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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:NCL-NPY (FusionGDB2 ID:HG4691TG4852)

Fusion Gene Summary for NCL-NPY

check button Fusion gene summary
Fusion gene informationFusion gene name: NCL-NPY
Fusion gene ID: hg4691tg4852
HgeneTgene
Gene symbol

NCL

NPY

Gene ID

4691

4852

Gene namenucleolinneuropeptide Y
SynonymsC23|Nsr1PYY4
Cytomap('NCL')('NPY')

2q37.1

7p15.3

Type of geneprotein-codingprotein-coding
Descriptionnucleolinpro-neuropeptide Yprepro-neuropeptide Y
Modification date2020031320200313
UniProtAcc

P19338

P01303

Ensembl transtripts involved in fusion geneENST00000322723, 
Fusion gene scores* DoF score25 X 25 X 6=37506 X 8 X 4=192
# samples 287
** MAII scorelog2(28/3750*10)=-3.74339186332564
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(7/192*10)=-1.45567948377619
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: NCL [Title/Abstract] AND NPY [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointNCL(232323022)-NPY(24331284), # samples:1
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
HgeneNCL

GO:0001525

angiogenesis

16403913



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
ChiTaRS5.0N/AAV718213NCLchr2

232323022

-NPYchr7

24331284

+


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Fusion Gene ORF analysis for NCL-NPY

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
intron-3CDSENST00000322723ENST00000242152NCLchr2

232323022

-NPYchr7

24331284

+
intron-3CDSENST00000322723ENST00000405982NCLchr2

232323022

-NPYchr7

24331284

+
intron-3CDSENST00000322723ENST00000407573NCLchr2

232323022

-NPYchr7

24331284

+

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 NCL-NPY


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)


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Fusion Protein Features for NCL-NPY


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/:232323022/:24331284)
- 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
NCL

P19338

NPY

P01303

FUNCTION: Nucleolin is the major nucleolar protein of growing eukaryotic cells. It is found associated with intranucleolar chromatin and pre-ribosomal particles. It induces chromatin decondensation by binding to histone H1. It is thought to play a role in pre-rRNA transcription and ribosome assembly. May play a role in the process of transcriptional elongation. Binds RNA oligonucleotides with 5'-UUAGGG-3' repeats more tightly than the telomeric single-stranded DNA 5'-TTAGGG-3' repeats. {ECO:0000269|PubMed:10393184}.FUNCTION: NPY is implicated in the control of feeding and in secretion of gonadotrophin-release hormone.

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 NCL-NPY


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 NCL-NPY


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 NCL-NPY


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
TgeneNPYP01303DB00191PhentermineInhibitorSmall moleculeApproved|Illicit

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Related Diseases for NCL-NPY


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneNCLC0151744Myocardial Ischemia1CTD_human
HgeneNCLC0152013Adenocarcinoma of lung (disorder)1CTD_human
TgeneC0011581Depressive disorder7CTD_human;PSYGENET
TgeneC0041696Unipolar Depression7CTD_human;PSYGENET
TgeneC0001973Alcoholic Intoxication, Chronic6CTD_human;PSYGENET
TgeneC0011570Mental Depression5PSYGENET
TgeneC0525045Mood Disorders5PSYGENET
TgeneC1269683Major Depressive Disorder5PSYGENET
TgeneC0003123Anorexia3CTD_human
TgeneC0022333Jacksonian Seizure3CTD_human
TgeneC0036572Seizures3CTD_human
TgeneC0085762Alcohol abuse3CTD_human;PSYGENET
TgeneC0149958Complex partial seizures3CTD_human
TgeneC0234533Generalized seizures3CTD_human
TgeneC0234535Clonic Seizures3CTD_human
TgeneC0270824Visual seizure3CTD_human
TgeneC0270844Tonic Seizures3CTD_human
TgeneC0270846Epileptic drop attack3CTD_human
TgeneC0422850Seizures, Somatosensory3CTD_human
TgeneC0422852Seizures, Auditory3CTD_human
TgeneC0422853Olfactory seizure3CTD_human
TgeneC0422854Gustatory seizure3CTD_human
TgeneC0422855Vertiginous seizure3CTD_human
TgeneC0494475Tonic - clonic seizures3CTD_human
TgeneC0751056Non-epileptic convulsion3CTD_human
TgeneC0751110Single Seizure3CTD_human
TgeneC0751123Atonic Absence Seizures3CTD_human
TgeneC0751494Convulsive Seizures3CTD_human
TgeneC0751495Seizures, Focal3CTD_human
TgeneC0751496Seizures, Sensory3CTD_human
TgeneC3495874Nonepileptic Seizures3CTD_human
TgeneC4048158Convulsions3CTD_human
TgeneC4316903Absence Seizures3CTD_human
TgeneC4317109Epileptic Seizures3CTD_human
TgeneC4317123Myoclonic Seizures3CTD_human
TgeneC4505436Generalized Absence Seizures3CTD_human
TgeneC0011573Endogenous depression2CTD_human
TgeneC0014544Epilepsy2CTD_human
TgeneC0025193Melancholia2CTD_human
TgeneC0036341Schizophrenia2PSYGENET
TgeneC0086133Depressive Syndrome2CTD_human
TgeneC0086237Epilepsy, Cryptogenic2CTD_human
TgeneC0236018Aura2CTD_human
TgeneC0282126Depression, Neurotic2CTD_human
TgeneC0600427Cocaine Dependence2CTD_human;PSYGENET
TgeneC0751111Awakening Epilepsy2CTD_human
TgeneC0001956Alcohol Use Disorder1CTD_human
TgeneC0002395Alzheimer's Disease1CTD_human
TgeneC0003469Anxiety Disorders1CTD_human
TgeneC0004096Asthma1CTD_human
TgeneC0007222Cardiovascular Diseases1CTD_human
TgeneC0007785Cerebral Infarction1CTD_human
TgeneC0008677Bronchitis, Chronic1CTD_human
TgeneC0009171Cocaine Abuse1CTD_human
TgeneC0011265Presenile dementia1CTD_human
TgeneC0013146Drug abuse1CTD_human
TgeneC0013170Drug habituation1CTD_human
TgeneC0013222Drug Use Disorders1CTD_human
TgeneC0014556Epilepsy, Temporal Lobe1CTD_human
TgeneC0014558Uncinate Epilepsy1CTD_human
TgeneC0020564Hypertrophy1CTD_human
TgeneC0025261Memory Disorders1CTD_human
TgeneC0026837Muscle Rigidity1CTD_human
TgeneC0027429Nasal obstruction present finding1CTD_human
TgeneC0029231Organic Mental Disorders, Substance-Induced1CTD_human
TgeneC0035455Rhinitis1CTD_human
TgeneC0036337Schizoaffective Disorder1PSYGENET
TgeneC0038580Substance Dependence1CTD_human
TgeneC0038586Substance Use Disorders1CTD_human
TgeneC0038587Substance Withdrawal Syndrome1CTD_human
TgeneC0085159Seasonal Affective Disorder1PSYGENET
TgeneC0086189Drug Withdrawal Symptoms1CTD_human
TgeneC0087169Withdrawal Symptoms1CTD_human
TgeneC0151564Cogwheel Rigidity1CTD_human
TgeneC0231519Gegenhalten1CTD_human
TgeneC0233608Catatonic Rigidity1CTD_human
TgeneC0233794Memory impairment1CTD_human
TgeneC0236664Alcohol-Related Disorders1PSYGENET
TgeneC0236736Cocaine-Related Disorders1CTD_human
TgeneC0236969Substance-Related Disorders1CTD_human
TgeneC0239325Extensor Rigidity1CTD_human
TgeneC0276496Familial Alzheimer Disease (FAD)1CTD_human
TgeneC0277821Extrapyramidal Rigidity1CTD_human
TgeneC0376280Anxiety States, Neurotic1CTD_human
TgeneC0393672Epilepsy, Benign Psychomotor, Childhood1CTD_human
TgeneC0393682Epilepsy, Lateral Temporal1CTD_human
TgeneC0494463Alzheimer Disease, Late Onset1CTD_human
TgeneC0546126Acute Confusional Senile Dementia1CTD_human
TgeneC0740858Substance abuse problem1CTD_human
TgeneC0750900Alzheimer's Disease, Focal Onset1CTD_human
TgeneC0750901Alzheimer Disease, Early Onset1CTD_human
TgeneC0751010Cerebral Infarction, Left Hemisphere1CTD_human
TgeneC0751011Cerebral Infarction, Right Hemisphere1CTD_human
TgeneC0751012Anterior Choroidal Artery Infarction1CTD_human
TgeneC0751014Subcortical Infarction1CTD_human
TgeneC0751217Hyperkinesia, Generalized1CTD_human
TgeneC0751292Age-Related Memory Disorders1CTD_human
TgeneC0751293Memory Disorder, Semantic1CTD_human
TgeneC0751294Memory Disorder, Spatial1CTD_human
TgeneC0751295Memory Loss1CTD_human
TgeneC0887799Posterior Choroidal Artery Infarction1CTD_human
TgeneC1262477Weight decreased1CTD_human
TgeneC1279420Anxiety neurosis (finding)1CTD_human
TgeneC1320474Nuchal Rigidity1CTD_human
TgeneC1510472Drug Dependence1CTD_human
TgeneC2350170Unilateral Nasal Obstruction1CTD_human
TgeneC2350171Bilateral Nasal Obstruction1CTD_human
TgeneC2362914clinical depression1PSYGENET
TgeneC3887506Hyperkinesia1CTD_human
TgeneC4316881Prescription Drug Abuse1CTD_human
TgeneC4721453Peripheral Nervous System Diseases1CTD_human