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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:GNAQ-MAD1L1 (FusionGDB2 ID:HG2776TG8379)

Fusion Gene Summary for GNAQ-MAD1L1

check button Fusion gene summary
Fusion gene informationFusion gene name: GNAQ-MAD1L1
Fusion gene ID: hg2776tg8379
HgeneTgene
Gene symbol

GNAQ

MAD1L1

Gene ID

2776

8379

Gene nameG protein subunit alpha qmitotic arrest deficient 1 like 1
SynonymsCMC1|G-ALPHA-q|GAQ|SWSMAD1|PIG9|TP53I9|TXBP181
Cytomap('GNAQ')('MAD1L1')

9q21.2

7p22.3

Type of geneprotein-codingprotein-coding
Descriptionguanine nucleotide-binding protein G(q) subunit alphaepididymis secretory sperm binding proteinguanine nucleotide binding protein (G protein), q polypeptideguanine nucleotide-binding protein alpha-qmitotic spindle assembly checkpoint protein MAD1MAD1 mitotic arrest deficient like 1MAD1-like protein 1mitotic arrest deficient 1-like protein 1mitotic checkpoint MAD1 protein homologmitotic-arrest deficient 1, yeast, homolog-like 1tax-binding prote
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000286548, ENST00000397476, 
Fusion gene scores* DoF score13 X 11 X 6=85823 X 16 X 12=4416
# samples 1637
** MAII scorelog2(16/858*10)=-2.42290574261218
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(37/4416*10)=-3.57714299626186
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GNAQ [Title/Abstract] AND MAD1L1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGNAQ(80409379)-MAD1L1(1855864), # samples:1
Anticipated loss of major functional domain due to fusion event.GNAQ-MAD1L1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
GNAQ-MAD1L1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
GNAQ-MAD1L1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
GNAQ-MAD1L1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
GNAQ-MAD1L1 seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
GNAQ-MAD1L1 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
GNAQ-MAD1L1 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
GNAQ-MAD1L1 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
GNAQ-MAD1L1 seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor 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
TgeneMAD1L1

GO:0007094

mitotic spindle assembly checkpoint

18981471

TgeneMAD1L1

GO:0090235

regulation of metaphase plate congression

20133940


check buttonFusion gene breakpoints across GNAQ (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure
check buttonFusion gene breakpoints across MAD1L1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check button Fusion gene information
* 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
ChimerDB4Non-CancerERR315345GNAQchr9

80409379

-MAD1L1chr7

1855864

-


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Fusion Gene ORF analysis for GNAQ-MAD1L1

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-intronENST00000286548ENST00000486340GNAQchr9

80409379

-MAD1L1chr7

1855864

-
5CDS-intronENST00000397476ENST00000486340GNAQchr9

80409379

-MAD1L1chr7

1855864

-
Frame-shiftENST00000286548ENST00000265854GNAQchr9

80409379

-MAD1L1chr7

1855864

-
Frame-shiftENST00000286548ENST00000402746GNAQchr9

80409379

-MAD1L1chr7

1855864

-
Frame-shiftENST00000286548ENST00000406869GNAQchr9

80409379

-MAD1L1chr7

1855864

-
Frame-shiftENST00000397476ENST00000265854GNAQchr9

80409379

-MAD1L1chr7

1855864

-
Frame-shiftENST00000397476ENST00000402746GNAQchr9

80409379

-MAD1L1chr7

1855864

-
Frame-shiftENST00000397476ENST00000406869GNAQchr9

80409379

-MAD1L1chr7

1855864

-
In-frameENST00000286548ENST00000399654GNAQchr9

80409379

-MAD1L1chr7

1855864

-
In-frameENST00000397476ENST00000399654GNAQchr9

80409379

-MAD1L1chr7

1855864

-

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)
ENST00000286548GNAQchr980409379-ENST00000399654MAD1L1chr71855864-13939581991116305
ENST00000397476GNAQchr980409379-ENST00000399654MAD1L1chr71855864-958523491940149

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
ENST00000286548ENST00000399654GNAQchr980409379-MAD1L1chr71855864-0.0026253050.99737465
ENST00000397476ENST00000399654GNAQchr980409379-MAD1L1chr71855864-0.54317680.4568232

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Fusion Genomic Features for GNAQ-MAD1L1


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.
genomic feature

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Fusion Protein Features for GNAQ-MAD1L1


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/chr9:80409379/chr7:1855864)
- 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
..
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-57180_186245360.0Nucleotide bindingGTP
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-57205_209245360.0Nucleotide bindingGTP
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-5746_53245360.0Nucleotide bindingGTP
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-57178_186245360.0RegionG2 motif
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-57201_210245360.0RegionG3 motif
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-5741_54245360.0RegionG1 motif

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-5738_359245360.0DomainG-alpha
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-57274_277245360.0Nucleotide bindingGTP
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-57270_277245360.0RegionG4 motif
HgeneGNAQchr9:80409379chr7:1855864ENST00000286548-57329_334245360.0RegionG5 motif
TgeneMAD1L1chr9:80409379chr7:1855864ENST00000265854161846_632666719.0Coiled coilOntology_term=ECO:0000255
TgeneMAD1L1chr9:80409379chr7:1855864ENST00000399654171946_632666719.0Coiled coilOntology_term=ECO:0000255
TgeneMAD1L1chr9:80409379chr7:1855864ENST00000406869171946_632666719.0Coiled coilOntology_term=ECO:0000255


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Fusion Gene Sequence for GNAQ-MAD1L1


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.
>33602_33602_1_GNAQ-MAD1L1_GNAQ_chr9_80409379_ENST00000286548_MAD1L1_chr7_1855864_ENST00000399654_length(transcript)=1393nt_BP=958nt
CGTCGGCCCAGACTATCCGCTCCCACCGCGCCCCCGGCCCACCTGGTGGCCCCGGCCCTGGCCGCCGCCCCCGCGGCGGTTCCCGGAGCT
CGTCCCGGACGCGCGCCCGGGCGGCGGGGGCTCGGCGGCCACCGCTGCCTCGGGGGAGCGAGGGCGGGAGGGTGTGTGTGCGCGCTGTGA
GCAGGGGGTGCCGGCGGGGCTGCAGCGGAGGCACTTTGGAAGAATGACTCTGGAGTCCATCATGGCGTGCTGCCTGAGCGAGGAGGCCAA
GGAAGCCCGGCGGATCAACGACGAGATCGAGCGGCAGCTCCGCAGGGACAAGCGGGACGCCCGCCGGGAGCTCAAGCTGCTGCTGCTCGG
GACAGGAGAGAGTGGCAAGAGTACGTTTATCAAGCAGATGAGAATCATCCATGGGTCAGGATACTCTGATGAAGATAAAAGGGGCTTCAC
CAAGCTGGTGTATCAGAACATCTTCACGGCCATGCAGGCCATGATCAGAGCCATGGACACACTCAAGATCCCATACAAGTATGAGCACAA
TAAGGCTCATGCACAATTAGTTCGAGAAGTTGATGTGGAGAAGGTGTCTGCTTTTGAGAATCCATATGTAGATGCAATAAAGAGTTTATG
GAATGATCCTGGAATCCAGGAATGCTATGATAGACGACGAGAATATCAATTATCTGACTCTACCAAATACTATCTTAATGACTTGGACCG
CGTAGCTGACCCTGCCTACCTGCCTACGCAACAAGATGTGCTTAGAGTTCGAGTCCCCACCACAGGGATCATCGAATACCCCTTTGACTT
ACAAAGTGTCATTTTCAGAATGGTCGATGTAGGGGGCCAAAGGTCAGAGAGAAGAAAATGGATACACTGCTTTGAAAATGTCACCTCTAT
CATGTTTCTAGTAGCGCTTAGTGAATATGATCAAGTTCTCGTGGAGTCAGACAATGAGGCCACCAGCCCCTCGGGTTCCAAGATGCAGCT
ACTGGAGACAGAGTTCTCACACACCGTGGGCGAGCTCATCGAGGTGCACCTGCGGCGCCAGGACAGCATCCCTGCCTTCCTCAGCTCGCT
CACCCTCGAGCTCTTCAGCCGCCAGACCGTGGCGTAGCCTGCAGGCTCGGGGGCATAGCCGGAGCCACTCTGCTTGGCCTGACCTGCAGG
TCCCCTGCCCCGCCAGCCACAGGCTGGGTGCACGTCCTGCCTCTCCAGCCCCACAGGGCAGCAGCATGACTGACAGACACGCTGGGACCT
ACGTCGGGCTTCCTGCTGGGGCGGCCAGCACCCTCTCCACGTGCAGACCCCATGCGTCCCGGAGCCTGGTGTGTGGGCGTCGGCCACCAG

>33602_33602_1_GNAQ-MAD1L1_GNAQ_chr9_80409379_ENST00000286548_MAD1L1_chr7_1855864_ENST00000399654_length(amino acids)=305AA_BP=24
MQRRHFGRMTLESIMACCLSEEAKEARRINDEIERQLRRDKRDARRELKLLLLGTGESGKSTFIKQMRIIHGSGYSDEDKRGFTKLVYQN
IFTAMQAMIRAMDTLKIPYKYEHNKAHAQLVREVDVEKVSAFENPYVDAIKSLWNDPGIQECYDRRREYQLSDSTKYYLNDLDRVADPAY
LPTQQDVLRVRVPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNEATSPSGSKMQLLETEFS

--------------------------------------------------------------
>33602_33602_2_GNAQ-MAD1L1_GNAQ_chr9_80409379_ENST00000397476_MAD1L1_chr7_1855864_ENST00000399654_length(transcript)=958nt_BP=523nt
CACTGCACTCCAGCCTGCCAGCCTGGGTGACAGACCAAGACTCCTTCTCAAAGAAAAAAAAAAAAACAACTTCTAAATGCTTCATTACCG
TTTTTCATAGGATAAAGAGGCTCATGCACAATTAGTTCGAGAAGTTGATGTGGAGAAGGTGTCTGCTTTTGAGAATCCATATGTAGATGC
AATAAAGAGTTTATGGAATGATCCTGGAATCCAGGAATGCTATGATAGACGACGAGAATATCAATTATCTGACTCTACCAAATACTATCT
TAATGACTTGGACCGCGTAGCTGACCCTGCCTACCTGCCTACGCAACAAGATGTGCTTAGAGTTCGAGTCCCCACCACAGGGATCATCGA
ATACCCCTTTGACTTACAAAGTGTCATTTTCAGAATGGTCGATGTAGGGGGCCAAAGGTCAGAGAGAAGAAAATGGATACACTGCTTTGA
AAATGTCACCTCTATCATGTTTCTAGTAGCGCTTAGTGAATATGATCAAGTTCTCGTGGAGTCAGACAATGAGGCCACCAGCCCCTCGGG
TTCCAAGATGCAGCTACTGGAGACAGAGTTCTCACACACCGTGGGCGAGCTCATCGAGGTGCACCTGCGGCGCCAGGACAGCATCCCTGC
CTTCCTCAGCTCGCTCACCCTCGAGCTCTTCAGCCGCCAGACCGTGGCGTAGCCTGCAGGCTCGGGGGCATAGCCGGAGCCACTCTGCTT
GGCCTGACCTGCAGGTCCCCTGCCCCGCCAGCCACAGGCTGGGTGCACGTCCTGCCTCTCCAGCCCCACAGGGCAGCAGCATGACTGACA
GACACGCTGGGACCTACGTCGGGCTTCCTGCTGGGGCGGCCAGCACCCTCTCCACGTGCAGACCCCATGCGTCCCGGAGCCTGGTGTGTG

>33602_33602_2_GNAQ-MAD1L1_GNAQ_chr9_80409379_ENST00000397476_MAD1L1_chr7_1855864_ENST00000399654_length(amino acids)=149AA_BP=10
MIKFSWSQTMRPPAPRVPRCSYWRQSSHTPWASSSRCTCGARTASLPSSARSPSSSSAARPWRSLQARGHSRSHSAWPDLQVPCPASHRL

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Fusion Gene PPI Analysis for GNAQ-MAD1L1


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 GNAQ-MAD1L1


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 GNAQ-MAD1L1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneGNAQC0220633Uveal melanoma5CGI;CTD_human;ORPHANET
HgeneGNAQC0038505Sturge-Weber Syndrome3CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
HgeneGNAQC0346373Malignant melanoma of iris2ORPHANET
HgeneGNAQC0346388Malignant melanoma of choroid2ORPHANET
HgeneGNAQC0001925Albuminuria1CTD_human
HgeneGNAQC0005779Blood Coagulation Disorders1CTD_human
HgeneGNAQC0017668Focal glomerulosclerosis1CTD_human
HgeneGNAQC0018798Congenital Heart Defects1CTD_human
HgeneGNAQC0025202melanoma1CGI;CTD_human
HgeneGNAQC0086432Hyalinosis, Segmental Glomerular1CTD_human
HgeneGNAQC0235752Port-Wine Stain1CTD_human;ORPHANET
HgeneGNAQC0235753Congenital hemangioma1GENOMICS_ENGLAND
HgeneGNAQC0376634Craniofacial Abnormalities1CTD_human
HgeneGNAQC1274879Port-wine stain with oculocutaneous melanosis1GENOMICS_ENGLAND
HgeneGNAQC2931029Nevi flammei, familial multiple1ORPHANET
HgeneGNAQC3838883Phakomatosis cesioflammea1ORPHANET
TgeneC0036341Schizophrenia1PSYGENET
TgeneC0087031Juvenile-Onset Still Disease1CTD_human
TgeneC1336708Testicular Germ Cell Tumor1CTD_human
TgeneC2931456Prostate cancer, familial1CTD_human
TgeneC3495559Juvenile arthritis1CTD_human
TgeneC3714758Juvenile psoriatic arthritis1CTD_human
TgeneC4552091Polyarthritis, Juvenile, Rheumatoid Factor Negative1CTD_human
TgeneC4704862Polyarthritis, Juvenile, Rheumatoid Factor Positive1CTD_human
TgeneC4722327PROSTATE CANCER, HEREDITARY, 11CTD_human