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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 26327

FusionGeneSummary for PC_KDM2A

check button Fusion gene summary
Fusion gene informationFusion gene name: PC_KDM2A
Fusion gene ID: 26327
HgeneTgene
Gene symbol

PC

KDM2A

Gene ID

5420

22992

Gene namepodocalyxin likelysine demethylase 2A
SynonymsGp200|PC|PCLP|PCLP-1CXXC8|FBL11|FBL7|FBXL11|JHDM1A|LILINA
Cytomap

7q32.3

11q13.2

Type of geneprotein-codingprotein-coding
DescriptionpodocalyxinGCTM-2 antigenpodocalyxin-like protein 1lysine-specific demethylase 2ACXXC-type zinc finger protein 8F-box and leucine-rich repeat protein 11F-box/LRR-repeat protein 11[Histone-H3]-lysine-36 demethylase 1AjmjC domain-containing histone demethylation protein 1Ajumonji C domain-containing h
Modification date2018052720180519
UniProtAcc

P11498

Q9Y2K7

Ensembl transtripts involved in fusion geneENST00000393958, ENST00000393960, 
ENST00000355677, ENST00000524491, 
ENST00000529047, ENST00000393955, 
ENST00000528224, 		ENST00000398645, 
ENST00000529006, ENST00000526258, 
ENST00000308783, ENST00000530342, 
Fusion gene scores* DoF score15 X 6 X 7=63016 X 14 X 7=1568
# samples 1518
** MAII scorelog2(15/630*10)=-2.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(18/1568*10)=-3.12285674778553
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PC [Title/Abstract] AND KDM2A [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* 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
HgenePC

GO:0030335

positive regulation of cell migration

18456258

HgenePC

GO:0033634

positive regulation of cell-cell adhesion mediated by integrin

18456258


check button 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 typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGARVLUSCTCGA-85-8584-01APCchr11

66719901

-KDM2Achr11

67012660

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

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
5UTR-3CDSENST00000393958ENST00000398645PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3CDSENST00000393958ENST00000529006PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3UTRENST00000393958ENST00000526258PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-5UTRENST00000393958ENST00000308783PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-5UTRENST00000393958ENST00000530342PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3CDSENST00000393960ENST00000398645PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3CDSENST00000393960ENST00000529006PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3UTRENST00000393960ENST00000526258PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-5UTRENST00000393960ENST00000308783PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-5UTRENST00000393960ENST00000530342PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3CDSENST00000355677ENST00000398645PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3CDSENST00000355677ENST00000529006PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3UTRENST00000355677ENST00000526258PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-5UTRENST00000355677ENST00000308783PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-5UTRENST00000355677ENST00000530342PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3CDSENST00000524491ENST00000398645PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3CDSENST00000524491ENST00000529006PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-3UTRENST00000524491ENST00000526258PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-5UTRENST00000524491ENST00000308783PCchr11

66719901

-KDM2Achr11

67012660

+
5UTR-5UTRENST00000524491ENST00000530342PCchr11

66719901

-KDM2Achr11

67012660

+
intron-3CDSENST00000529047ENST00000398645PCchr11

66719901

-KDM2Achr11

67012660

+
intron-3CDSENST00000529047ENST00000529006PCchr11

66719901

-KDM2Achr11

67012660

+
intron-3UTRENST00000529047ENST00000526258PCchr11

66719901

-KDM2Achr11

67012660

+
intron-5UTRENST00000529047ENST00000308783PCchr11

66719901

-KDM2Achr11

67012660

+
intron-5UTRENST00000529047ENST00000530342PCchr11

66719901

-KDM2Achr11

67012660

+
intron-3CDSENST00000393955ENST00000398645PCchr11

66719901

-KDM2Achr11

67012660

+
intron-3CDSENST00000393955ENST00000529006PCchr11

66719901

-KDM2Achr11

67012660

+
intron-3UTRENST00000393955ENST00000526258PCchr11

66719901

-KDM2Achr11

67012660

+
intron-5UTRENST00000393955ENST00000308783PCchr11

66719901

-KDM2Achr11

67012660

+
intron-5UTRENST00000393955ENST00000530342PCchr11

66719901

-KDM2Achr11

67012660

+
intron-3CDSENST00000528224ENST00000398645PCchr11

66719901

-KDM2Achr11

67012660

+
intron-3CDSENST00000528224ENST00000529006PCchr11

66719901

-KDM2Achr11

67012660

+
intron-3UTRENST00000528224ENST00000526258PCchr11

66719901

-KDM2Achr11

67012660

+
intron-5UTRENST00000528224ENST00000308783PCchr11

66719901

-KDM2Achr11

67012660

+
intron-5UTRENST00000528224ENST00000530342PCchr11

66719901

-KDM2Achr11

67012660

+

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FusionProtFeatures for PC_KDM2A


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

P11498

KDM2A

Q9Y2K7

Pyruvate carboxylase catalyzes a 2-step reaction,involving the ATP-dependent carboxylation of the covalentlyattached biotin in the first step and the transfer of the carboxylgroup to pyruvate in the second. Catalyzes in a tissue specificmanner, the initial reactions of glucose (liver, kidney) and lipid(adipose tissue, liver, brain) synthesis from pyruvate.

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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FusionGeneSequence for PC_KDM2A


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for PC_KDM2A


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
PCMDH2, GOT1, NPM1, UBE2N, ILF2, ILF3, MTHFD1, CDH2, RPS3A, NACA, PPT2, PRKCDBP, TUFM, IFIT1, ADRB2, HECW2, HUWE1, EGFR, TSHR, KLK5, DTWD2, ANTXR1, DNASE2B, CBWD1, PSG1, THBS3, CAD, CCT6A, COPB1, CYP27A1, FASN, KPNA4, ATP1A1, CANX, CCT3, GNB2, PPP2R1A, RPN1, RPN2, SLC25A3, PFAS, UQCRC2, NTRK1, PTEN, ERBB2, XRCC3, RAB7A, DYNLL1, WWP2, ZNF746, PTPN9, STRAP, DEFA5, ASS1, HSD3B2, BPNT1, SLAMF1, LRP1, TPSB2, YBEY, EPHA7, TESKDM2ARELA, FOS, BCL6, ELAVL1, KIAA0368, HIST2H3C, SKP1, HIST3H3, SMAD7, SMAD3, ZNF512B, MPG, UBE2G2, RB1, E2F1, EED, ACTR1B, ARHGEF7, PSMB3, RANGAP1, PPP1R2, STAG2, KRAS, HIST1H2BG, RAB5C, REEP5, CBX4, KIF20B, RBPJ, ATM, CGB2, TRIM25, UHRF2


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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RelatedDrugs for PC_KDM2A


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgenePCP11498DB00121BiotinPyruvate carboxylase, mitochondrialsmall moleculeapproved|investigational|nutraceutical

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RelatedDiseases for PC_KDM2A


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgenePCC0006413Burkitt Lymphoma1CTD_human
HgenePCC0023893Liver Cirrhosis, Experimental1CTD_human
HgenePCC0034341Pyruvate Carboxylase Deficiency Disease1CTD_human;UNIPROT