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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: MALSU1 (NCBI Gene ID:115416)


Gene Summary

check button Gene Summary
Gene InformationGene Name: MALSU1
Gene ID: 115416
Gene Symbol

MALSU1

Gene ID

115416

Gene Namemitochondrial assembly of ribosomal large subunit 1
SynonymsC7orf30|mtRsfA
Cytomap

7p15.3

Type of Geneprotein-coding
Descriptionmitochondrial assembly of ribosomal large subunit protein 1
Modification date20200313
UniProtAcc

Q96EH3


check button Child GO biological process term(s) under GO:0006412
GO IDGO term
GO:0017148Negative regulation of translation
GO:0006417Regulation of translation
GO:0032543Mitochondrial translation
GO:0006412Translation


check button Gene ontology of translaction factor with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneMALSU1

GO:0070130

negative regulation of mitochondrial translation

22829778



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
MALSU1>1119.25


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Translation Studies in PubMed

check button We searched PubMed using 'MALSU1[title] AND translation [title] AND human.'
GeneTitlePMID
MALSU1..


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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
ENST000004666812334045723340636Frame-shift
ENST000004666812334748623347568Frame-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)

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.


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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

check buttonDifferential expression between tumor and matched normal (in the cancer types with more than 10 matched samples)
Cancer typeTranslation factorFCadj.pval


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Expression Regulation


check buttonTranslation factor expression regulation through miRNA binding
Cancer typeGenemiRNATargetScan binding score (Context++ score percentile)CoefficientPvalue


check buttonTranslation factor expression regulation through methylation in the promoter of Translation factor
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)
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
Cancer typeGeneCoefficientPvalue

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Associated Genes


check button Strongly correlated genes belong to cellular important gene groups with MALSU1 (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)
Cancer typeGene groupTranslation factorCorrelated geneCoefficientPvalue


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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
KIRCMALSU1MRPL201.485856310245030.000111704804180407
BRCAMALSU1MRPL32-3.79791341817940.000134327661287861
LUSCMALSU1MRPL14-1.712682408415870.000225616184179674
LUADMALSU1MRPL20-3.000712047079040.000452706327224566
LUADMALSU1MRPS18A-1.541238640420490.000452706327224566
BRCAMALSU1MRPL20-1.743795284613750.000756034430433012
LUSCMALSU1MRPL39-3.504117374290040.000985010025625636
LUADMALSU1MRPL32-2.19662394182640.00121089428940613
STADMALSU1MRPL14-1.636358211355630.00166679499670863
KIRPMALSU1MRPL19-1.96892425755190.00179363833740354
BLCAMALSU1MRPL391.698968519604520.00391769409179688
LUADMALSU1MRPL39-1.10494529815920.00471395891927286
KICHMALSU1MRPL19-2.185507055645410.00672554969787598
PRADMALSU1ICT1-1.548484449093520.00907723161841939
CHOLMALSU1MRPL14-2.775087845786060.01171875
LIHCMALSU1MRPL20-1.087351541610250.0158079482509981
PRADMALSU1MRPS18A-1.892511955532890.0168224419088856
STADMALSU1MRPL41.43935391356820.0279771662317216
COADMALSU1MRPL39-1.152859532917560.0357243716716767
KIRCMALSU1MRPL32-2.796643275788990.0376051795400881
CHOLMALSU1MRPL19-2.092956503885580.0390625
LUSCMALSU1MRPS18A-4.261818030181251.79996309233889e-05
LIHCMALSU1MRPL32-1.200741446987532.24402029682138e-06
BRCAMALSU1ICT1-4.174882204496642.73719348917167e-14
COADMALSU1MRPL42.777058975144732.98023223876954e-07
PRADMALSU1MRPL37-2.210743427352953.65283830814974e-07
LUADMALSU1MRPL37-2.865492009939713.76287422734829e-10
LIHCMALSU1MRPL39-1.654616833862163.95799979560965e-08
LUADMALSU1MRPS30-7.003141737922724.58785409961826e-10
HNSCMALSU1MRPS18A-2.45201201684755.97184352955084e-05
BRCAMALSU1MRPL14-2.044840913874886.1798840626103e-26
LUSCMALSU1ICT1-3.230933760494566.60526357089358e-07
BRCAMALSU1MRPL37-3.790795514180269.33185484212232e-10


check button Protein-protein interactors with this translation factor (BIOGRID-3.4.160)
PPI interactors with MALSU1
ICT1, CHMP2B, SSBP1, DCTD, MRPL43, MRPL28, HNRNPDL, ZC3H3, MRPL4, HNRNPA1, MRPL39, RBMX, MRPL37, MRPS30, MRPL47, EXOSC2, MRPL41, MRPL50, MRPL10, MRPL42, DDX28, MRPL35, MRPL12, PDGFB, RBM42, GNRH1, CIRBP, MCAT, PHF19, RNMTL1, JPH4, ZNF274, TRIM25, RECQL4, MRM1, PDK1, TRMT61B, LMO3, MEOX2, ZNF426, WDYHV1, ZFP90, SP6, PLEKHG4, INCA1, MYBPHL, HIST3H3, TRIM55, TRIM63, GRSF1, MDH2, METTL17, MRRF, MTG1, MTG2, PMPCA, TBRG4, TSFM, CHDH, RPL27A, RPL19, TOP3A, MRPL46, ARHGEF12, MKLN1, ACSS1, RPL17, GUF1, MRPL15, NDUFAB1, IARS2, MRPL57, MRPL23, MRPS18A, MRPL45, SDR39U1, NDUFAF7, FECH, MARS2, DDX19B, MRPL53, MRPL40, MRPL9, MRPL11, HSPA12B, PUS1, MRPL16, POLG, SUGCT, CPS1, ATPAF1, DECR1, LIN28B, TFB1M, MRPL55, IDH3G, PRR3, MRPL3, PNPT1, MOCS1, ZMYND19, MTHFD1L, MTIF2, RPUSD3, MRPL17, BOLA3, MTO1, DARS2, SIRT3, MCCC1, MRPL13, MRPL21, MRPL24, LARS2, MRPL2, FTSJ2, FDXR, MRPL27, GFM2, RPL13A, MRPL22, POTEI, FAM120A, SIRT5, MRPL51, MRPL18, YBX2, MRPL19, KIAA0391, ACAD10, ELAC2, GADD45GIP1, C17orf80, GTPBP8, HADHB, MRPL44, GATB, PCCA, PCCB, PC, RBMS2, PIAS4, SRSF3, MRPL14, GLS, MRPL30, MRPL32, SYNCRIP, GFM1, YARS2, MRPL1, MRPL38, VWA8, HARS2, MRPL52, RBMS3, RBM47, METTL15, RPUSD4, PTCD1, MRPL20, H1FNT, SRSF7, ACSF3, GTPBP10, RPL10, ALDH4A1, CYP24A1, MRPL48, TRUB2,


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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.


check button SNVs and Indels
GeneCancer typeChromosomeStartEndRefSeeqMutSeqMutation typeAAchange# samples
MALSU1ESCAchr72333922223339222CTMissense_Mutationp.A84V3
MALSU1UCSchr72334750823347508CTMissense_Mutationp.R153C3
MALSU1UCECchr72334046523340465TCSilentp.T882
MALSU1PAADchr72334905323349053AGMissense_Mutation2
MALSU1PAADchr72334905323349053AGMissense_Mutationp.Y199C2
MALSU1SKCMchr72334049723340497CTMissense_Mutationp.S99L2
MALSU1ESCAchr72334914723349147GASilent2
MALSU1SKCMchr72333902523339025GASilentp.R18R2
MALSU1ESCAchr72333922223339222CTMissense_Mutation2
MALSU1ESCAchr72334914723349147GASilentp.E230E2
MALSU1BLCAchr72334751123347511GTMissense_Mutationp.D154Y1
MALSU1THCAchr72334905423349054TCSilent1
MALSU1HNSCchr72334898923348989CTMissense_Mutation1
MALSU1LIHCchr72334910523349105TCSilent1
MALSU1BLCAchr72334900423349004GCMissense_Mutationp.E183Q1
MALSU1THCAchr72334905423349054TCSilentp.Y199Y1
MALSU1HNSCchr72333900723339007CTSilentp.A12A1
MALSU1LUADchr72334060723340607CTMissense_Mutationp.H136Y1
MALSU1BLCAchr72334055023340550GCMissense_Mutationp.E117Q1
MALSU1HNSCchr72334910223349102CAMissense_Mutationp.F215L1
MALSU1BLCAchr72334052023340520AGMissense_Mutationp.R107G1
MALSU1UCSchr72334750823347508CTMissense_Mutation1
MALSU1HNSCchr72334898923348989CTMissense_Mutationp.H178Y1
MALSU1LIHCchr72334056323340563CTMissense_Mutation1
MALSU1READchr72334903023349030GTMissense_Mutationp.E191D1
MALSU1ESCAchr72334914723349147GASilentp.E2301
MALSU1LIHCchr72334754123347541AGMissense_Mutationp.T164A1
MALSU1LIHCchr72333899523338995GASilentp.A8A1
MALSU1BLCAchr72334751123347511GTMissense_Mutation1
MALSU1LIHCchr72333898723338987CTMissense_Mutationp.R6C1
MALSU1BLCAchr72334900423349004GCMissense_Mutation1
MALSU1SKCMchr72334914023349140CTMissense_Mutationp.P228L1
MALSU1LIHCchr72333899023338990GTMissense_Mutationp.V7L1
MALSU1BLCAchr72334055023340550GCMissense_Mutation1
MALSU1STADchr72334058323340583AGMissense_Mutationp.S128G1
MALSU1GBMchr72334897823348978GAMissense_Mutation1
MALSU1LIHCchr72333920223339202G-Frame_Shift_Delp.E77fs1
MALSU1BLCAchr72334052023340520AGMissense_Mutation1
MALSU1STADchr72333909423339094GASilentp.R41R1
MALSU1HNSCchr72334910223349102CAMissense_Mutation1
MALSU1LIHCchr72333899023338990GTMissense_Mutation1

check buttonCopy number variation (CNV) of MALSU1
* 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 MALSU1
* 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
72333BRCATCGA-AR-A24HANXA7chr1075173769-MALSU1chr723340457+
72333BRCATCGA-AR-A24H-01AANXA7chr1075173770-MALSU1chr723340458+
72333N/AAI088843CES5Achr1655898644-MALSU1chr723349532-
102065SKCMTCGA-BF-AAP1-01AMALSU1chr723347568+GPNMBchr723306100+
102065SKCMTCGA-BF-AAP1-01AMALSU1chr723347568+GPNMBchr723306136+
72333N/AAI571420MALSU1chr723347270-MALSU1chr723348832-
101650STADTCGA-HU-A4GT-01AMALSU1chr723340636+TOMM7chr722857667-
72339N/AFN054322RARBchr324898028+MALSU1chr723347299-


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Prognostic Analysis


check button Kaplan-Meier plots with logrank tests of overall survival (OS)
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)
Cancer typeTranslation factorpvaladj.p

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Translation factor and Age


check button Differential gene expression between young and old age groups (Wilcoxon test, pval<0.05)
Cancer typeTranslation factorpvaladj.p

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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