EuRBPDB

Note: to get the extension of tumor abbreviations.

Cancer Related Information
Basic Information

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
22365962	Identification of ITGB4BP as a new interaction protein of P311.	Life Sci	2012 Apr 20	Peng X	doi: 10.1016/j.lfs.2012.02.008
22348144	The translation factor eIF6 is a Notch-dependent regulator of cell migration and invasion.	PLoS One	2012	Benelli D	doi: 10.1371/journal.pone.0032047
25886394	EIF6 over-expression increases the motility and invasiveness of cancer cells by modulating the expression of a critical subset of membrane-bound proteins.	BMC Cancer	2015 Mar 15	Pinzaglia M	doi: 10.1186/s12885-015-1106-3.
21029697	[Expression and significance of P311 and ITGB4BP in non-small cell lung cancer].	Zhonghua Zhong Liu Za Zhi	2010 Jul	Tang CL	-
25252159	eIF6 anti-association activity is required for ribosome biogenesis, translational control and tumor progression.	Biochim Biophys Acta	2015 Jul	Brina D	doi: 10.1016/j.bbagrm.2014.09.010
27333287	Impact of a Eukaryotic Translation Initiation Factor 3a Polymorphism on Susceptibility to Gastric Cancer.	Med Princ Pract	2016	Liu K	doi: 10.1159/000447741
30077122	Influence of eukaryotic translation initiation factor 6 on non-small cell lung cancer development and progression.	Eur J Cancer	2018 Sep	Gantenbein N	doi: 10.1016/j.ejca.2018.07.001

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr20	35284241	Missense_Mutation	novel	S43Y	0.45
BLCA	chr20	35284386	Silent	novel	F34F	0.17
BLCA	chr20	35284195	Silent	novel	I58I	0.38
BLCA	chr20	35284374	Splice_Region	rs763682742		0.45
BLCA	chr20	35284243	Silent	NA	L42L	0.23
BLCA	chr20	35284336	Intron	novel		0.34
BRCA	chr20	35280717	Silent	NA	S102S	0.2
CESC	chr20	35280089	Silent	NA	L133L	0.29
COAD	chr20	35280061	Missense_Mutation	NA	A143S	0.37
COAD	chr20	35279072	3'UTR	novel		0.21
COAD	chr20	35279942	Splice_Region	novel	V182V	0.52
COAD	chr20	35279182	3'UTR	novel		0.29
ESCA	chr20	35280718	Missense_Mutation	NA	S102L	0.12
GBM	chr20	35279140	3'UTR	novel		0.22
GBM	chr20	35279119	3'UTR	novel		0.54
HNSC	chr20	35279748	Splice_Site	novel	X183_splice	0.41
HNSC	chr20	35279991	Missense_Mutation	novel	S166L	0.43
HNSC	chr20	35284327	Intron	novel		0.33
HNSC	chr20	35280718	Missense_Mutation	NA	S102L	0.33
HNSC	chr20	35284341	Intron	novel		0.17
KIRC	chr20	35279585	Missense_Mutation	rs546977597	R237W	0.06
KIRC	chr20	35284245	Missense_Mutation	NA	L42V	0.19
LAML	chr20	35279732	Nonsense_Mutation	novel	R188*	0.03
LUAD	chr20	35279996	Missense_Mutation	novel	K164N	0.23
LUAD	chr20	35284565	5'UTR	novel		0.18
LUAD	chr20	35284333	Intron	novel		0.13
LUAD	chr20	35279959	Missense_Mutation	novel	L177V	0.36
LUAD	chr20	35279117	3'UTR	novel		0.1
LUAD	chr20	35284477	Missense_Mutation	NA	R4P	0.13
LUAD	chr20	35280055	Nonsense_Mutation	NA	Q145*	0.72
LUSC	chr20	35284531	5'UTR	novel		0.27
LUSC	chr20	35280718	Missense_Mutation	NA	S102L	0.27
LUSC	chr20	35280821	Missense_Mutation	novel	H68Y	0.4
LUSC	chr20	35284423	Missense_Mutation	NA	T22I	0.24
MESO	chr20	35279132	3'UTR	novel		0.43
OV	chr20	35284378	Splice_Region	novel		0.1
OV	chr20	35284253	Missense_Mutation	novel	E39V	0.51
SKCM	chr20	35279948	Silent	NA	P180P	0.22
SKCM	chr20	35284482	Silent	NA	A2A	0.28
SKCM	chr20	35284259	Missense_Mutation	NA	V37A	0.21
STAD	chr20	35280737	Missense_Mutation	rs769582164	R96W	0.39
STAD	chr20	35284346	Intron	novel		0.7
STAD	chr20	35284347	Intron	novel		0.71
STAD	chr20	35284494	5'UTR	novel		0.26
UCEC	chr20	35280779	Nonsense_Mutation	novel	Q82*	0.08
UCEC	chr20	35280655	Missense_Mutation	NA	R123M	0.26
UCEC	chr20	35280823	Missense_Mutation	NA	R67M	0.16
UCEC	chr20	35280755	Missense_Mutation	novel	D90Y	0.22
UCEC	chr20	35280016	Nonsense_Mutation	rs11553027	G158*	0.32
UCEC	chr20	35284317	Intron	novel		0.41
UCEC	chr20	35279173	3'UTR	rs769045030		0.35
UCEC	chr20	35280654	Splice_Region	novel	R123R	0.2
UCEC	chr20	35279977	Missense_Mutation	rs768741006	D171N	0.35
UCEC	chr20	35280818	Missense_Mutation	NA	G69S	0.42
UCEC	chr20	35280058	Missense_Mutation	rs144752898	D144N	0.42
UCEC	chr20	35279171	3'UTR	novel		0.3
UCEC	chr20	35280769	Missense_Mutation	rs773641573	R85H	0.43
UCEC	chr20	35280710	Missense_Mutation	novel	G105S	0.37
UCS	chr20	35279731	Missense_Mutation	novel	R188Q	0.2

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
LAML	DEL	0.0209	0.14746

Survival Analysis

Cancer	P-value	Q-value
KIRC	0.048	Kaplan-Meier Survival Analysis
SARC	0.029	Kaplan-Meier Survival Analysis
MESO	0.0096	Kaplan-Meier Survival Analysis
SKCM	0.0015	Kaplan-Meier Survival Analysis
ESCA	0.026	Kaplan-Meier Survival Analysis
PAAD	0.013	Kaplan-Meier Survival Analysis
LAML	0.025	Kaplan-Meier Survival Analysis
LIHC	0.00015	Kaplan-Meier Survival Analysis
LGG	0.011	Kaplan-Meier Survival Analysis
LUAD	0.0066	Kaplan-Meier Survival Analysis

Drugs

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000242372 (Gene tree)
Gene ID: 3692
Gene Symbol: EIF6
Alias: p27BBP|b(2)gcn|EIF3A|ITGB4BP
Full Name: eukaryotic translation initiation factor 6
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Minus strand
Length: 6,080 bases
Position: chr20:35,278,906-35,284,985
Accession: 6159
RBP type: non-canonical RBP
Summary: Hemidesmosomes are structures which link the basal lamina to the intermediate filament cytoskeleton. An important functional component of hemidesmosomes is the integrin beta-4 subunit (ITGB4), a protein containing two fibronectin type III domains. The protein encoded by this gene binds to the fibronectin type III domains of ITGB4 and may help link ITGB4 to the intermediate filament cytoskeleton. The encoded protein, which is insoluble and found both in the nucleus and in the cytoplasm, can function as a translation initiation factor and prevent the association of the 40S and 60S ribosomal subunits. Multiple non-protein coding transcript variants and variants encoding two different isoforms have been found for this gene. [provided by RefSeq, Jun 2012]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & HEK293	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & MCF10A	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
16006622	Regulation of expression by promoters versus internal ribosome entry site in the 5'-untranslated sequence of the human cyclin-dependent kinase inhibitor p27kip1.	Nucleic Acids Res	2005 Jul 8	Liu Z	-
22279564	TRBP and eIF6 homologue in Marsupenaeus japonicus play crucial roles in antiviral response.	PLoS One	2012	Wang S	doi: 10.1371/journal.pone.0030057
21855647	Far upstream element binding protein 1 activates translation of p27Kip1 mRNA through its internal ribosomal entry site.	Int J Biochem Cell Biol	2011 Nov	Zheng Y	doi: 10.1016/j.biocel.2011.08.001
25151966	miR-340 inhibits tumor cell proliferation and induces apoptosis by targeting multiple negative regulators of p27 in non-small cell lung cancer.	Oncogene	2015 Jun	Fernandez S	doi: 10.1038/onc.2014.267
27947744	-	-	-	-	-
25639871	Functional proteomics identifies miRNAs to target a p27/Myc/phospho-Rb signature in breast and ovarian cancer.	Oncogene	2016 Feb 11	Seviour EG	doi: 10.1038/onc.2014.469

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000374436	EIF6-201	1252	-	ENSP00000363559	245 (aa)	-	P56537
ENST00000374450	EIF6-203	1289	-	ENSP00000363574	245 (aa)	-	P56537
ENST00000374443	EIF6-202	1017	-	ENSP00000363566	226 (aa)	-	P56537
ENST00000415116	EIF6-204	739	-	ENSP00000415044	186 (aa)	-	F8WDS6
ENST00000440766	EIF6-205	798	-	ENSP00000395907	59 (aa)	-	F8WD20
ENST00000447927	EIF6-206	932	-	ENSP00000411450	108 (aa)	-	A0A0B4J1Y7
ENST00000462894	EIF6-208	453	-	-	- (aa)	-	-
ENST00000456600	EIF6-207	551	-	ENSP00000390897	108 (aa)	-	B7ZBH1

Gene Model

Click here to download ENSG00000242372's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa03008	Ribosome biogenesis in eukaryotes	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000242372	Iron	5.2090000E-004	19880490
ENSG00000242372	Melanosis	5E-14	20585627

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000242372	rs619865	20	35279894	A	Freckling	20585627	[NR] unit increase	0.77	EFO_0003963
ENSG00000242372	rs2425048	20	35284920	?	Sunburns	30595370			EFO_0003958

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000242372's network

* RBP PPI network refers to all genes directly bind to RBP

Orthologs identified by RBPome

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000242372	EIF6	99	70.093	WBGene00001234	eif-6	99	64.490	Caenorhabditis_elegans
ENSG00000242372	EIF6	99	76.636	YPR016C	TIF6	100	72.245	Saccharomyces_cerevisiae

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000054	ribosomal subunit export from nucleus	21873635.	IBA	Process
GO:0003743	translation initiation factor activity	-	IEA	Function
GO:0005515	protein binding	17507929.21665150.21903422.22365962.	IPI	Function
GO:0005634	nucleus	12426392.	IDA	Component
GO:0005654	nucleoplasm	-	IDA	Component
GO:0005730	nucleolus	21873635.	IBA	Component
GO:0005737	cytoplasm	12426392.	IDA	Component
GO:0005829	cytosol	21873635.	IBA	Component
GO:0006110	regulation of glycolytic process	-	ISS	Process
GO:0006413	translational initiation	-	IEA	Process
GO:0030687	preribosome, large subunit precursor	21873635.	IBA	Component
GO:0032868	response to insulin	-	ISS	Process
GO:0035195	gene silencing by miRNA	17507929.	IMP	Process
GO:0035278	miRNA mediated inhibition of translation	17507929.	IMP	Process
GO:0042256	mature ribosome assembly	21536732.	IMP	Process
GO:0042273	ribosomal large subunit biogenesis	-	IEA	Process
GO:0042304	regulation of fatty acid biosynthetic process	-	ISS	Process
GO:0043022	ribosome binding	21536732.	IDA	Function
GO:0043023	ribosomal large subunit binding	21873635.	IBA	Function
GO:0045652	regulation of megakaryocyte differentiation	-	ISS	Process
GO:0045727	positive regulation of translation	-	ISS	Process
GO:0070062	extracellular exosome	19056867.23533145.	HDA	Component
GO:1902626	assembly of large subunit precursor of preribosome	21873635.	IBA	Process
GO:2000377	regulation of reactive oxygen species metabolic process	-	ISS	Process

EuRBPDB

Note: to get the extension of tumor abbreviations.

Select Dataset :

Input Drug :

Input Cell Line :

Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

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

Select Dataset :

Input Drug :

Input Cell Line :

Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742

Note: to get the extension of tumor abbreviations.