EuRBPDB

Note: to get the extension of tumor abbreviations.

Cancer Related Information
Basic Information

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
17616526	RbAp48 is a critical mediator controlling the transforming activity of human papillomavirus type 16 in cervical cancer.	J Biol Chem	2007 Sep 7	Kong L	-
14966907	Genes encoding Pir51, Beclin 1, RbAp48 and aldolase b are up or down-regulated in human primary hepatocellular carcinoma.	World J Gastroenterol	2004 Feb 15	Song H	-
17244783	RbAp48 is a target of nuclear factor-kappaB activity in thyroid cancer.	J Clin Endocrinol Metab	2007 Apr	Pacifico F	-
18577416	The role of retinoblastoma-associated proteins 46 and 48 in estrogen receptor alpha mediated gene expression.	Mol Cell Endocrinol	2008 Sep 10	Creekmore AL	doi: 10.1016/j.mce.2008.05.016
29901205	Overexpression of retinoblastomabinding protein 4 contributes to the radiosensitivity of AGS gastric cancer cells via phosphoinositide3kinase/protein kinase B pathway suppression.	Mol Med Rep	2018 Aug	Jin X	doi: 10.3892/mmr.2018.9153

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr1	32668778	Missense_Mutation	novel	G175E	0.41
BLCA	chr1	32668845	Silent	novel	S197S	0.24
BLCA	chr1	32669088	Silent	NA	H239H	0.42
BLCA	chr1	32684231	3'UTR	rs749331723		0.18
BLCA	chr1	32652005	Missense_Mutation	novel	M36I	0.06
BLCA	chr1	32672498	Missense_Mutation	NA	D339N	0.4
BLCA	chr1	32683853	3'UTR	novel		0.15
BLCA	chr1	32672829	Silent	NA	F380F	0.14
BLCA	chr1	32672691	Missense_Mutation	novel	E365K	0.29
BLCA	chr1	32679705	Nonstop_Mutation	novel	426Yext7	0.14
BRCA	chr1	32657469	Silent	NA	G69G	0.16
BRCA	chr1	32651948	Silent	NA	I17I	0.19
BRCA	chr1	32679796	3'UTR	novel		0.18
BRCA	chr1	32679798	3'UTR	novel		0.16
BRCA	chr1	32680907	3'UTR	novel		0.32
BRCA	chr1	32680326	3'UTR	novel		0.28
BRCA	chr1	32672883	Silent	NA	I398I	0.32
BRCA	chr1	32681967	3'UTR	novel		0.08
BRCA	chr1	32651948	Silent	NA	I17I	0.2
BRCA	chr1	32684391	3'UTR	novel		0.28
BRCA	chr1	32669492	Missense_Mutation	novel	A299S	0.04
CESC	chr1	32681686	3'UTR	novel		0.45
CESC	chr1	32681190	3'UTR	novel		0.39
CESC	chr1	32681901	3'UTR	novel		0.21
CESC	chr1	32681099	3'UTR	novel		0.08
CESC	chr1	32680876	3'UTR	novel		0.13
CESC	chr1	32681993	3'UTR	novel		0.23
CESC	chr1	32679658	Missense_Mutation	NA	D411H	0.42
CESC	chr1	32681639	3'UTR	novel		0.24
CHOL	chr1	32680564	3'UTR	novel		0.29
COAD	chr1	32684551	3'UTR	novel		0.54
COAD	chr1	32679678	Silent	novel	S417S	0.35
COAD	chr1	32684458	3'UTR	novel		0.24
COAD	chr1	32680513	3'UTR	novel		0.2
COAD	chr1	32672654	Missense_Mutation	NA	E352D	0.3
COAD	chr1	32651988	Missense_Mutation	novel	L31I	0.07
COAD	chr1	32679645	Missense_Mutation	novel	E406D	0.06
COAD	chr1	32672797	Missense_Mutation	NA	H370N	0.35
COAD	chr1	32680759	3'UTR	novel		0.11
COAD	chr1	32680761	3'UTR	novel		0.1
COAD	chr1	32651255	5'UTR	novel		0.7
COAD	chr1	32657546	Missense_Mutation	rs773549765	A95V	0.32
ESCA	chr1	32672468	Missense_Mutation	novel	N329Y	0.17
ESCA	chr1	32668997	Missense_Mutation	novel	A209V	0.25
ESCA	chr1	32680513	3'UTR	novel		0.41
GBM	chr1	32669232	Missense_Mutation	NA	W255G	0.35
GBM	chr1	32684101	3'UTR	novel		0.21
HNSC	chr1	32672682	Missense_Mutation	novel	G362R	0.12
HNSC	chr1	32683816	3'UTR	novel		0.12
HNSC	chr1	32684445	3'UTR	novel		0.73
HNSC	chr1	32679658	Missense_Mutation	novel	D411N	0.38
HNSC	chr1	32681650	3'UTR	novel		0.33
KICH	chr1	32680513	3'UTR	novel		0.04
KIRC	chr1	32681901	3'UTR	novel		0.47
KIRC	chr1	32672832	Silent	novel	S381S	0.12
KIRC	chr1	32681985	3'UTR	novel		0.07
KIRP	chr1	32684459	3'UTR	novel		0.29
LAML	chr1	32672471	Missense_Mutation	rs766075227	E330K	0.42
LAML	chr1	32672471	Missense_Mutation	rs766075227	E330K	0.16
LGG	chr1	32668233	Missense_Mutation	novel	G107C	0.24
LGG	chr1	32679705	Nonstop_Mutation	novel	426Yext7	0.41
LIHC	chr1	32668834	Missense_Mutation	novel	L194F	0.22
LUAD	chr1	32684141	3'UTR	novel		0.25
LUAD	chr1	32684484	3'UTR	novel		0.75
LUAD	chr1	32672666	Silent	novel	P356P	0.13
LUAD	chr1	32668271	Silent	NA	I119I	0.17
LUAD	chr1	32683819	3'UTR	novel		0.2
LUAD	chr1	32679773	3'UTR	novel		0.15
LUAD	chr1	32681985	3'UTR	novel		0.38
LUSC	chr1	32669316	Missense_Mutation	NA	P283S	0.31
LUSC	chr1	32672525	Missense_Mutation	novel	S348C	0.25
OV	chr1	32684146	3'UTR	novel		0.05
OV	chr1	32669337	Missense_Mutation	novel	A290T	0.28
OV	chr1	32651419	Intron	novel		0.07
OV	chr1	32681941	3'UTR	novel		0.4
OV	chr1	32657507	Missense_Mutation	NA	A82D	0.5
PAAD	chr1	32681920	3'UTR	novel		0.16
PAAD	chr1	32683935	3'UTR	novel		0.21
PRAD	chr1	32657546	Missense_Mutation	rs773549765	A95V	0.4
READ	chr1	32681764	3'UTR	novel		0.37
SARC	chr1	32669117	Missense_Mutation	novel	D249V	0.89
SARC	chr1	32681053	3'UTR	novel		0.15
SKCM	chr1	32652040	Missense_Mutation	NA	Q48R	0.23
SKCM	chr1	32669533	Silent	NA	S312S	0.93
SKCM	chr1	32668851	Silent	NA	D199D	0.07
SKCM	chr1	32669085	Silent	NA	L238L	0.17
SKCM	chr1	32672891	Missense_Mutation	NA	V401A	0.17
SKCM	chr1	32672501	Missense_Mutation	NA	R340C	0.78
SKCM	chr1	32672834	Nonsense_Mutation	NA	W382*	0.34
SKCM	chr1	32684144	3'UTR	novel		0.21
STAD	chr1	32668826	Missense_Mutation	NA	G191V	0.11
STAD	chr1	32669133	Splice_Site	novel	X254_splice	0.05
STAD	chr1	32668332	Missense_Mutation	NA	I140V	0.23
STAD	chr1	32668799	Missense_Mutation	NA	G182E	0.28
STAD	chr1	32669015	Missense_Mutation	rs77147900	K215R	0.13
STAD	chr1	32668850	Missense_Mutation	NA	D199G	0.31
STAD	chr1	32681996	3'UTR	novel		0.29
STAD	chr1	32683929	3'UTR	rs752784102		0.22
STAD	chr1	32652006	Missense_Mutation	NA	T37A	0.23
STAD	chr1	32681780	3'UTR	novel		0.34
STAD	chr1	32684583	3'UTR	novel		0.67
TGCT	chr1	32651246	5'UTR	rs370825090		0.19
THCA	chr1	32657431	Missense_Mutation	NA	E57K	0.06
THCA	chr1	32681985	3'UTR	novel		0.17
UCEC	chr1	32669111	Missense_Mutation	NA	A247V	0.36
UCEC	chr1	32681883	3'UTR	novel		0.34
UCEC	chr1	32680140	3'UTR	novel		0.16
UCEC	chr1	32680549	3'UTR	novel		0.45
UCEC	chr1	32657550	Silent	novel	S96S	0.15
UCEC	chr1	32684534	3'UTR	novel		0.19
UCEC	chr1	32684185	3'UTR	novel		0.16
UCEC	chr1	32679712	3'UTR	novel		0.4
UCEC	chr1	32672864	Missense_Mutation	NA	S392F	0.21
UCEC	chr1	32669111	Missense_Mutation	NA	A247D	0.35
UCEC	chr1	32668834	Missense_Mutation	novel	L194I	0.17
UCEC	chr1	32679702	Silent	novel	S425S	0.19
UCEC	chr1	32680330	3'UTR	novel		0.32
UCEC	chr1	32679678	Silent	novel	S417S	0.07
UCEC	chr1	32684552	3'UTR	novel		0.15
UCEC	chr1	32669508	Missense_Mutation	novel	R304I	0.2
UCEC	chr1	32680223	3'UTR	novel		0.38
UCEC	chr1	32672514	Missense_Mutation	novel	V344G	0.56
UCEC	chr1	32681686	3'UTR	novel		0.54
UCEC	chr1	32681020	3'UTR	novel		0.58
UCEC	chr1	32668386	Missense_Mutation	novel	P158S	0.27
UCEC	chr1	32672654	Missense_Mutation	NA	E352D	0.25
UCEC	chr1	32680697	3'UTR	novel		0.23
UCEC	chr1	32681881	3'UTR	novel		0.26
UCEC	chr1	32680766	3'UTR	novel		0.41
UCEC	chr1	32657455	Nonsense_Mutation	novel	R65*	0.45
UCEC	chr1	32681124	3'UTR	novel		0.53
UCEC	chr1	32679786	3'UTR	novel		0.08
UCEC	chr1	32681890	3'UTR	novel		0.06
UCEC	chr1	32651930	Silent	NA	A11A	0.39
UCEC	chr1	32680339	3'UTR	novel		0.6
UCEC	chr1	32679799	3'UTR	novel		0.44
UCEC	chr1	32684111	3'UTR	novel		0.4
UCEC	chr1	32681103	3'UTR	novel		0.26
UCEC	chr1	32681948	3'UTR	novel		0.4
UCEC	chr1	32679657	In_Frame_Ins	novel	D411_E421dup	0.29
UCEC	chr1	32651954	Missense_Mutation	novel	E19D	0.21
UCEC	chr1	32657481	Silent	rs768938293	S73S	0.1
UCEC	chr1	32683868	3'UTR	novel		0.19
UCEC	chr1	32668738	Splice_Site	novel	X162_splice	0.43
UCEC	chr1	32657570	Missense_Mutation	novel	G103E	0.24
UCEC	chr1	32672822	Missense_Mutation	novel	S378Y	0.18
UCEC	chr1	32681955	3'UTR	novel		0.24
UCEC	chr1	32683822	3'UTR	novel		0.5
UCEC	chr1	32683863	3'UTR	novel		0.13
UCEC	chr1	32683865	3'UTR	novel		0.21
UCEC	chr1	32684198	3'UTR	novel		0.03
UCEC	chr1	32669027	Missense_Mutation	novel	A219V	0.25
UCEC	chr1	32679872	3'UTR	novel		0.43
UCEC	chr1	32680339	3'UTR	novel		0.7
UCEC	chr1	32668832	Nonsense_Mutation	novel	L193*	0.1
UCEC	chr1	32668768	Missense_Mutation	novel	R172C	0.27
UCEC	chr1	32681899	3'UTR	novel		0.54
UCEC	chr1	32672682	Missense_Mutation	novel	G362R	0.38
UCEC	chr1	32680543	3'UTR	novel		0.32
UCEC	chr1	32681077	3'UTR	novel		0.43

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
DLBC	DEL	0.125	0.011841
LIHC	DEL	0.3189	1.6679e-20
TGCT	DEL	0.14	0.00046313

Survival Analysis

Cancer	P-value	Q-value
THYM	0.0056	Kaplan-Meier Survival Analysis
STAD	0.0043	Kaplan-Meier Survival Analysis
SARC	0.00027	Kaplan-Meier Survival Analysis
MESO	0.031	Kaplan-Meier Survival Analysis
ACC	0.00088	Kaplan-Meier Survival Analysis
BRCA	0.009	Kaplan-Meier Survival Analysis
KIRP	0.031	Kaplan-Meier Survival Analysis
COAD	0.042	Kaplan-Meier Survival Analysis
BLCA	0.015	Kaplan-Meier Survival Analysis
CESC	0.0024	Kaplan-Meier Survival Analysis
KICH	0.043	Kaplan-Meier Survival Analysis
GBM	0.02	Kaplan-Meier Survival Analysis
LIHC	0.0001	Kaplan-Meier Survival Analysis
LGG	0.00011	Kaplan-Meier Survival Analysis
LUAD	0.0054	Kaplan-Meier Survival Analysis

Drugs

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Expression

Transcripts

Gene Model

Pathways

Phenotypes

PPI

Gene Ontology

Description

Ensembl ID: ENSG00000162521 (Gene tree)
Gene ID: 5928
Gene Symbol: RBBP4
Alias: RbAp48|NURF55|lin-53
Full Name: RB binding protein 4, chromatin remodeling factor
Gene Type: protein_coding
Species: Homo_sapiens
Status: putative
Strand: Plus strand
Length: 35,070 bases
Position: chr1:32,651,142-32,686,211
Accession: 9887
RBP type: non-canonical RBP
Summary: This gene encodes a ubiquitously expressed nuclear protein which belongs to a highly conserved subfamily of WD-repeat proteins. It is present in protein complexes involved in histone acetylation and chromatin assembly. It is part of the Mi-2 complex which has been implicated in chromatin remodeling and transcriptional repression associated with histone deacetylation. This encoded protein is also part of co-repressor complexes, which is an integral component of transcriptional silencing. It is found among several cellular proteins that bind directly to retinoblastoma protein to regulate cell proliferation. This protein also seems to be involved in transcriptional repression of E2F-responsive genes. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2008]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & HEK293	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
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
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & U2OS	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30352994	Discovery of RNA-binding proteins and characterization of their dynamic responses by enhanced RNA interactome capture	RIC & Jurkat	2018 Oct 23	Perez-Perri JI	DOI:10.1038/s41467-018-06557-8

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000477563	RBBP4-211	544	-	ENSP00000432774	104 (aa)	-	E9PNS6
ENST00000492348	RBBP4-214	1547	-	ENSP00000436663	87 (aa)	-	E9PIC4
ENST00000401893	RBBP4-203	762	-	-	- (aa)	-	-
ENST00000527118	RBBP4-218	700	-	ENSP00000432780	62 (aa)	-	E9PNS2
ENST00000458695	RBBP4-206	1674	-	ENSP00000396057	390 (aa)	-	Q09028
ENST00000490500	RBBP4-213	632	-	ENSP00000437210	68 (aa)	-	E9PND5
ENST00000414241	RBBP4-204	1788	-	ENSP00000398242	424 (aa)	-	Q09028
ENST00000373485	RBBP4-201	1417	-	ENSP00000362584	410 (aa)	-	Q09028
ENST00000463378	RBBP4-208	882	-	ENSP00000433805	262 (aa)	-	H0YDK2
ENST00000482190	RBBP4-212	616	-	ENSP00000436565	167 (aa)	-	H0YEU5
ENST00000373493	RBBP4-202	7943	-	ENSP00000362592	425 (aa)	-	Q09028
ENST00000526193	RBBP4-217	568	-	ENSP00000434925	87 (aa)	-	E9PIC4
ENST00000525506	RBBP4-216	501	-	-	- (aa)	-	-
ENST00000475321	RBBP4-210	619	-	ENSP00000436986	207 (aa)	-	H0YF10
ENST00000460669	RBBP4-207	783	-	ENSP00000432298	180 (aa)	-	H0YCT5
ENST00000445722	RBBP4-205	580	-	ENSP00000389437	87 (aa)	-	C9JPP3
ENST00000524393	RBBP4-215	583	-	-	- (aa)	-	-
ENST00000531983	RBBP4-219	473	-	-	- (aa)	-	-
ENST00000465780	RBBP4-209	690	-	-	- (aa)	-	-

Gene Model

Click here to download ENSG00000162521's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa04218	Cellular senescence	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000162521	Coronary Disease	2.2710000E-005	-

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000162521's network

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

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000790	nuclear chromatin	16217013.	HDA	Component
GO:0000790	nuclear chromatin	14718166.	IDA	Component
GO:0000978	RNA polymerase II proximal promoter sequence-specific DNA binding	16217013.	HDA	Function
GO:0000980	RNA polymerase II distal enhancer sequence-specific DNA binding	16217013.	HDA	Function
GO:0005515	protein binding	7503932.9150135.10220385.14609955.19703393.20127688.21047798.21258344.22720776.23752268.25416956.27705803.	IPI	Function
GO:0005634	nucleus	14609955.	IDA	Component
GO:0005654	nucleoplasm	22720776.	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005829	cytosol	-	IDA	Component
GO:0006260	DNA replication	-	IEA	Process
GO:0006335	DNA replication-dependent nucleosome assembly	14718166.	IDA	Process
GO:0006336	DNA replication-independent nucleosome assembly	14718166.	IDA	Process
GO:0006338	chromatin remodeling	14609955.	IDA	Process
GO:0007049	cell cycle	-	IEA	Process
GO:0008094	DNA-dependent ATPase activity	14609955.	IDA	Function
GO:0008285	negative regulation of cell proliferation	8350924.	TAS	Process
GO:0016580	Sin3 complex	17827154.	NAS	Component
GO:0016581	NuRD complex	19644445.22926524.	IDA	Component
GO:0016581	NuRD complex	17827154.	NAS	Component
GO:0016589	NURF complex	20850016.	IDA	Component
GO:0031492	nucleosomal DNA binding	16217013.	HDA	Function
GO:0031497	chromatin assembly	8858152.	IDA	Process
GO:0032991	protein-containing complex	16217013.	HDA	Component
GO:0032991	protein-containing complex	14718166.	IDA	Component
GO:0033186	CAF-1 complex	8858152.	IDA	Component
GO:0034080	CENP-A containing nucleosome assembly	-	TAS	Process
GO:0035098	ESC/E(Z) complex	20075857.23104054.23273982.	IDA	Component
GO:0042393	histone binding	17827154.	NAS	Function
GO:0042826	histone deacetylase binding	17827154.	IPI	Function
GO:0043044	ATP-dependent chromatin remodeling	16217013.	HDA	Process
GO:0045814	negative regulation of gene expression, epigenetic	-	TAS	Process
GO:0051726	regulation of cell cycle	-	TAS	Process
GO:0060416	response to growth hormone	-	IEA	Process
GO:0070317	negative regulation of G0 to G1 transition	-	TAS	Process
GO:1901796	regulation of signal transduction by p53 class mediator	-	TAS	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

Expression

Transcripts

Gene Model

Pathways

Phenotypes

PPI

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.