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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:NPY-CHGA (FusionGDB2 ID:HG4852TG1113)

Fusion Gene Summary for NPY-CHGA

check button Fusion gene summary
Fusion gene informationFusion gene name: NPY-CHGA
Fusion gene ID: hg4852tg1113
HgeneTgene
Gene symbol

NPY

CHGA

Gene ID

4852

1113

Gene nameneuropeptide Ychromogranin A
SynonymsPYY4CGA
Cytomap('NPY')('CHGA')

7p15.3

14q32.12

Type of geneprotein-codingprotein-coding
Descriptionpro-neuropeptide Yprepro-neuropeptide Ychromogranin-ASP-Ibetagranin (N-terminal fragment of chromogranin A)catestatinchromofunginparathyroid secretory protein 1pituitary secretory protein I
Modification date2020031320200315
UniProtAcc

P01303

P10645

Ensembl transtripts involved in fusion geneENST00000242152, ENST00000407573, 
ENST00000405982, 
Fusion gene scores* DoF score5 X 4 X 2=4014 X 26 X 3=1092
# samples 519
** MAII scorelog2(5/40*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(19/1092*10)=-2.5229015325889
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

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

Most frequent breakpointNPY(24323872)-CHGA(93401361), # 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
TgeneCHGA

GO:0002551

mast cell chemotaxis

21214543

TgeneCHGA

GO:0032762

mast cell cytokine production

21214543

TgeneCHGA

GO:0033604

negative regulation of catecholamine secretion

15326220

TgeneCHGA

GO:0043303

mast cell degranulation

21214543

TgeneCHGA

GO:0045576

mast cell activation

21214543

TgeneCHGA

GO:0050829

defense response to Gram-negative bacterium

15723172

TgeneCHGA

GO:0050830

defense response to Gram-positive bacterium

15723172



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
ChimerDB4PCPGTCGA-SR-A6MY-01ANPYchr7

24323872

+CHGAchr14

93401361

+


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Fusion Gene ORF analysis for NPY-CHGA

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-3UTRENST00000242152ENST00000216492NPYchr7

24323872

+CHGAchr14

93401361

+
5UTR-3UTRENST00000242152ENST00000334654NPYchr7

24323872

+CHGAchr14

93401361

+
5UTR-3UTRENST00000407573ENST00000216492NPYchr7

24323872

+CHGAchr14

93401361

+
5UTR-3UTRENST00000407573ENST00000334654NPYchr7

24323872

+CHGAchr14

93401361

+
5UTR-intronENST00000242152ENST00000553866NPYchr7

24323872

+CHGAchr14

93401361

+
5UTR-intronENST00000407573ENST00000553866NPYchr7

24323872

+CHGAchr14

93401361

+
intron-3UTRENST00000405982ENST00000216492NPYchr7

24323872

+CHGAchr14

93401361

+
intron-3UTRENST00000405982ENST00000334654NPYchr7

24323872

+CHGAchr14

93401361

+
intron-intronENST00000405982ENST00000553866NPYchr7

24323872

+CHGAchr14

93401361

+

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 NPY-CHGA


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 NPY-CHGA


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/:24323872/:93401361)
- 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
NPY

P01303

CHGA

P10645

FUNCTION: NPY is implicated in the control of feeding and in secretion of gonadotrophin-release hormone.FUNCTION: [Pancreastatin]: Strongly inhibits glucose induced insulin release from the pancreas.; FUNCTION: [Catestatin]: Inhibits catecholamine release from chromaffin cells and noradrenergic neurons by acting as a non-competitive nicotinic cholinergic antagonist (PubMed:15326220). Displays antibacterial activity against Gram-positive bacteria S.aureus and M.luteus, and Gram-negative bacteria E.coli and P.aeruginosa (PubMed:15723172 and PubMed:24723458). Can induce mast cell migration, degranulation and production of cytokines and chemokines (PubMed:21214543). Acts as a potent scavenger of free radicals in vitro (PubMed:24723458). May play a role in the regulation of cardiac function and blood pressure (PubMed:18541522). {ECO:0000269|PubMed:15326220, ECO:0000269|PubMed:15723172, ECO:0000269|PubMed:21214543, ECO:0000269|PubMed:24723458, ECO:0000303|PubMed:18541522}.; FUNCTION: [Serpinin]: Regulates granule biogenesis in endocrine cells by up-regulating the transcription of protease nexin 1 (SERPINE2) via a cAMP-PKA-SP1 pathway. This leads to inhibition of granule protein degradation in the Golgi complex which in turn promotes granule formation. {ECO:0000250|UniProtKB:P26339}.

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 NPY-CHGA


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 NPY-CHGA


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 NPY-CHGA


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgeneNPYP01303DB00191PhentermineInhibitorSmall moleculeApproved|Illicit

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Related Diseases for NPY-CHGA


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneNPYC0011581Depressive disorder7CTD_human;PSYGENET
HgeneNPYC0041696Unipolar Depression7CTD_human;PSYGENET
HgeneNPYC0001973Alcoholic Intoxication, Chronic6CTD_human;PSYGENET
HgeneNPYC0011570Mental Depression5PSYGENET
HgeneNPYC0525045Mood Disorders5PSYGENET
HgeneNPYC1269683Major Depressive Disorder5PSYGENET
HgeneNPYC0003123Anorexia3CTD_human
HgeneNPYC0022333Jacksonian Seizure3CTD_human
HgeneNPYC0036572Seizures3CTD_human
HgeneNPYC0085762Alcohol abuse3CTD_human;PSYGENET
HgeneNPYC0149958Complex partial seizures3CTD_human
HgeneNPYC0234533Generalized seizures3CTD_human
HgeneNPYC0234535Clonic Seizures3CTD_human
HgeneNPYC0270824Visual seizure3CTD_human
HgeneNPYC0270844Tonic Seizures3CTD_human
HgeneNPYC0270846Epileptic drop attack3CTD_human
HgeneNPYC0422850Seizures, Somatosensory3CTD_human
HgeneNPYC0422852Seizures, Auditory3CTD_human
HgeneNPYC0422853Olfactory seizure3CTD_human
HgeneNPYC0422854Gustatory seizure3CTD_human
HgeneNPYC0422855Vertiginous seizure3CTD_human
HgeneNPYC0494475Tonic - clonic seizures3CTD_human
HgeneNPYC0751056Non-epileptic convulsion3CTD_human
HgeneNPYC0751110Single Seizure3CTD_human
HgeneNPYC0751123Atonic Absence Seizures3CTD_human
HgeneNPYC0751494Convulsive Seizures3CTD_human
HgeneNPYC0751495Seizures, Focal3CTD_human
HgeneNPYC0751496Seizures, Sensory3CTD_human
HgeneNPYC3495874Nonepileptic Seizures3CTD_human
HgeneNPYC4048158Convulsions3CTD_human
HgeneNPYC4316903Absence Seizures3CTD_human
HgeneNPYC4317109Epileptic Seizures3CTD_human
HgeneNPYC4317123Myoclonic Seizures3CTD_human
HgeneNPYC4505436Generalized Absence Seizures3CTD_human
HgeneNPYC0011573Endogenous depression2CTD_human
HgeneNPYC0014544Epilepsy2CTD_human
HgeneNPYC0025193Melancholia2CTD_human
HgeneNPYC0036341Schizophrenia2PSYGENET
HgeneNPYC0086133Depressive Syndrome2CTD_human
HgeneNPYC0086237Epilepsy, Cryptogenic2CTD_human
HgeneNPYC0236018Aura2CTD_human
HgeneNPYC0282126Depression, Neurotic2CTD_human
HgeneNPYC0600427Cocaine Dependence2CTD_human;PSYGENET
HgeneNPYC0751111Awakening Epilepsy2CTD_human
HgeneNPYC0001956Alcohol Use Disorder1CTD_human
HgeneNPYC0002395Alzheimer's Disease1CTD_human
HgeneNPYC0003469Anxiety Disorders1CTD_human
HgeneNPYC0004096Asthma1CTD_human
HgeneNPYC0007222Cardiovascular Diseases1CTD_human
HgeneNPYC0007785Cerebral Infarction1CTD_human
HgeneNPYC0008677Bronchitis, Chronic1CTD_human
HgeneNPYC0009171Cocaine Abuse1CTD_human
HgeneNPYC0011265Presenile dementia1CTD_human
HgeneNPYC0013146Drug abuse1CTD_human
HgeneNPYC0013170Drug habituation1CTD_human
HgeneNPYC0013222Drug Use Disorders1CTD_human
HgeneNPYC0014556Epilepsy, Temporal Lobe1CTD_human
HgeneNPYC0014558Uncinate Epilepsy1CTD_human
HgeneNPYC0020564Hypertrophy1CTD_human
HgeneNPYC0025261Memory Disorders1CTD_human
HgeneNPYC0026837Muscle Rigidity1CTD_human
HgeneNPYC0027429Nasal obstruction present finding1CTD_human
HgeneNPYC0029231Organic Mental Disorders, Substance-Induced1CTD_human
HgeneNPYC0035455Rhinitis1CTD_human
HgeneNPYC0036337Schizoaffective Disorder1PSYGENET
HgeneNPYC0038580Substance Dependence1CTD_human
HgeneNPYC0038586Substance Use Disorders1CTD_human
HgeneNPYC0038587Substance Withdrawal Syndrome1CTD_human
HgeneNPYC0085159Seasonal Affective Disorder1PSYGENET
HgeneNPYC0086189Drug Withdrawal Symptoms1CTD_human
HgeneNPYC0087169Withdrawal Symptoms1CTD_human
HgeneNPYC0151564Cogwheel Rigidity1CTD_human
HgeneNPYC0231519Gegenhalten1CTD_human
HgeneNPYC0233608Catatonic Rigidity1CTD_human
HgeneNPYC0233794Memory impairment1CTD_human
HgeneNPYC0236664Alcohol-Related Disorders1PSYGENET
HgeneNPYC0236736Cocaine-Related Disorders1CTD_human
HgeneNPYC0236969Substance-Related Disorders1CTD_human
HgeneNPYC0239325Extensor Rigidity1CTD_human
HgeneNPYC0276496Familial Alzheimer Disease (FAD)1CTD_human
HgeneNPYC0277821Extrapyramidal Rigidity1CTD_human
HgeneNPYC0376280Anxiety States, Neurotic1CTD_human
HgeneNPYC0393672Epilepsy, Benign Psychomotor, Childhood1CTD_human
HgeneNPYC0393682Epilepsy, Lateral Temporal1CTD_human
HgeneNPYC0494463Alzheimer Disease, Late Onset1CTD_human
HgeneNPYC0546126Acute Confusional Senile Dementia1CTD_human
HgeneNPYC0740858Substance abuse problem1CTD_human
HgeneNPYC0750900Alzheimer's Disease, Focal Onset1CTD_human
HgeneNPYC0750901Alzheimer Disease, Early Onset1CTD_human
HgeneNPYC0751010Cerebral Infarction, Left Hemisphere1CTD_human
HgeneNPYC0751011Cerebral Infarction, Right Hemisphere1CTD_human
HgeneNPYC0751012Anterior Choroidal Artery Infarction1CTD_human
HgeneNPYC0751014Subcortical Infarction1CTD_human
HgeneNPYC0751217Hyperkinesia, Generalized1CTD_human
HgeneNPYC0751292Age-Related Memory Disorders1CTD_human
HgeneNPYC0751293Memory Disorder, Semantic1CTD_human
HgeneNPYC0751294Memory Disorder, Spatial1CTD_human
HgeneNPYC0751295Memory Loss1CTD_human
HgeneNPYC0887799Posterior Choroidal Artery Infarction1CTD_human
HgeneNPYC1262477Weight decreased1CTD_human
HgeneNPYC1279420Anxiety neurosis (finding)1CTD_human
HgeneNPYC1320474Nuchal Rigidity1CTD_human
HgeneNPYC1510472Drug Dependence1CTD_human
HgeneNPYC2350170Unilateral Nasal Obstruction1CTD_human
HgeneNPYC2350171Bilateral Nasal Obstruction1CTD_human
HgeneNPYC2362914clinical depression1PSYGENET
HgeneNPYC3887506Hyperkinesia1CTD_human
HgeneNPYC4316881Prescription Drug Abuse1CTD_human
HgeneNPYC4721453Peripheral Nervous System Diseases1CTD_human
TgeneC0007131Non-Small Cell Lung Carcinoma1CTD_human
TgeneC0031511Pheochromocytoma1CTD_human
TgeneC0036341Schizophrenia1PSYGENET
TgeneC1257877Pheochromocytoma, Extra-Adrenal1CTD_human