EuRBPDB

Note: to get the extension of tumor abbreviations.

Cancer Related Information
Basic Information

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
26823742	Methylation-silencing RCC1 expression is associated with tumorigenesis and depth of invasion in gastric cancer.	Int J Clin Exp Pathol	2015 Nov 1	Lin YL	-
29363114	Exome sequencing and case-control analyses identify RCC1 as a candidate breast cancer susceptibility gene.	Int J Cancer	2018 Jun 15	Riahi A	doi: 10.1002/ijc.31273

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr1	28536889	Silent	NA	V360V	0.05
BLCA	chr1	28530546	Intron	novel		0.36
BRCA	chr1	28532207	Nonsense_Mutation	NA	G100*	0.15
BRCA	chr1	28535139	Frame_Shift_Del	novel	*A178Lfs12**	0.14
BRCA	chr1	28538080	3'UTR	novel		0.21
CESC	chr1	28536007	Silent	rs748559047	L266L	0.23
CESC	chr1	28535280	Silent	NA	L187L	0.43
CHOL	chr1	28516827	5'Flank	novel		0.38
COAD	chr1	28532233	Silent	novel	S108S	0.16
COAD	chr1	28529898	Frame_Shift_Del	NA	*P13Qfs11**	0.49
COAD	chr1	28535369	Missense_Mutation	rs528320406	R217Q	0.38
COAD	chr1	28529898	Frame_Shift_Del	NA	*P13Qfs11**	0.4
COAD	chr1	28536767	Missense_Mutation	NA	R320W	0.47
COAD	chr1	28536847	Silent	novel	A346A	0.09
COAD	chr1	28531858	Silent	NA	G43G	0.33
COAD	chr1	28538186	3'UTR	novel		0.5
COAD	chr1	28537834	Missense_Mutation	rs760969624	R365C	0.42
COAD	chr1	28530547	Intron	novel		0.34
ESCA	chr1	28537937	Missense_Mutation	novel	R399H	0.09
GBM	chr1	28535995	Silent	rs138664851	Y262Y	0.07
GBM	chr1	28535118	Frame_Shift_Del	novel	*D171Cfs19**	0.73
GBM	chr1	28536790	Silent	novel	G327G	0.17
GBM	chr1	28535959	Silent	novel	Y250Y	0.12
GBM	chr1	28531867	Frame_Shift_Del	novel	*Q47Sfs8**	0.27
GBM	chr1	28535123	Missense_Mutation	novel	V172E	0.21
HNSC	chr1	28532349	Missense_Mutation	rs751946002	R147Q	0.25
HNSC	chr1	28535902	Silent	novel	L231L	0.09
HNSC	chr1	28531804	Splice_Region	novel	V25V	0.23
HNSC	chr1	28537949	Missense_Mutation	novel	S403Y	0.19
HNSC	chr1	28535122	Missense_Mutation	rs773841273	V172M	0.3
KIRC	chr1	28531848	Missense_Mutation	novel	L40Q	0.16
LIHC	chr1	28535369	Missense_Mutation	NA	R217P	0.34
LIHC	chr1	28537993	Missense_Mutation	NA	K418E	0.36
LIHC	chr1	28536806	Missense_Mutation	rs547058163	E333K	0.55
LIHC	chr1	28536747	Missense_Mutation	novel	G313E	0.38
LUAD	chr1	28535332	Missense_Mutation	NA	G205C	0.28
LUAD	chr1	28535331	Silent	novel	L204L	0.2
LUAD	chr1	28531876	Silent	NA	G49G	0.4
LUAD	chr1	28537917	Missense_Mutation	novel	M392I	0.5
LUAD	chr1	28536856	Silent	NA	S349S	0.16
LUAD	chr1	28535921	Missense_Mutation	novel	G238C	0.12
LUSC	chr1	28531976	In_Frame_Del	novel	S83del	0.24
LUSC	chr1	28530530	Intron	novel		0.18
LUSC	chr1	28535133	Silent	novel	V175V	0.66
OV	chr1	28535933	Nonsense_Mutation	novel	F242*	0.05
OV	chr1	28536776	Missense_Mutation	NA	Y323D	0.15
OV	chr1	28537871	Missense_Mutation	novel	L377P	0.15
PAAD	chr1	28530580	Intron	novel		0.1
PAAD	chr1	28536782	Missense_Mutation	novel	R325W	0.19
PRAD	chr1	28531858	Silent	NA	G43G	0.33
READ	chr1	28535087	Missense_Mutation	novel	K160R	0.6
READ	chr1	28536376	Missense_Mutation	rs745611564	S311L	0.24
READ	chr1	28538014	3'UTR	novel		0.23
SARC	chr1	28531967	Missense_Mutation	novel	V80L	0.4
SKCM	chr1	28537844	Missense_Mutation	novel	A368V	0.4
SKCM	chr1	28532309	Missense_Mutation	NA	L134F	0.22
SKCM	chr1	28537863	Silent	novel	N374N	0.48
SKCM	chr1	28535141	Missense_Mutation	novel	A178V	0.24
SKCM	chr1	28535142	Silent	novel	A178A	0.25
SKCM	chr1	28537834	Missense_Mutation	rs760969624	R365C	0.44
SKCM	chr1	28535334	Silent	NA	G205G	0.43
SKCM	chr1	28532179	Silent	NA	S90S	0.26
SKCM	chr1	28530586	Intron	novel		0.27
SKCM	chr1	28532178	Missense_Mutation	NA	S90F	0.71
SKCM	chr1	28535359	Missense_Mutation	NA	R214G	0.23
SKCM	chr1	28531966	Silent	rs753253859	T79T	0.54
STAD	chr1	28536376	Missense_Mutation	rs745611564	S311L	0.3
STAD	chr1	28536805	Silent	novel	A332A	0.07
STAD	chr1	28537965	Silent	NA	G408G	0.41
STAD	chr1	28535374	Missense_Mutation	novel	G219R	0.16
STAD	chr1	28530552	Intron	novel		0.36
STAD	chr1	28531832	Missense_Mutation	NA	G35S	0.36
STAD	chr1	28529881	Silent	NA	R5R	0.21
STAD	chr1	28529897	Frame_Shift_Ins	rs779694464	*A14Sfs39**	0.4
STAD	chr1	28532232	Missense_Mutation	rs150426843	S108L	0.41
STAD	chr1	28535874	Missense_Mutation	NA	R222Q	0.27
STAD	chr1	28531917	Missense_Mutation	novel	V63A	0.29
STAD	chr1	28535986	Silent	NA	G259G	0.14
TGCT	chr1	28530585	Intron	novel		0.21
THCA	chr1	28536773	Missense_Mutation	NA	E322K	0.21
UCEC	chr1	28535910	Frame_Shift_Del	novel	*G235Efs6**	0.16
UCEC	chr1	28538027	3'UTR	novel		0.07
UCEC	chr1	28532231	Missense_Mutation	NA	S108T	0.26
UCEC	chr1	28535977	Silent	NA	S256S	0.21
UCEC	chr1	28536761	Silent	NA	L318L	0.2
UCEC	chr1	28537927	Silent	rs372931907	L396L	0.31
UCEC	chr1	28536022	Missense_Mutation	NA	Q271H	0.54
UCEC	chr1	28531908	Missense_Mutation	novel	P60L	0.42
UCEC	chr1	28530608	Intron	novel		0.44
UCEC	chr1	28536766	Silent	novel	G319G	0.27
UCEC	chr1	28538088	3'UTR	novel		0.15
UCEC	chr1	28530590	Intron	novel		0.21
UCEC	chr1	28536018	Missense_Mutation	rs764461802	H270R	0.52
UCEC	chr1	28532173	Splice_Region	novel	V88V	0.56
UCEC	chr1	28536376	Missense_Mutation	rs745611564	S311L	0.25
UCEC	chr1	28530558	Intron	rs779465868		0.28
UCEC	chr1	28535360	Missense_Mutation	rs763928410	R214H	0.35
UCEC	chr1	28532271	Missense_Mutation	novel	V121A	0.33
UCEC	chr1	28535965	Silent	novel	T252T	0.32
UCEC	chr1	28537959	Silent	rs779103379	S406S	0.47
UCEC	chr1	28529898	Frame_Shift_Del	NA	*P13Qfs11**	0.31
UCEC	chr1	28535917	Silent	novel	S236S	0.4

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
CHOL	DEL	0.7778	3.3987e-23
DLBC	DEL	0.1042	0.011841
ESCA	DEL	0.2826	0.0012162
KIRC	DEL	0.1458	2.3538e-09
KIRP	DEL	0.1701	1.462e-09
LIHC	DEL	0.3514	1.6679e-20
LUAD	DEL	0.157	0.0024765
LUSC	DEL	0.3433	2.5882e-07
MESO	DEL	0.2299	2.434e-07
READ	DEL	0.4	2.1758e-10
TGCT	DEL	0.1533	0.00046313

Survival Analysis

Cancer	P-value	Q-value
KIRC	0.0001	Kaplan-Meier Survival Analysis
STAD	0.0058	Kaplan-Meier Survival Analysis
SARC	0.00011	Kaplan-Meier Survival Analysis
MESO	0.025	Kaplan-Meier Survival Analysis
ACC	0.0046	Kaplan-Meier Survival Analysis
SKCM	0.00054	Kaplan-Meier Survival Analysis
PRAD	0.036	Kaplan-Meier Survival Analysis
KIRP	0.0001	Kaplan-Meier Survival Analysis
PAAD	0.0029	Kaplan-Meier Survival Analysis
READ	0.019	Kaplan-Meier Survival Analysis
LAML	0.027	Kaplan-Meier Survival Analysis
LIHC	0.00019	Kaplan-Meier Survival Analysis
LGG	0.00012	Kaplan-Meier Survival Analysis
LUAD	0.0071	Kaplan-Meier Survival Analysis

Drugs

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Phenotypes

GWAS

PPI

Gene Ontology

Description

Ensembl ID: ENSG00000180198 (Gene tree)
Gene ID: 1104
Gene Symbol: RCC1
Alias: CHC1
Full Name: regulator of chromosome condensation 1
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 33,358 bases
Position: chr1:28,505,943-28,539,300
Accession: 1913
RBP type: non-canonical RBP
Summary: (Regulator Of Chromosome Condensation 1) is a Protein Coding gene. Diseases associated with RCC1 include Raynaud Disease and Microcystic Meningioma. Among its related pathways are DNA Damage and HIV Life Cycle. Gene Ontology (GO) annotations related to this gene include chromatin binding and nucleosomal DNA binding. An important paralog of this gene is RPGR.

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
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
29431736	Capturing the interactome of newly transcribed RNA	PolyT-RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
29431736	Capturing the interactome of newly transcribed RNA	RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & Hela	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
24961801	Clathrin regulates centrosome positioning by promoting acto-myosin cortical tension in C. elegans embryos.	Development	2014 Jul	Spiro Z	doi: 10.1242/dev.107508.
27145786	Dependence of the structure and mechanics of metaphase chromosomes on oxidized cysteines.	Chromosome Res	2016 Sep	Eastland A	doi: 10.1007/s10577-016-9528-6

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000398958	RCC1-204	2715	-	ENSP00000381931	421 (aa)	-	P18754
ENST00000411533	RCC1-205	1169	-	ENSP00000413644	372 (aa)	-	C9JW69
ENST00000486790	RCC1-212	481	-	ENSP00000472057	148 (aa)	-	M0R1Q8
ENST00000373831	RCC1-201	1577	-	ENSP00000362937	452 (aa)	-	P18754
ENST00000430407	RCC1-209	1121	-	ENSP00000394650	283 (aa)	-	C9JQZ4
ENST00000419074	RCC1-206	997	-	ENSP00000402260	272 (aa)	-	C9JMJ4
ENST00000434290	RCC1-210	1070	-	ENSP00000405258	264 (aa)	-	C9J3R0
ENST00000373833	RCC1-203	2844	-	ENSP00000362939	421 (aa)	-	P18754
ENST00000427469	RCC1-207	903	-	ENSP00000402740	230 (aa)	-	C9JRH2
ENST00000478232	RCC1-211	509	-	-	- (aa)	-	-
ENST00000429051	RCC1-208	538	-	-	- (aa)	-	-
ENST00000373832	RCC1-202	2424	-	ENSP00000362938	421 (aa)	-	P18754
ENST00000649185	RCC1-213	2686	-	ENSP00000497402	452 (aa)	-	A0A0S2Z404

Gene Model

Click here to download ENSG00000180198's gene model file

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000180198	Sleep	2E-6	27126917

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000180198	rs56272623	1	28514428	T	Night sleep phenotypes	27126917	[0.45-1.08] unit increase	0.7624	EFO_0007827
ENSG00000180198	rs6689862	1	28510931	T	Systolic blood pressure	30578418	[0.23-0.43] mmHg decrease	0.3273	EFO_0006335

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000180198's network

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

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000082	G1/S transition of mitotic cell cycle	3678831.	IMP	Process
GO:0000785	chromatin	12121620.	IDA	Component
GO:0000790	nuclear chromatin	15014043.	IDA	Component
GO:0000794	condensed nuclear chromosome	15014043.	IDA	Component
GO:0003682	chromatin binding	2677018.	IDA	Function
GO:0005087	Ran guanyl-nucleotide exchange factor activity	1944575.	IDA	Function
GO:0005087	Ran guanyl-nucleotide exchange factor activity	11336674.	IMP	Function
GO:0005087	Ran guanyl-nucleotide exchange factor activity	-	TAS	Function
GO:0005515	protein binding	1961752.7616957.9637251.11336674.11932251.16820410.18617507.20668449.20739938.29040603.29997244.	IPI	Function
GO:0005634	nucleus	21630459.	HDA	Component
GO:0005634	nucleus	17435751.	IDA	Component
GO:0005654	nucleoplasm	-	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005737	cytoplasm	17435751.	IDA	Component
GO:0007052	mitotic spindle organization	15014043.	IDA	Process
GO:0007059	chromosome segregation	17435751.	IMP	Process
GO:0007088	regulation of mitotic nuclear division	15014043.	IDA	Process
GO:0008536	Ran GTPase binding	11336674.	IDA	Function
GO:0016032	viral process	-	TAS	Process
GO:0031491	nucleosome binding	20347844.	IMP	Function
GO:0031492	nucleosomal DNA binding	17435751.	IDA	Function
GO:0031965	nuclear membrane	-	IDA	Component
GO:0032991	protein-containing complex	11336674.	IDA	Component
GO:0042393	histone binding	11375490.	IDA	Function
GO:0043199	sulfate binding	11336674.	IDA	Function
GO:0046982	protein heterodimerization activity	11336674.	IPI	Function
GO:0051225	spindle assembly	17435751.	IMP	Process
GO:0051290	protein heterotetramerization	11336674.	IDA	Process
GO:0051301	cell division	-	IEA	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

Phenotypes

GWAS

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.