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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: 6988

FusionGeneSummary for CHD4_ISM1

check button Fusion gene summary
Fusion gene informationFusion gene name: CHD4_ISM1
Fusion gene ID: 6988
HgeneTgene
Gene symbol

CHD4

ISM1

Gene ID

1108

140862

Gene namechromodomain helicase DNA binding protein 4isthmin 1
SynonymsCHD-4|Mi-2b|Mi2-BETA|SIHIWESC20orf82|ISM|Isthmin|bA149I18.1|dJ1077I2.1
Cytomap

12p13.31

20p12.1

Type of geneprotein-codingprotein-coding
Descriptionchromodomain-helicase-DNA-binding protein 4ATP-dependent helicase CHD4Mi-2 autoantigen 218 kDa proteinisthmin-1isthmin 1 homologisthmin 1, angiogenesis inhibitor
Modification date2018052420180523
UniProtAcc

Q14839

B1AKI9

Ensembl transtripts involved in fusion geneENST00000544484, ENST00000357008, 
ENST00000309577, ENST00000544040, 
ENST00000540960, 
ENST00000262487, 
Fusion gene scores* DoF score10 X 14 X 4=5602 X 2 X 2=8
# samples 152
** MAII scorelog2(15/560*10)=-1.90046432644909
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(2/8*10)=1.32192809488736
Context

PubMed: CHD4 [Title/Abstract] AND ISM1 [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

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
ChiTaRS3.1AK074473CHD4chr12

6710224

-ISM1chr20

13273023

+
* 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
intron-3CDSENST00000544484ENST00000262487CHD4chr12

6710224

-ISM1chr20

13273023

+
intron-3CDSENST00000357008ENST00000262487CHD4chr12

6710224

-ISM1chr20

13273023

+
intron-3CDSENST00000309577ENST00000262487CHD4chr12

6710224

-ISM1chr20

13273023

+
intron-3CDSENST00000544040ENST00000262487CHD4chr12

6710224

-ISM1chr20

13273023

+
intron-3CDSENST00000540960ENST00000262487CHD4chr12

6710224

-ISM1chr20

13273023

+

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FusionProtFeatures for CHD4_ISM1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CHD4

Q14839

ISM1

B1AKI9

Component of the histone deacetylase NuRD complex whichparticipates in the remodeling of chromatin by deacetylatinghistones. {ECO:0000269|PubMed:17626165,ECO:0000269|PubMed:9804427}. Acts as an angiogenesis inhibitor.{ECO:0000250|UniProtKB:A2ATD1}.

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 CHD4_ISM1


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 CHD4_ISM1


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 CHD4_ISM1


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 CHD4_ISM1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCHD4C0014170Endometrial Neoplasms1CTD_human
HgeneCHD4C0036341Schizophrenia1CTD_human