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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: 39569

FusionGeneSummary for TRIOBP_NDE1

check button Fusion gene summary
Fusion gene informationFusion gene name: TRIOBP_NDE1
Fusion gene ID: 39569
HgeneTgene
Gene symbol

TRIOBP

NDE1

Gene ID

11078

54820

Gene nameTRIO and F-actin binding proteinnudE neurodevelopment protein 1
SynonymsDFNB28|HRIHFB2122|TAP68|TARA|dJ37E16.4HOM-TES-87|LIS4|MHAC|NDE|NUDE|NUDE1
Cytomap

22q13.1

16p13.11

Type of geneprotein-codingprotein-coding
DescriptionTRIO and F-actin-binding proteinprotein Taratara-like proteintrio-associated repeat on actinnuclear distribution protein nudE homolog 1LIS1-interacting protein NUDE1, rat homolognudE nuclear distribution E homolog 1nudE nuclear distribution gene E homolog 1
Modification date2018052020180523
UniProtAcc

Q9H2D6

Q9NXR1

Ensembl transtripts involved in fusion geneENST00000406386, ENST00000407319, 
ENST00000403663, 
ENST00000396353, 
ENST00000396355, ENST00000396354, 
ENST00000342673, ENST00000571896, 
Fusion gene scores* DoF score6 X 6 X 5=18013 X 17 X 2=442
# samples 619
** MAII scorelog2(6/180*10)=-1.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(19/442*10)=-1.21804695106048
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TRIOBP [Title/Abstract] AND NDE1 [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
HgeneTRIOBP

GO:1900026

positive regulation of substrate adhesion-dependent cell spreading

11148140


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
ChiTaRS3.1BM913836TRIOBPchr22

38153945

+NDE1chr16

15785061

+
* 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
Frame-shiftENST00000406386ENST00000396353TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000406386ENST00000396355TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000406386ENST00000396354TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000406386ENST00000342673TRIOBPchr22

38153945

+NDE1chr16

15785061

+
5CDS-intronENST00000406386ENST00000571896TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000407319ENST00000396353TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000407319ENST00000396355TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000407319ENST00000396354TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000407319ENST00000342673TRIOBPchr22

38153945

+NDE1chr16

15785061

+
5CDS-intronENST00000407319ENST00000571896TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000403663ENST00000396353TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000403663ENST00000396355TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000403663ENST00000396354TRIOBPchr22

38153945

+NDE1chr16

15785061

+
Frame-shiftENST00000403663ENST00000342673TRIOBPchr22

38153945

+NDE1chr16

15785061

+
5CDS-intronENST00000403663ENST00000571896TRIOBPchr22

38153945

+NDE1chr16

15785061

+

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FusionProtFeatures for TRIOBP_NDE1


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

Q9H2D6

NDE1

Q9NXR1

Required for centrosome duplication and formation andfunction of the mitotic spindle. Essential for the development ofthe cerebral cortex. May regulate the production of neurons bycontrolling the orientation of the mitotic spindle during divisionof cortical neuronal progenitors of the proliferative ventricularzone of the brain. Orientation of the division plane perpendicularto the layers of the cortex gives rise to two proliferativeneuronal progenitors whereas parallel orientation of the divisionplane yields one proliferative neuronal progenitor and a post-mitotic neuron. A premature shift towards a neuronal fate withinthe progenitor population may result in an overall reduction inthe final number of neurons and an increase in the number ofneurons in the deeper layers of the cortex.{ECO:0000269|PubMed:17600710, ECO:0000269|PubMed:21529752}.

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 TRIOBP_NDE1


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 TRIOBP_NDE1


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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RelatedDrugs for TRIOBP_NDE1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for TRIOBP_NDE1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneTRIOBPC1853276Deafness, Autosomal Recessive 281CTD_human;UNIPROT
TgeneNDE1C0036341Schizophrenia4PSYGENET
TgeneNDE1C0033975Psychotic Disorders1PSYGENET
TgeneNDE1C0349204Nonorganic psychosis1PSYGENET