3UTR-intronENST00000367067ENST00000462283CD55chr1

207512762

-NEK2chr1

211836994

-
3UTR-intronENST00000465534ENST00000366998CD55chr1

207512762

+NEK2chr1

211836970

-
3UTR-intronENST00000465534ENST00000366998CD55chr1

207512762

-NEK2chr1

211836994

-
3UTR-intronENST00000465534ENST00000462283CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-5UTRENST00000314754ENST00000462283CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-5UTRENST00000367062ENST00000462283CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-5UTRENST00000367063ENST00000462283CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-5UTRENST00000367064ENST00000462283CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-5UTRENST00000367065ENST00000462283CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-5UTRENST00000391920ENST00000462283CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-5UTRENST00000391921ENST00000462283CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-intronENST00000314754ENST00000366998CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-intronENST00000314754ENST00000366998CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000314754ENST00000462283CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000367062ENST00000366998CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-intronENST00000367062ENST00000366998CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000367062ENST00000462283CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000367063ENST00000366998CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-intronENST00000367063ENST00000366998CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000367063ENST00000462283CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000367064ENST00000366998CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-intronENST00000367064ENST00000366998CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000367064ENST00000462283CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000367065ENST00000366998CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-intronENST00000367065ENST00000366998CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000367065ENST00000462283CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000391920ENST00000366998CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-intronENST00000391920ENST00000366998CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000391920ENST00000462283CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000391921ENST00000366998CD55chr1

207512762

+NEK2chr1

211836970

-
5CDS-intronENST00000391921ENST00000366998CD55chr1

207512762

-NEK2chr1

211836994

-
5CDS-intronENST00000391921ENST00000462283CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000314754ENST00000366999CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000314754ENST00000366999CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000314754ENST00000540251CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000314754ENST00000540251CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000367062ENST00000366999CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000367062ENST00000366999CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000367062ENST00000540251CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000367062ENST00000540251CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000367063ENST00000366999CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000367063ENST00000366999CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000367063ENST00000540251CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000367063ENST00000540251CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000367064ENST00000366999CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000367064ENST00000366999CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000367064ENST00000540251CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000367064ENST00000540251CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000367065ENST00000366999CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000367065ENST00000366999CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000367065ENST00000540251CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000367065ENST00000540251CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000391920ENST00000366999CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000391920ENST00000366999CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000391920ENST00000540251CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000391920ENST00000540251CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000391921ENST00000366999CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000391921ENST00000366999CD55chr1

207512762

-NEK2chr1

211836994

-
Frame-shiftENST00000391921ENST00000540251CD55chr1

207512762

+NEK2chr1

211836970

-
Frame-shiftENST00000391921ENST00000540251CD55chr1

207512762

-NEK2chr1

211836994

-

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 CD55-NEK2


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)

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.

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Fusion Protein Features for CD55-NEK2


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/:207512762/:211836970)
- 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
CD55

P08174

NEK2

P51955

FUNCTION: This protein recognizes C4b and C3b fragments that condense with cell-surface hydroxyl or amino groups when nascent C4b and C3b are locally generated during C4 and c3 activation. Interaction of daf with cell-associated C4b and C3b polypeptides interferes with their ability to catalyze the conversion of C2 and factor B to enzymatically active C2a and Bb and thereby prevents the formation of C4b2a and C3bBb, the amplification convertases of the complement cascade (PubMed:7525274). Inhibits complement activation by destabilizing and preventing the formation of C3 and C5 convertases, which prevents complement damage (PubMed:28657829). {ECO:0000269|PubMed:7525274, ECO:0000305|PubMed:28657829}.; FUNCTION: (Microbial infection) Acts as a receptor for Coxsackievirus A21, coxsackieviruses B1, B3 and B5. {ECO:0000269|PubMed:9151867}.; FUNCTION: (Microbial infection) Acts as a receptor for Human enterovirus 70 and D68 (Probable). {ECO:0000269|PubMed:8764022}.; FUNCTION: (Microbial infection) Acts as a receptor for Human echoviruses 6, 7, 11, 12, 20 and 21. {ECO:0000269|PubMed:7525274, ECO:0000305|PubMed:12409401}.FUNCTION: Protein kinase which is involved in the control of centrosome separation and bipolar spindle formation in mitotic cells and chromatin condensation in meiotic cells. Regulates centrosome separation (essential for the formation of bipolar spindles and high-fidelity chromosome separation) by phosphorylating centrosomal proteins such as CROCC, CEP250 and NINL, resulting in their displacement from the centrosomes. Regulates kinetochore microtubule attachment stability in mitosis via phosphorylation of NDC80. Involved in regulation of mitotic checkpoint protein complex via phosphorylation of CDC20 and MAD2L1. Plays an active role in chromatin condensation during the first meiotic division through phosphorylation of HMGA2. Phosphorylates: PPP1CC; SGO1; NECAB3 and NPM1. Essential for localization of MAD2L1 to kinetochore and MAPK1 and NPM1 to the centrosome. Phosphorylates CEP68 and CNTLN directly or indirectly (PubMed:24554434). NEK2-mediated phosphorylation of CEP68 promotes CEP68 dissociation from the centrosome and its degradation at the onset of mitosis (PubMed:25704143). Involved in the regulation of centrosome disjunction (PubMed:26220856). {ECO:0000269|PubMed:11742531, ECO:0000269|PubMed:12857871, ECO:0000269|PubMed:14978040, ECO:0000269|PubMed:15358203, ECO:0000269|PubMed:15388344, ECO:0000269|PubMed:17283141, ECO:0000269|PubMed:17621308, ECO:0000269|PubMed:17626005, ECO:0000269|PubMed:18086858, ECO:0000269|PubMed:18297113, ECO:0000269|PubMed:20034488, ECO:0000269|PubMed:21076410, ECO:0000269|PubMed:24554434, ECO:0000269|PubMed:25704143, ECO:0000269|PubMed:26220856}.; FUNCTION: [Isoform 1]: Phosphorylates and activates NEK11 in G1/S-arrested cells. {ECO:0000269|PubMed:15161910}.; FUNCTION: [Isoform 2]: Not present in the nucleolus and, in contrast to isoform 1, does not phosphorylate and activate NEK11 in G1/S-arrested cells. {ECO:0000269|PubMed:15161910}.

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 CD55-NEK2


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 CD55-NEK2


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 CD55-NEK2


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 CD55-NEK2


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