EuRBPDB

  • Home
  • Cancer
  • Family
  • Species
  • RBPredictor
  • Search
  • Download
  • Submit
  • Help
  • Contact
TCGA tumor abbreviations
  • ACCAdrenocortical carcinoma
  • BLCABladder Urothelial Carcinoma
  • BRCABreast invasive carcinoma
  • CESCCervical squamous cell carcinoma and endocervical adenocarcinoma
  • CHOLCholangio carcinoma
  • COADColon adenocarcinoma
  • DLBCLymphoid Neoplasm Diffuse Large B-cell Lymphoma
  • ESCAEsophageal carcinoma
  • GBMGlioblastoma multiforme
  • HNSCHead and Neck squamous cell carcinoma
  • KICHKidney Chromophobe
  • KIRCKidney renal clear cell carcinoma
  • KIRPKidney renal papillary cell carcinoma
  • LAMLAcute Myeloid Leukemia
  • LGGBrain Lower Grade Glioma
  • LIHCLiver hepatocellular carcinoma
  • LUADLung adenocarcinoma
  • LUSCLung squamous cell carcinoma
  • MESOMesothelioma
  • OVOvarian serous cystadenocarcinoma
  • PAADPancreatic adenocarcinoma
  • PCPGPheochromocytoma and Paraganglioma
  • PRADProstate adenocarcinoma
  • READRectum adenocarcinoma
  • SARCSarcoma
  • SKCMSkin Cutaneous Melanoma
  • STADStomach adenocarcinoma
  • TGCTThyroid carcinoma
  • THCAThyroid carcinoma
  • THYMThymoma
  • UCECUterine Corpus Endometrial Carcinoma
  • UCSUterine Carcinosarcoma
  • UVMUveal Melanoma

Note: Click here to get the extension of tumor abbreviations.


  • Cancer Related Information
  • Basic Information

Cancer associated literatures
PIDTitleArticle TimeAuthorDoi
28465438Human phosphatase CDC14A regulates actin organization through dephosphorylation of epithelial protein lost in neoplasm.Proc Natl Acad Sci U S A2017 May 16Chen NPdoi: 10.1073/pnas.1619356114
18796137Eplin-alpha expression in human breast cancer, the impact on cellular migration and clinical outcome.Mol Cancer2008 Sep 16Jiang WGdoi: 10.1186/1476-4598-7-71.
22493360EPLIN-α expression in human oesophageal cancer and its impact on cellular aggressiveness and clinical outcome.Anticancer Res2012 AprLiu Y-
23188829Epidermal growth factor promotes protein degradation of epithelial protein lost in neoplasm (EPLIN), a putative metastasis suppressor, during epithelial-mesenchymal transition.J Biol Chem2013 Jan 18Zhang Sdoi: 10.1074/jbc.M112.438341
21625216EPLIN downregulation promotes epithelial-mesenchymal transition in prostate cancer cells and correlates with clinical lymph node metastasis.Oncogene2011 Dec 15Zhang Sdoi: 10.1038/onc.2011.199
27035883Epithelial protein lost in neoplasm-α (EPLIN-α) is a potential prognostic marker for the progression of epithelial ovarian cancer.Int J Oncol2016 JunLiu Rdoi: 10.3892/ijo.2016.3462
30098000Mechanistic insights of epithelial protein lost in neoplasm in prostate cancer metastasis.Int J Cancer2018 Nov 15Collins RJdoi: 10.1002/ijc.31786

Differential Expression

Expression in 33 cancers

Mutations
CancerChrPosition Mutation TypedbSNPProtein-change Allele FreqRBD
BLCAchr1250192540Missense_MutationnovelE351G0.28
BLCAchr1250222250Missense_Mutationrs749831700P134L0.33
BLCAchr1250222343Frame_Shift_DelnovelI97Sfs*40.14
BLCAchr1250204632Missense_MutationNAL262V0.45
BLCAchr1250181942SilentnovelI412I0.32
BLCAchr1250177855Missense_MutationNAP497S0.35
BLCAchr1250178064Missense_MutationnovelG427V0.08
BLCAchr1250177871SilentNAP491P0.25
BLCAchr1250177124SilentNAL740L0.18
BLCAchr1250222240Silentrs769930517L137L0.12
BLCAchr1250222365Nonsense_MutationNAE96*0.09
BLCAchr1250177689Nonsense_MutationNAS552*0.14
BLCAchr1250200798SilentnovelI317I0.09
BLCAchr1250248660Missense_MutationNAS31L0.46
BLCAchr1250248668Missense_MutationNAK28N0.44
BRCAchr1250177679SilentnovelK555K0.43
BRCAchr1250177404Missense_MutationNAN647S0.12
BRCAchr1250177738Frame_Shift_InsnovelT536Hfs*20.08
BRCAchr1250204644Missense_MutationNAE258Q0.24
BRCAchr1250222686Intronnovel0.09
BRCAchr1250177760SilentNAL528L0.17
BRCAchr1250222473Missense_MutationNAL60V0.2
BRCAchr1250222686Intronnovel0.13
BRCAchr1250204593Missense_MutationnovelQ275K0.1
BRCAchr1250222686Intronnovel0.14
BRCAchr1250222073Missense_MutationnovelP193Q0.07
BRCAchr1250195866Missense_MutationnovelL332M0.19
BRCAchr1250177072Missense_MutationNAE758K0.15
BRCAchr1250200860Missense_Mutationrs763276725E297K0.21
BRCAchr1250200899Intronnovel0.19
BRCAchr1250177199Missense_MutationnovelF715L0.11
BRCAchr1250177835SilentNAV503V0.21
CESCchr1250177630Missense_Mutationrs781115938D572N0.19
CESCchr1250182031Missense_MutationNAQ383E0.36
CESCchr1250231680Missense_MutationNAM50I0.12
CESCchr1250192529Missense_MutationnovelP355S0.53
COADchr1250177397SilentNAG649G0.44
COADchr1250177096Missense_Mutationrs766724186R750W0.09
COADchr1250178040Missense_MutationNAR435I0.1
COADchr1250248688Nonsense_MutationNAE22*0.34
COADchr1250231700Missense_MutationNAA44T0.04
COADchr1250177513Missense_MutationnovelP611S0.38
COADchr1250177737Missense_MutationnovelT536I0.06
COADchr1250234212Intronnovel0.86
COADchr1250222686Intronnovel0.17
COADchr1250234212Intronnovel0.61
COADchr1250177739Frame_Shift_DelNAT536Lfs*380.28
COADchr1250177578Missense_MutationNAR589H0.31
COADchr1250177739Frame_Shift_DelNAT536Lfs*380.53
COADchr1250200911Intronrs7688475620.22
COADchr1250192514Missense_MutationNAP360S0.24
COADchr1250222532Intronnovel0.04
COADchr12501768973'UTRnovel0.29
COADchr1250222209Missense_MutationNAG148S0.28
COADchr1250222110Missense_MutationnovelT181A0.22
COADchr1250234212Intronnovel0.71
COADchr1250178040Missense_MutationNAR435I0.34
COADchr1250177192Nonsense_Mutationrs776901156E718*0.3
COADchr12501770283'UTRrs7776719590.39
ESCAchr1250200778Missense_MutationnovelK324R0.14
ESCAchr1250177669Missense_MutationnovelE559K0.14
ESCAchr1250222379Missense_Mutationrs770526598R91Q0.73
GBMchr1250222033SilentnovelP206P0.13
GBMchr1250181973Missense_Mutationrs200141288R402H0.06
GBMchr12501770413'UTRnovel0.23
GBMchr1250200902Intronnovel0.15
HNSCchr1250177981Missense_MutationnovelG455S0.04
HNSCchr1250200932Intronnovel0.27
HNSCchr1250222273SilentnovelP126P0.17
HNSCchr1250222481Missense_MutationnovelT57I0.21
HNSCchr12501770133'UTRnovel0.29
HNSCchr1250200859Missense_MutationnovelE297G0.48
HNSCchr1250200856Missense_MutationnovelI298T0.19
KICHchr1250234212Intronnovel0.19
KIRCchr1250222346Missense_MutationNAD102V0.14
KIRCchr1250177439SilentNAQ635Q0.22
KIRCchr1250195880Missense_MutationnovelA327G0.04
KIRCchr1250222248Nonsense_MutationnovelE135*0.03
KIRCchr1250222250Frame_Shift_InsnovelP134Lfs*360.03
KIRCchr1250177949Nonsense_MutationNAW465*0.2
KIRPchr1250177552Frame_Shift_InsnovelQ598Sfs*260.5
KIRPchr1250177632Frame_Shift_DelnovelV571Afs*30.36
KIRPchr1250200838Missense_MutationnovelE304G0.21
KIRPchr1250177728Missense_MutationNAG539A0.48
LAMLchr1250177576Missense_MutationnovelP590T0.04
LGGchr1250204653Nonsense_MutationNAR255*0.44
LGGchr1250195857Missense_Mutationrs373214767R335C0.11
LGGchr1250192498Missense_MutationNAS365F0.07
LIHCchr1250181973Missense_MutationnovelR402L0.21
LUADchr1250248668Missense_MutationnovelK28N0.1
LUADchr1250192465Missense_MutationnovelP376L0.25
LUADchr1250192466Missense_MutationnovelP376T0.26
LUADchr1250177695Missense_MutationnovelK550T0.22
LUADchr1250200829Missense_MutationNAE307V0.16
LUADchr1250222424Missense_MutationnovelW76L0.25
LUADchr1250177552Missense_MutationNAQ598E0.12
LUADchr1250177801Missense_MutationNAQ515E0.14
LUADchr1250195829Splice_Siters778142224X344_splice0.07
LUADchr1250204630SilentnovelL262L0.27
LUSCchr1250177927Missense_MutationNAE473Q0.05
LUSCchr1250248744Missense_MutationnovelS3L0.25
LUSCchr1250177975Missense_MutationnovelG457W0.22
LUSCchr1250248669Missense_MutationNAK28R0.59
LUSCchr12501768973'UTRnovel0.42
LUSCchr1250192484Missense_MutationnovelL370V0.15
LUSCchr1250248656Silentrs773649764S32S0.12
LUSCchr1250177470Missense_MutationnovelS625F0.22
OVchr1250222576Intronnovel0.05
OVchr1250222686Intronnovel0.16
OVchr1250222686Intronnovel0.17
OVchr1250200865Missense_MutationnovelG295A0.06
OVchr1250200867Missense_MutationnovelS294R0.06
OVchr1250248727Missense_Mutationrs780877633R9W0.21
OVchr1250177843Missense_MutationnovelV501M0.06
PAADchr1250181975SilentnovelE401E0.07
PAADchr1250182021Missense_MutationnovelA386V0.05
PAADchr1250222272Missense_MutationnovelR127G0.2
READchr1250177375Nonsense_MutationNAE657*0.27
READchr1250177096Missense_Mutationrs766724186R750W0.4
READchr1250222112Missense_MutationnovelN180S0.4
READchr1250222420Missense_MutationnovelE77D0.36
READchr1250177465Missense_MutationNAG627R0.12
SKCMchr1250177666Missense_MutationNAD560N0.33
SKCMchr1250204638Missense_MutationNAP260S0.9
SKCMchr1250222158SilentNAL165L0.22
SKCMchr1250222256Nonsense_Mutationrs768965142S132*0.5
SKCMchr1250177182Missense_MutationnovelT721I0.64
SKCMchr1250177700Frame_Shift_DelnovelA544Dfs*110.27
SKCMchr1250200968Intronnovel0.4
SKCMchr1250181933SilentnovelF415F0.29
SKCMchr1250248748Missense_Mutationrs772093224E2K0.25
SKCMchr1250248749Translation_Start_SitenovelM1?0.25
SKCMchr1250192524SilentnovelV356V0.47
SKCMchr1250195848Missense_MutationNAP338S0.27
SKCMchr1250222376Frame_Shift_DelnovelN92Tfs*170.24
STADchr1250222232Missense_MutationNAG140D0.31
STADchr1250182008Silentrs760289112C390C0.14
STADchr1250200906Intronnovel0.3
STADchr12501770213'UTRnovel0.2
STADchr1250200932Intronnovel0.19
STADchr1250192474Missense_MutationnovelS373N0.47
STADchr1250222317Missense_Mutationrs146061384A112T0.28
STADchr1250222357Missense_MutationnovelR98S0.05
STADchr1250177244Missense_MutationnovelQ700H0.15
STADchr1250222170Frame_Shift_DelNAM161Wfs*50.32
STADchr1250204669Missense_MutationNAE249D0.31
STADchr1250177522Missense_MutationNAV608M0.05
THCAchr1250192554In_Frame_InsnovelS346_Q347insGKQN0.08
UCECchr1250195842Missense_Mutationrs781719966E340K0.38
UCECchr1250222076Missense_MutationNAV192A0.31
UCECchr1250222344Missense_MutationNAH103N0.27
UCECchr12501769333'UTRrs5658789670.16
UCECchr1250200962Intronnovel0.32
UCECchr12501765053'UTRnovel0.44
UCECchr1250177781SilentnovelK521K0.39
UCECchr1250200911Intronrs7688475620.38
UCECchr1250234204IntronNA0.54
UCECchr1250222465Missense_MutationnovelQ62H0.23
UCECchr12501769563'UTRnovel0.45
UCECchr1250222068Missense_MutationnovelN195Y0.57
UCECchr1250181992Missense_MutationnovelT396P0.34
UCECchr1250222096Silentrs747245139G185G0.07
UCECchr1250222271Missense_MutationnovelR127K0.34
UCECchr1250222370Missense_MutationnovelS94I0.41
UCECchr1250177105Missense_MutationnovelK747Q0.08
UCECchr12501769223'UTRnovel0.22
UCECchr1250177096Missense_Mutationrs766724186R750W0.21
UCECchr1250222419Frame_Shift_InsnovelN78Gfs*230.14
UCECchr1250222096Silentrs747245139G185G0.09
UCECchr1250177973SilentNAG457G0.33
UCECchr1250177323Missense_Mutationrs140187635M674T0.18
UCECchr1250177676Nonsense_MutationNAW556*0.49
UCECchr12501765473'UTRnovel0.26
UCECchr1250204608Nonsense_Mutationrs767754461R270*0.2
UCECchr1250177605Missense_Mutationrs772821365R580Q0.44
UCECchr1250206062Missense_Mutationrs199735854R213W0.41
UCECchr1250177676Nonsense_MutationNAW556*0.1
UCECchr12501765473'UTRnovel0.42
UCECchr1250177793Missense_MutationnovelE517D0.39
UCECchr1250204608Nonsense_Mutationrs767754461R270*0.4
UCECchr1250177428Missense_MutationnovelA639D0.06
UCECchr12501766573'UTRnovel0.4
UCECchr1250177243Nonsense_MutationnovelE701*0.34
UCECchr1250177630Missense_Mutationrs781115938D572N0.38
UCECchr1250206027SilentnovelI224I0.39
UCECchr1250248657Missense_Mutationrs148884366S32L0.32
UCECchr1250200819SilentNAP310P0.26
UCECchr1250181987SilentnovelV397V0.18
UCECchr1250200913Intronnovel0.2
UCECchr1250181902Splice_SitenovelX425_splice0.53
UCECchr12501768983'UTRnovel0.17
UCECchr1250177630Missense_Mutationrs781115938D572N0.48
UCECchr1250177816Missense_MutationnovelA510T0.23
UCECchr1250177428Missense_MutationNAA639V0.07
UCECchr1250222209Missense_MutationNAG148S0.06
UCECchr1250177931Silentrs146071798N471N0.31
UCECchr1250248688Nonsense_MutationNAE22*0.22
UCECchr1250200861Silentrs764042104G296G0.46
UCECchr1250204608Nonsense_Mutationrs767754461R270*0.5
UCECchr1250222150Missense_MutationnovelE167D0.15
UCECchr1250177858Missense_MutationNAA496T0.25
UCECchr12501770443'UTRnovel0.32
UCECchr1250181970Missense_MutationnovelL403R0.4
UCSchr1250177375Nonsense_MutationNAE657*0.32

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
DLBCAMP0.14580.085003
READDEL0.05450.064633
STADDEL0.09980.22179

Survival Analysis
CancerP-value Q-value
THYM0.01

Kaplan-Meier Survival Analysis

KIRC0.00014

Kaplan-Meier Survival Analysis

ACC0.013

Kaplan-Meier Survival Analysis

HNSC0.00011

Kaplan-Meier Survival Analysis

PAAD0.0036

Kaplan-Meier Survival Analysis

UVM0.012

Kaplan-Meier Survival Analysis

Drugs

Select Dataset :


Input Drug :


Input Cell Line :


Eesembl ID



Cell lines and drugs in GSE70138 or GSE92742

  • Description
  • RBPome
  • Expression
  • Transcripts
  • Gene Model
  • Phenotypes
  • GWAS
  • PPI
  • Orthologs
  • Gene Ontology
Description
Ensembl ID
ENSG00000050405 (Gene tree)
Gene ID
51474
Gene Symbol
LIMA1
Alias
EPLIN
Full Name
LIM domain and actin binding 1
Gene Type
protein_coding
Species
Homo_sapiens
Status
putative
Strand
Minus strand
Length
107,791 bases
Position
chr12:50,175,780-50,283,570
Accession
24636
RBP type
non-canonical RBP
Summary
This gene encodes a cytoskeleton-associated protein that inhibits actin filament depolymerization and cross-links filaments in bundles. It is downregulated in some cancer cell lines. Alternatively spliced transcript variants encoding different isoforms have been described for this gene, and expression of some of the variants maybe independently regulated. [provided by RefSeq, Aug 2011]
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & Hela2018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & MCF10A2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & U2OS2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
27453046Comprehensive Identification of RNA-Binding Domains in Human CellsRIC & Hela2016 Aug 18Castello ADOI: 10.1016/j.molcel.2016.06.029
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000552491LIMA1-2122652-ENSP00000448463456 (aa)-F8VS07
ENST00000552823LIMA1-2153254-ENSP00000450266599 (aa)-Q9UHB6
ENST00000551486LIMA1-207587--- (aa)--
ENST00000552045LIMA1-210386--- (aa)--
ENST00000552008LIMA1-209566--- (aa)--
ENST00000552720LIMA1-2132457-ENSP00000448411388 (aa)-F8VRN8
ENST00000550611LIMA1-206543--- (aa)--
ENST00000551691LIMA1-208583-ENSP00000447975130 (aa)-F8VTU2
ENST00000550592LIMA1-205567-ENSP00000449890111 (aa)-F8VVQ7
ENST00000341247LIMA1-2013706-ENSP00000340184759 (aa)-Q9UHB6
ENST00000394943LIMA1-2023669XM_011538455ENSP00000378400760 (aa)XP_011536757Q9UHB6
ENST00000547825LIMA1-2033920XM_017019429ENSP00000448706457 (aa)XP_016874918Q9UHB6
ENST00000549064LIMA1-204648--- (aa)--
ENST00000552909LIMA1-2162162-ENSP00000450087598 (aa)-F8VQE1
ENST00000552338LIMA1-211555--- (aa)--
ENST00000552783LIMA1-2143612-ENSP00000448779600 (aa)-Q9UHB6
Gene Model
Click here to download ENSG00000050405's gene model file
Phenotypes
ensgIDTraitpValuePubmed ID
ENSG00000050405Echocardiography4.01082721609348E-617903301
ENSG00000050405Echocardiography9.78048970368356E-817903301
ENSG00000050405Echocardiography1.01770834392633E-717903301
ENSG00000050405Intelligence Tests2.9409800E-005-
ENSG00000050405Child Development Disorders, Pervasive4.9777200E-005-
ENSG00000050405Colorectal Neoplasms3E-824737748
ENSG00000050405Colorectal Neoplasms3E-626621817
ENSG00000050405Endometrial Neoplasms3E-626621817
ENSG00000050405Schizophrenia5E-626198764
GWAS
ensgIDSNPChromosomePositionSNP-risk TraitPubmedID95% CIOr or BEAT EFO ID
ENSG00000050405rs128172111250185615CColorectal or endometrial cancer26621817[1.07-1.18]1.12EFO_0005842|EFO_0004230
ENSG00000050405rs44593861250201164ASchizophrenia26198764[NR]1.05EFO_0000692
ENSG00000050405rs342455111250179650CColorectal cancer24737748[NR]1.144EFO_0005842
ENSG00000050405rs48834811250180528?Systolic blood pressure30595370EFO_0006335
ENSG00000050405rs23029001250205926?White blood cell count30595370EFO_0004308
ENSG00000050405rs48834821250183134?Cardiovascular disease30595370EFO_0000319
ENSG00000050405rs21609941250256274?Eosinophil counts30595370EFO_0004842
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000050405's network

* RBP PPI network refers to all genes directly bind to RBP
Orthologs identified by RBPome
Ensembl IDGene SymbolCoverageIdentiy OrthologGene SymbolCoverageIdentiy Species
ENSG00000050405LIMA19882.569ENSMUSG00000023022Lima110082.569Mus_musculus
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0001725stress fiber10618726.IDAComponent
GO:0001726ruffle-ISSComponent
GO:0003785actin monomer binding12566430.IDAFunction
GO:0005515protein binding18093941.20309963.24694988.29880681.IPIFunction
GO:0005829cytosol-IDAComponent
GO:0005886plasma membrane-IDAComponent
GO:0005925focal adhesion21423176.HDAComponent
GO:0005925focal adhesion10618726.24694988.IDAComponent
GO:0008203cholesterol metabolic process-IEAProcess
GO:0015629actin cytoskeleton-IDAComponent
GO:0016477cell migration-ISSProcess
GO:0030299intestinal cholesterol absorption-ISSProcess
GO:0030835negative regulation of actin filament depolymerization12566430.IDAProcess
GO:0031526brush border membrane-ISSComponent
GO:0031529ruffle organization12566430.IDAProcess
GO:0032154cleavage furrow20309963.IDAComponent
GO:0042632cholesterol homeostasis-ISSProcess
GO:0045296cadherin binding25468996.HDAFunction
GO:0046872metal ion binding-IEAFunction
GO:0051015actin filament binding12566430.IDAFunction
GO:0051017actin filament bundle assembly12566430.IDAProcess
To top

Copyright © , Bioinformatics Center, Sun Yat-sen Memorial Hospital, Sun Yat-sen University, China. All Rights Reserved.

Any comment and suggestion, please contact us