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Center for Computational Systems Medicine
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Gene Summary

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Translation studies in PubMed

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Exon Skipping Events

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Expression

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Expression Regulation

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Associated Genes

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Protein 3D Structure

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Protein-Protein Interaction

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Mutations

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Prognostic Analysis

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Gender Association

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Age Association

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Related Drugs

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Related Diseases

Translation Factor: MIF4GD (NCBI Gene ID:57409)


Gene Summary

check button Gene Summary
Gene InformationGene Name: MIF4GD
Gene ID: 57409
Gene Symbol

MIF4GD

Gene ID

57409

Gene NameMIF4G domain containing
SynonymsAD023|MIFD|SLIP1
Cytomap

17q25.1

Type of Geneprotein-coding
DescriptionMIF4G domain-containing proteinSLBP (stem loop binding protein)-interacting protein 1SLBP-interacting protein 1
Modification date20200313
UniProtAcc

A9UHW6


check button Child GO biological process term(s) under GO:0006412
GO IDGO term
GO:0006417Regulation of translation
GO:0045727Positive regulation of translation
GO:0002181Cytoplasmic translation
GO:0006413Translational initiation
GO:0006412Translation


check button Gene ontology of translaction factor with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID


check button Inferred gene age of translation factor.
GeneInferred gene age group among (0 - 67.6], (67.6 - 355.7], (355.7 - 733], (733 - 1119.25], >1119.25
MIF4GD(733 - 1119.25]


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Translation Studies in PubMed

check button We searched PubMed using 'MIF4GD[title] AND translation [title] AND human.'
GeneTitlePMID
MIF4GDINT6 interacts with MIF4GD/SLIP1 and is necessary for efficient histone mRNA translation22532700


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Exon Skipping Events

check buttonSkipped exons in TCGA and GTEx based on Ensembl gene isoform structure.
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
For more annotations, please visit our ExonSkipDB.
all structure

check button Open reading frame (ORF) analsis of exon skipping events 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.
ENSTExon skip start (DNA)Exon Skip end (DNA)ORF
ENST000003251027326382673263982In-frame
ENST000003251027326416373264273Frame-shift

check button Exon skipping position in the amino acid sequence.
ENSTExon skip start (DNA)Exon Skip end (DNA)Len(transcript seq)Exon skip start (mRNA)Exon Skip end (mRNA)Len(amino acid seq)Exon skip start (AA)Exon Skip end (AA)
ENST000003251027326382673263982132331847322264116

check button Potentially (partially) lost protein functional features of UniProt.
UniProtAccExon skip start (AA)Exon Skip end (AA)Function feature start (AA)Function feature end (AA)Functional feature typeFunctional feature desc.
A9UHW6641161222ChainID=PRO_0000337089;Note=MIF4G domain-containing protein
A9UHW6641163205DomainNote=MIF4G


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Expression


check buttonGene expression level across TCGA pancancer
all structure

check buttonGene expression level across GTEx pantissue
all structure

check buttonExpression level of gene isoforms across TCGA pancancer
all structure

check buttonExpression level of gene isoforms across GTEx pantissue
all structure

check buttonCancer(tissue) type-specific expression level of Translation factor using z-score distriution
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check buttonDifferential expression between tumor and matched normal (in the cancer types with more than 10 matched samples)
all structure
Cancer typeTranslation factorFCadj.pval
CHOLMIF4GD-2.924741544657580.00390625


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Expression Regulation


check buttonTranslation factor expression regulation through miRNA binding
Cancer typeGenemiRNATargetScan binding score (Context++ score percentile)CoefficientPvalue
DLBCMIF4GDhsa-miR-1306-5p970.4248381128584640.00315279076167981
UCECMIF4GDhsa-miR-1306-5p97-0.3934300993124520.0220331895014324


check buttonTranslation factor expression regulation through methylation in the promoter of Translation factor
all structure
Cancer typeGenemethyl group bmethyl group aDEG pvalavg methyl in bavg methyl in aavg exp in bavg exp in a

check buttonTranslation factor expression regulation through methylation in the gene body of Translation factor (positive regulation)
all structure
Cancer typeGenemethyl group bmethyl group aDEG pvalavg methyl in bavg methyl in aavg exp in bavg exp in a

check buttonTranslation factor expression regulation through copy number variation of Translation factor
all structure
Cancer typeGeneCoefficientPvalue
LUSCMIF4GD0.1017861560.037249785

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Associated Genes


check button Strongly correlated genes belong to cellular important gene groups with MIF4GD (coefficient>0.8, pval<0.05, node color based on FC between tumor and matched normal). Significantly associated important genes in the individual cancer types. * Cell metabolism gene: cell metabolism genes from REACTOME (black edge), IUPHAR: drug target genes from IUPHAR (blue edge), Kinase: human kinase genes (brown edge), CGC: cancer gene census genes (orange edge), TSG: tumor suppresor genes (purple edge), Epifactor: epigenetic factors (light blue edge), TF: transcription factors (green)
all structure
Cancer typeGene groupTranslation factorCorrelated geneCoefficientPvalue
THYMCell metabolism geneMIF4GDMDH20.8152226113.04E-30
THYMIUPHARMIF4GDVRK30.8005377521.87E-28
THYMKinaseMIF4GDVRK30.8005377521.87E-28
UCSCell metabolism geneMIF4GDMDH20.8152226113.04E-30
UCSIUPHARMIF4GDVRK30.8005377521.87E-28
UCSKinaseMIF4GDVRK30.8005377521.87E-28


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Protein structure


check button Protein 3D structure
Visit iCn3D.


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Protein-Protein Interaction


check button Protein-protein interaction networks
* Overlap between up-regulated DEGs (log2FC<-1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))
all structure

check buttonOverlap between down-regulated DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))
all structure
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* Edge colors based on TCGA cancer types.

check button* Overlap between DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network per cancer (center: Translation factor, node: DEGs, node color: log2FC, edges: weighted by -log2(adj.P))
all structure
Cancer typeTranslation factorInteracting protein coding geneFCadj.pval
KIRPMIF4GDDDX19B2.116183312136950.000110303983092308
LIHCMIF4GDDDX252.648119931371910.000341801925418751
PRADMIF4GDERI21.568134306348970.00175864963925712
KIRCMIF4GDPAIP1-5.712790641320070.00220467399393826
THCAMIF4GDDDX19A-1.091682303318410.00232210128712262
CHOLMIF4GDERI2-2.354481323490410.00390625
KIRPMIF4GDEIF3G-2.41783229621290.00471024587750435
KICHMIF4GDEIF4G1-1.466560811507430.00612920522689819
CHOLMIF4GDSLBP-2.479161146948440.0078125
HNSCMIF4GDDDX19A1.448146162433630.0129453654280951
CHOLMIF4GDDDX19B-2.28785542439440.01953125
UCECMIF4GDEIF3G-3.350783346965710.03125
ESCAMIF4GDSLBP-1.207796580070170.0322265625
BLCAMIF4GDEIF3G-3.077075596490910.0323410034179688
THCAMIF4GDERI21.007759799460921.13795592860251e-05
BRCAMIF4GDPAIP11.337836686072521.59729685534959e-08
LIHCMIF4GDSLBP-1.921612634085321.82457528521744e-08
BRCAMIF4GDEIF3G1.879483850112711.9107949115022e-06
PRADMIF4GDDDX251.25274724758222.15325156396327e-05
BRCAMIF4GDDDX253.033746544375232.51798948666808e-19
BRCAMIF4GDERI21.479598085344932.63474656161064e-08
HNSCMIF4GDDDX251.226224427987752.80523191174599e-05
LIHCMIF4GDERI2-1.872624536050684.32830942329488e-06
PRADMIF4GDDDX19B-5.351875265323675.10126106041513e-07
THCAMIF4GDDDX25-1.292404820126276.1386855605902e-11
THCAMIF4GDSLBP-2.098600495312337.22868172738035e-09
LUSCMIF4GDDDX19B-4.256796207688297.78525552645347e-05
LIHCMIF4GDDDX19B-4.371343951444949.26110880632525e-09


check button Protein-protein interactors with this translation factor (BIOGRID-3.4.160)
PPI interactors with MIF4GD
HGS, DDX19A, SVIL, UBQLN4, HINFP, DHX16, ILF2, PPIP5K1, PDXDC1, LSM5, HDAC4, PPARG, EXOSC6, PDE4DIP, DDX19B, CTIF, KLK3, PSMC1, Psmd6, CRYBA4, SLBP, DDIAS, C7orf60, SMARCB1, PRE5, APEX1, nsp7ab, CHCHD2, ENKD1, FAM110A, EIF3G, WDYHV1, ATPAF2, MKRN3, C6orf165, AQP1, KIF1B, nsp16, ARHGEF5, EXPH5, TUBGCP6, HAUS5, RICTOR, HPS3, RGL3, HOOK1, RTEL1,


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Mutations


check button Clinically associated variants from ClinVar.
GeneChrPositionRefSeqVarSeqRefSeeqVarTypePathogenicDiseaseVarInfo


check button nsSNVs with sample frequency (size of circle) from TCGA 33 cancers.
all structure


check button SNVs and Indels
GeneCancer typeChromosomeStartEndRefSeeqMutSeqMutation typeAAchange# samples
MIF4GDBRCAchr177326420573264206AC-Frame_Shift_Delp.F85fs5
MIF4GDESCAchr177326546673265466GTMissense_Mutationp.S56Y2
MIF4GDBLCAchr177326290173262901CGMissense_Mutation2
MIF4GDUCECchr177326283673262836GANonsense_Mutationp.R213*2
MIF4GDHNSCchr177326543073265430CGMissense_Mutationp.R68T2
MIF4GDUCECchr177326299473262994TCMissense_Mutationp.N200D2
MIF4GDUCECchr177326548473265484CAMissense_Mutationp.R43M2
MIF4GDBLCAchr177326290173262901CGMissense_Mutationp.E238Q2
MIF4GDCOADchr177326549473265494CTMissense_Mutationp.V40I1
MIF4GDLUADchr177326298573262985GTMissense_Mutationp.R210S1
MIF4GDBLCAchr177326551873265518CGMissense_Mutationp.E39Q1
MIF4GDSKCMchr177326546473265464GTMissense_Mutationp.R50S1
MIF4GDCOADchr177326543973265439GAMissense_Mutationp.T58M1
MIF4GDLUADchr177326369273263692ATMissense_Mutationp.M164K1
MIF4GDBLCAchr177326627073266270CTMissense_Mutationp.E3K1
MIF4GDSTADchr177326554673265546CTSilent1
MIF4GDLUADchr177326546473265464GAMissense_Mutationp.R57C1
MIF4GDBLCAchr177326362773263627CGMissense_Mutationp.E186Q1
MIF4GDSTADchr177326554673265546CTSilentp.P29P1
MIF4GDHNSCchr177326417173264171ATMissense_Mutation1
MIF4GDLUADchr177326298573262985GTMissense_Mutationp.R169S1
MIF4GDBLCAchr177326550373265503CGMissense_Mutationp.E44Q1
MIF4GDSTADchr177326362073263620TAMissense_Mutationp.E147V1
MIF4GDHNSCchr177326543073265430CGMissense_Mutation1
MIF4GDLUADchr177326386973263869GTSilentp.V102V1
MIF4GDBLCAchr177326627073266270CANonsense_Mutationp.E3*1
MIF4GDUCECchr177326286273262862GAMissense_Mutationp.P251S1
MIF4GDHNSCchr177326417173264171ATMissense_Mutationp.I103N1
MIF4GDLUADchr177326369273263692ATMissense_Mutationp.M123K1
MIF4GDBLCAchr177326290173262901CGMissense_Mutationp.E197Q1
MIF4GDBLCAchr177326551873265518CGMissense_Mutation1
MIF4GDOVchr177326391373263913GANonsense_Mutationp.Q129*1
MIF4GDBLCAchr177326362773263627CGMissense_Mutationp.E145Q1
MIF4GDHNSCchr177326417173264171ATMissense_Mutationp.I62N1
MIF4GDBLCAchr177326627073266270CTMissense_Mutation1
MIF4GDSARCchr177326292673262926GTMissense_Mutation1
MIF4GDKIRPchr177326394973263949GTSilent1
MIF4GDBLCAchr177326362773263627CGMissense_Mutation1
MIF4GDSARCchr177326390973263909GTMissense_Mutation1
MIF4GDCESCchr177326363473263634CTSilent1
MIF4GDLIHCchr177326301273263012CTMissense_Mutation1
MIF4GDBLCAchr177326550373265503CGMissense_Mutation1
MIF4GDSARCchr177326621673266216GTMissense_Mutation1
MIF4GDCOADchr177326366773263667GTMissense_Mutationp.D131E1
MIF4GDLUADchr177326386973263869GTSilentp.V143V1
MIF4GDSARCchr177326628673266286GTMissense_Mutation1

check buttonCopy number variation (CNV) of MIF4GD
* Click on the image to open the original image in a new window.
all structure

check buttonFusion gene breakpoints (product of the structural variants (SVs)) across MIF4GD
* 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 genes with this translation factor from FusionGDB2.0.
FusionGDB2 IDDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
90207LUSCTCGA-43-2581-01AMIF4GDchr1773266195-SDK2chr1771443887-
78439HNSCTCGA-CV-7416-01ARSPH3chr6159420744-MIF4GDchr1773264273-


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Prognostic Analysis


check button Kaplan-Meier plots with logrank tests of overall survival (OS)
all structure
Cancer typeTranslation factorCoefficentHazard ratioWald test pvalLikelihool ratio pvalLogrank test pval# samples


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Translation factor and Gender


check button Differential gene expression between female and male. (Wilcoxon test, pval<0.05)
all structure
Cancer typeTranslation factorpvaladj.p
TGCTMIF4GD0.0008775741432352120.025
BRCAMIF4GD0.005582040005795130.15
KIRCMIF4GD0.006111650399932770.16
PCPGMIF4GD0.01907628567185640.48
LGGMIF4GD0.02441851180317360.59
LUADMIF4GD0.04271886643035750.98
LIHCMIF4GD0.04963182966032871

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Translation factor and Age


check button Differential gene expression between young and old age groups (Wilcoxon test, pval<0.05)
all structure
Cancer typeTranslation factorpvaladj.p
STADMIF4GD0.0164479556210780.51
LUSCMIF4GD0.02302691719591450.69
KIRCMIF4GD0.001266768838200880.042
THYMMIF4GD0.008778980432836770.28

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Related Drugs


check button Drugs targeting genes involved in this translation factor.
(DrugBank Version 5.1.8 2021-05-08)
UniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases


check button Diseases associated with this translation factor.
(DisGeNet 4.0)
Disease IDDisease Name# PubMedsDisease source