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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:NOL10-HDAC1 (FusionGDB2 ID:59520)

Fusion Gene Summary for NOL10-HDAC1

check button Fusion gene summary
Fusion gene informationFusion gene name: NOL10-HDAC1
Fusion gene ID: 59520
HgeneTgene
Gene symbol

NOL10

HDAC1

Gene ID

79954

3065

Gene namenucleolar protein 10histone deacetylase 1
SynonymsPQBP5GON-10|HD1|KDAC1|RPD3|RPD3L1
Cytomap

2p25.1

1p35.2-p35.1

Type of geneprotein-codingprotein-coding
Descriptionnucleolar protein 10H_NH0074G24.1polyglutamine binding protein 5histone deacetylase 1reduced potassium dependency, yeast homolog-like 1
Modification date2020031320200327
UniProtAcc.

Q96DB2

Ensembl transtripts involved in fusion geneENST00000345985, ENST00000381685, 
ENST00000538384, ENST00000542668, 
ENST00000373541, ENST00000490081, 
ENST00000373548, 
Fusion gene scores* DoF score7 X 7 X 4=19612 X 11 X 6=792
# samples 813
** MAII scorelog2(8/196*10)=-1.29278174922785
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(13/792*10)=-2.60698880705116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: NOL10 [Title/Abstract] AND HDAC1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointNOL10(10794607)-HDAC1(32782266), # samples:1
Anticipated loss of major functional domain due to fusion event.NOL10-HDAC1 seems lost the major protein functional domain in Tgene partner, which is a epigenetic factor due to the frame-shifted ORF.
NOL10-HDAC1 seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
NOL10-HDAC1 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
TgeneHDAC1

GO:0000122

negative regulation of transcription by RNA polymerase II

18854353

TgeneHDAC1

GO:0006476

protein deacetylation

17172643|23629966

TgeneHDAC1

GO:0045893

positive regulation of transcription, DNA-templated

16762839

TgeneHDAC1

GO:0045944

positive regulation of transcription by RNA polymerase II

16762839

TgeneHDAC1

GO:0060766

negative regulation of androgen receptor signaling pathway

15919722

TgeneHDAC1

GO:0070932

histone H3 deacetylation

12590135

TgeneHDAC1

GO:0070933

histone H4 deacetylation

12590135


check buttonFusion gene breakpoints across NOL10 (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 HDAC1 (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 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
ChimerDB4PRADTCGA-J4-A6G3-01ANOL10chr2

10794607

-HDAC1chr1

32782266

+


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Fusion Gene ORF analysis for NOL10-HDAC1

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-5UTRENST00000345985ENST00000373541NOL10chr2

10794607

-HDAC1chr1

32782266

+
5CDS-5UTRENST00000381685ENST00000373541NOL10chr2

10794607

-HDAC1chr1

32782266

+
5CDS-5UTRENST00000538384ENST00000373541NOL10chr2

10794607

-HDAC1chr1

32782266

+
5CDS-5UTRENST00000542668ENST00000373541NOL10chr2

10794607

-HDAC1chr1

32782266

+
5CDS-intronENST00000345985ENST00000490081NOL10chr2

10794607

-HDAC1chr1

32782266

+
5CDS-intronENST00000381685ENST00000490081NOL10chr2

10794607

-HDAC1chr1

32782266

+
5CDS-intronENST00000538384ENST00000490081NOL10chr2

10794607

-HDAC1chr1

32782266

+
5CDS-intronENST00000542668ENST00000490081NOL10chr2

10794607

-HDAC1chr1

32782266

+
Frame-shiftENST00000345985ENST00000373548NOL10chr2

10794607

-HDAC1chr1

32782266

+
Frame-shiftENST00000381685ENST00000373548NOL10chr2

10794607

-HDAC1chr1

32782266

+
Frame-shiftENST00000538384ENST00000373548NOL10chr2

10794607

-HDAC1chr1

32782266

+
In-frameENST00000542668ENST00000373548NOL10chr2

10794607

-HDAC1chr1

32782266

+

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)
ENST00000542668NOL10chr210794607-ENST00000373548HDAC1chr132782266+291910419332327464

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
ENST00000542668ENST00000373548NOL10chr210794607-HDAC1chr132782266+0.0002788310.9997211

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Fusion Genomic Features for NOL10-HDAC1


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)
NOL10chr210794606-HDAC1chr132782265+3.35E-111
NOL10chr210794606-HDAC1chr132782265+3.35E-111

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

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.
genomic feature of top 1%

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Fusion Protein Features for NOL10-HDAC1


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/chr2:10794607/chr1:32782266)
- 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
.HDAC1

Q96DB2

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: Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Histone deacetylases act via the formation of large multiprotein complexes. {ECO:0000269|PubMed:11948178}.

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
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-1120127_163274639.0RepeatNote=WD 3
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-1120170_205274639.0RepeatNote=WD 4
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-1120219_258274639.0RepeatNote=WD 5
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-112044_82274639.0RepeatNote=WD 1
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-112088_124274639.0RepeatNote=WD 2
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-1221127_163324689.0RepeatNote=WD 3
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-1221170_205324689.0RepeatNote=WD 4
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-1221219_258324689.0RepeatNote=WD 5
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-1221262_300324689.0RepeatNote=WD 6
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-122144_82324689.0RepeatNote=WD 1
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-122188_124324689.0RepeatNote=WD 2
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-1120127_163298663.0RepeatNote=WD 3
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-1120170_205298663.0RepeatNote=WD 4
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-1120219_258298663.0RepeatNote=WD 5
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-1120262_300298663.0RepeatNote=WD 6
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-112044_82298663.0RepeatNote=WD 1
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-112088_124298663.0RepeatNote=WD 2

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-1120423_446274639.0Coiled coilOntology_term=ECO:0000255
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-1120514_589274639.0Coiled coilOntology_term=ECO:0000255
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-1120640_673274639.0Coiled coilOntology_term=ECO:0000255
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-1221423_446324689.0Coiled coilOntology_term=ECO:0000255
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-1221514_589324689.0Coiled coilOntology_term=ECO:0000255
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-1221640_673324689.0Coiled coilOntology_term=ECO:0000255
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-1120423_446298663.0Coiled coilOntology_term=ECO:0000255
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-1120514_589298663.0Coiled coilOntology_term=ECO:0000255
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-1120640_673298663.0Coiled coilOntology_term=ECO:0000255
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-1120262_300274639.0RepeatNote=WD 6
HgeneNOL10chr2:10794607chr1:32782266ENST00000345985-1120304_341274639.0RepeatNote=WD 7
HgeneNOL10chr2:10794607chr1:32782266ENST00000381685-1221304_341324689.0RepeatNote=WD 7
HgeneNOL10chr2:10794607chr1:32782266ENST00000538384-1120304_341298663.0RepeatNote=WD 7
TgeneHDAC1chr2:10794607chr1:32782266ENST000003735481149_32154483.0RegionNote=Histone deacetylase


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Fusion Gene Sequence for NOL10-HDAC1


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.
>59520_59520_1_NOL10-HDAC1_NOL10_chr2_10794607_ENST00000542668_HDAC1_chr1_32782266_ENST00000373548_length(transcript)=2919nt_BP=1041nt
AGTCGGCGCCAGCGGCCGCACGCCGCGGAGCAGGGGCTCGGAGGTCCCGGGATTACGGTGCTCGAGCACGCTGGTGGGAAAGGACCCGGG
ACTTGAACAGTGTTGTGCGGCGCCATGCAGGTCTCCAGCCTCAATGAGGTGAAGATTTACAGCCTCAGCTGCGGCAAGTCCCTTCCTGAG
ATGTCCGTAGGAGAATTGAACTTATTCAGGACTTTGAAATGCCTACTGTGTGTACCACTATTAAGGTGTCAAAAGATGGACAGTACATTT
TAGCAACTGGAACATATAAACCTCGGGTTCGATGTTATGACACCTATCAATTATCCTTGAAGTTTGAAAGGTGTTTAGATTCAGAAGTTG
TCACCTTTGAAATTTTGTCTGATGACTACTCAAAGATTGTCTTCTTACATAATGATAGATACATTGAATTTCATTCGCAATCAGGTTTTT
ACTACAAAACCAGAATACCAAAGTTTGGGAGAGATTTCTCTTACCACTATCCATCCTGTGACTTGTACTTTGTTGGTGCAAGTTCTGAAG
TTTATAGGTTAAACTTAGAACAAGGACGATACCTGAATCCTCTACAAACTGATGCTGCGGAGAATAATGTTTGTGACATAAATTCAGTGC
ATGGCTTGTTTGCCACAGGAACCATAGAGGGTAGAGTGGAGTGCTGGGACCCAAGAACTCGAAACAGAGTTGGCCTGTTAGACTGCGCCT
TAAACAGTGTCACAGCAGATTCAGAGATAAACAGTTTACCAACAATCTCTGCTTTGAAATTTAATGGTGCCTTGACCATGGCAGTTGGAA
CAACCACAGGGCAGGTTTTATTATATGACCTTCGATCTGATAAGCCATTGCTAGTTAAAGATCACCAGTATGGGCTGCCCATTAAGTCCG
TTCATTTCCAGGATTCATTAGATCTGATTTTGTCTGCTGACTCTCGAATTGTCAAGATGTGGAATAAGAACTCCGGAAAAATATTTACTT
CCTTGGAGCCAGAGCATGACCTTAATGATGTTTGTCTCTACCCCAACTCAGCGCCCTCACAAAGCCAATGCTGAGGAGATGACCAAGTAC
CACAGCGATGACTACATTAAATTCTTGCGCTCCATCCGTCCAGATAACATGTCGGAGTACAGCAAGCAGATGCAGAGATTCAACGTTGGT
GAGGACTGTCCAGTATTCGATGGCCTGTTTGAGTTCTGTCAGTTGTCTACTGGTGGTTCTGTGGCAAGTGCTGTGAAACTTAATAAGCAG
CAGACGGACATCGCTGTGAATTGGGCTGGGGGCCTGCACCATGCAAAGAAGTCCGAGGCATCTGGCTTCTGTTACGTCAATGATATCGTC
TTGGCCATCCTGGAACTGCTAAAGTATCACCAGAGGGTGCTGTACATTGACATTGATATTCACCATGGTGACGGCGTGGAAGAGGCCTTC
TACACCACGGACCGGGTCATGACTGTGTCCTTTCATAAGTATGGAGAGTACTTCCCAGGAACTGGGGACCTACGGGATATCGGGGCTGGC
AAAGGCAAGTATTATGCTGTTAACTACCCGCTCCGAGACGGGATTGATGACGAGTCCTATGAGGCCATTTTCAAGCCGGTCATGTCCAAA
GTAATGGAGATGTTCCAGCCTAGTGCGGTGGTCTTACAGTGTGGCTCAGACTCCCTATCTGGGGATCGGTTAGGTTGCTTCAATCTAACT
ATCAAAGGACACGCCAAGTGTGTGGAATTTGTCAAGAGCTTTAACCTGCCTATGCTGATGCTGGGAGGCGGTGGTTACACCATTCGTAAC
GTTGCCCGGTGCTGGACATATGAGACAGCTGTGGCCCTGGATACGGAGATCCCTAATGAGCTTCCATACAATGACTACTTTGAATACTTT
GGACCAGATTTCAAGCTCCACATCAGTCCTTCCAATATGACTAACCAGAACACGAATGAGTACCTGGAGAAGATCAAACAGCGACTGTTT
GAGAACCTTAGAATGCTGCCGCACGCACCTGGGGTCCAAATGCAGGCGATTCCTGAGGACGCCATCCCTGAGGAGAGTGGCGATGAGGAC
GAAGACGACCCTGACAAGCGCATCTCGATCTGCTCCTCTGACAAACGAATTGCCTGTGAGGAAGAGTTCTCCGATTCTGAAGAGGAGGGA
GAGGGGGGCCGCAAGAACTCTTCCAACTTCAAAAAAGCCAAGAGAGTCAAAACAGAGGATGAAAAAGAGAAAGACCCAGAGGAGAAGAAA
GAAGTCACCGAAGAGGAGAAAACCAAGGAGGAGAAGCCAGAAGCCAAAGGGGTCAAGGAGGAGGTCAAGTTGGCCTGAATGGACCTCTCC
AGCTCTGGCTTCCTGCTGAGTCCCTCACGTTTCTTCCCCAACCCCTCAGATTTTATATTTTCTATTTCTCTGTGTATTTATATAAAAATT
TATTAAATATAAATATCCCCAGGGACAGAAACCAAGGCCCCGAGCTCAGGGCAGCTGTGCTGGGTGAGCTCTTCCAGGAGCCACCTTGCC
ACCCATTCTTCCCGTTCTTAACTTTGAACCATAAAGGGTGCCAGGTCTGGGTGAAAGGGATACTTTTATGCAACCATAAGACAAACTCCT
GAAATGCCAAGTGCCTGCTTAGTAGCTTTGGAAAGGTGCCCTTATTGAACATTCTAGAAGGGGTGGCTGGGTCTTCAAGGATCTCCTGTT
TTTTTCAGGCTCCTAAAGTAACATCAGCCATTTTTAGATTGGTTCTGTTTTCGTACCTTCCCACTGGCCTCAAGTGAGCCAAGAAACACT
GCCTGCCCTCTGTCTGTCTTCTCCTAATTCTGCAGGTGGAGGTTGCTAGTCTAGTTTCCTTTTTGAGATACTATTTTCATTTTTGTGAGC

>59520_59520_1_NOL10-HDAC1_NOL10_chr2_10794607_ENST00000542668_HDAC1_chr1_32782266_ENST00000373548_length(amino acids)=464AA_BP=36
MLTLELSRCGIRTPEKYLLPWSQSMTLMMFVSTPTQRPHKANAEEMTKYHSDDYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFE
FCQLSTGGSVASAVKLNKQQTDIAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEEAFYTTDRVMTVSF
HKYGEYFPGTGDLRDIGAGKGKYYAVNYPLRDGIDDESYEAIFKPVMSKVMEMFQPSAVVLQCGSDSLSGDRLGCFNLTIKGHAKCVEFV
KSFNLPMLMLGGGGYTIRNVARCWTYETAVALDTEIPNELPYNDYFEYFGPDFKLHISPSNMTNQNTNEYLEKIKQRLFENLRMLPHAPG
VQMQAIPEDAIPEESGDEDEDDPDKRISICSSDKRIACEEEFSDSEEEGEGGRKNSSNFKKAKRVKTEDEKEKDPEEKKEVTEEEKTKEE

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Fusion Gene PPI Analysis for NOL10-HDAC1


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 NOL10-HDAC1


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 NOL10-HDAC1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource