EuRBPDB

Note: to get the extension of tumor abbreviations.

Cancer Related Information
Basic Information

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
23857605	Lamin B1 is a novel therapeutic target of betulinic acid in pancreatic cancer.	Clin Cancer Res	2013 Sep 1	Li L	doi: 10.1158/1078-0432.CCR-12-3630
24293108	The clinicopathological significance of lamin A/C, lamin B1 and lamin B receptor mRNA expression in human breast cancer.	Cell Mol Biol Lett	2013 Dec	Wazir U	doi: 10.2478/s11658-013-0109-9
23934658	Lamin B1 depletion in senescent cells triggers large-scale changes in gene expression and the chromatin landscape.	Genes Dev	2013 Aug 15	Shah PP	doi: 10.1101/gad.223834.113
29115590	Overexpression of lamin B1 induces mitotic catastrophe in colon cancer LoVo cells and is associated with worse clinical outcomes.	Int J Oncol	2018 Jan	Izdebska M	doi: 10.3892/ijo.2017.4182

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
ACC	chr5	126777603	In_Frame_Del	NA	K33del	0.23
ACC	chr5	126818969	Silent	novel	A329A	0.48
BLCA	chr5	126821059	Missense_Mutation	novel	S437L	0.17
BLCA	chr5	126777824	Missense_Mutation	NA	E106K	1
BLCA	chr5	126819131	Silent	novel	G383G	0.21
BLCA	chr5	126811776	Missense_Mutation	rs772870259	E273Q	0.49
BLCA	chr5	126822784	Nonsense_Mutation	novel	Q464*	0.4
BRCA	chr5	126810323	Missense_Mutation	NA	E262D	0.46
CESC	chr5	126810280	Missense_Mutation	novel	E248V	0.33
CESC	chr5	126811846	Missense_Mutation	novel	S296N	0.58
CESC	chr5	126777481	5'UTR	novel		0.43
CESC	chr5	126777777	Missense_Mutation	NA	R90Q	0.37
COAD	chr5	126819018	Missense_Mutation	NA	M346L	0.33
COAD	chr5	126826097	Missense_Mutation	novel	S534Y	0.07
COAD	chr5	126819008	Frame_Shift_Del	NA	*E345Dfs14**	0.33
COAD	chr5	126836530	3'UTR	novel		0.5
COAD	chr5	126818994	Missense_Mutation	NA	M338V	0.32
COAD	chr5	126804847	Missense_Mutation	NA	S144L	0.22
COAD	chr5	126836311	3'UTR	novel		0.08
COAD	chr5	126805604	Missense_Mutation	novel	L184V	0.08
COAD	chr5	126819047	Silent	NA	Q355Q	0.1
COAD	chr5	126804885	Missense_Mutation	NA	K157Q	0.4
COAD	chr5	126811816	Missense_Mutation	novel	V286A	0.32
COAD	chr5	126819148	Splice_Region	rs751487377		0.3
COAD	chr5	126819023	Silent	rs202037109	A347A	0.36
COAD	chr5	126805594	Frame_Shift_Ins	NA	*Q183Tfs5**	0.35
DLBC	chr5	126777838	Silent	novel	C110C	0.42
ESCA	chr5	126777724	Silent	novel	G72G	0.63
GBM	chr5	126826052	Missense_Mutation	novel	N519T	0.08
GBM	chr5	126819073	Missense_Mutation	novel	L364P	0.08
GBM	chr5	126821085	Nonsense_Mutation	novel	E446*	0.55
GBM	chr5	126810307	Missense_Mutation	novel	V257G	0.13
HNSC	chr5	126818946	Missense_Mutation	novel	Q322E	0.63
HNSC	chr5	126836242	Missense_Mutation	rs762308044	N580S	0.12
HNSC	chr5	126819189	Intron	novel		0.29
KIRC	chr5	126822834	Silent	NA	V480V	0.12
KIRP	chr5	126819033	Missense_Mutation	novel	D351Y	0.38
LIHC	chr5	126805576	Silent	novel	E174E	0.07
LIHC	chr5	126810246	Nonsense_Mutation	NA	E237*	0.37
LUAD	chr5	126821097	Missense_Mutation	NA	D450H	0.18
LUAD	chr5	126819120	Frame_Shift_Ins	novel	*L380Hfs32**	0.07
LUAD	chr5	126832721	Nonsense_Mutation	NA	K547*	0.1
LUAD	chr5	126822839	Missense_Mutation	NA	Y482F	0.51
LUAD	chr5	126826090	Nonsense_Mutation	novel	K532*	0.59
LUSC	chr5	126826020	Frame_Shift_Del	novel	*P510Qfs18**	0.27
OV	chr5	126832780	In_Frame_Ins	novel	E566_E567insG	0.47
OV	chr5	126832782	Frame_Shift_Ins	novel	*E568Tfs24**	0.43
OV	chr5	126804797	Missense_Mutation	novel	D127E	0.12
OV	chr5	126821092	Missense_Mutation	novel	D448V	0.08
OV	chr5	126832787	Missense_Mutation	novel	L569I	0.06
READ	chr5	126810212	Silent	rs375453322	T225T	0.21
READ	chr5	126826089	Missense_Mutation	NA	L531F	0.49
READ	chr5	126819132	Missense_Mutation	novel	E384K	0.12
READ	chr5	126804881	Frame_Shift_Ins	NA	*S158Kfs30**	0.39
READ	chr5	126818992	Missense_Mutation	NA	R337H	0.43
READ	chr5	126818992	Missense_Mutation	NA	R337H	0.41
SARC	chr5	126819115	Missense_Mutation	novel	R378K	0.63
SKCM	chr5	126836271	3'UTR	novel		0.45
SKCM	chr5	126810198	Frame_Shift_Ins	novel	*K222Efs3**	0.38
SKCM	chr5	126826035	Silent	NA	L513L	0.1
SKCM	chr5	126836333	3'UTR	novel		0.39
SKCM	chr5	126836362	3'UTR	novel		0.26
STAD	chr5	126810212	Silent	rs375453322	T225T	0.27
STAD	chr5	126820977	Missense_Mutation	NA	R410C	0.22
STAD	chr5	126821098	Missense_Mutation	NA	D450G	0.08
STAD	chr5	126832744	Silent	NA	E554E	0.15
STAD	chr5	126820970	Silent	rs201104948	R407R	0.25
STAD	chr5	126804882	Frame_Shift_Del	novel	*S158Vfs2**	0.33
TGCT	chr5	126836249	Missense_Mutation	novel	S582R	0.22
UCEC	chr5	126805605	Missense_Mutation	novel	L184S	0.33
UCEC	chr5	126836235	Missense_Mutation	NA	A578T	0.34
UCEC	chr5	126777671	Missense_Mutation	novel	T55A	0.38
UCEC	chr5	126810266	Silent	rs147777431	A243A	0.43
UCEC	chr5	126836520	3'UTR	novel		0.15
UCEC	chr5	126804807	Missense_Mutation	rs373303194	A131T	0.4
UCEC	chr5	126810212	Silent	rs375453322	T225T	0.48
UCEC	chr5	126821082	Missense_Mutation	rs367857896	E445K	0.37
UCEC	chr5	126819220	Intron	novel		0.34
UCEC	chr5	126810212	Silent	novel	T225T	0.43
UCEC	chr5	126836242	Missense_Mutation	novel	N580T	0.44
UCEC	chr5	126810226	Missense_Mutation	novel	V230A	0.24
UCEC	chr5	126819123	Nonsense_Mutation	novel	L381*	0.08
UCEC	chr5	126826054	Missense_Mutation	NA	S520P	0.46
UCEC	chr5	126819123	Nonsense_Mutation	novel	L381*	0.06
UCEC	chr5	126805670	Nonsense_Mutation	novel	E206*	0.19
UCEC	chr5	126836254	Missense_Mutation	novel	A584V	0.18
UCEC	chr5	126819132	Missense_Mutation	novel	E384K	0.35
UCEC	chr5	126836245	Missense_Mutation	novel	R581I	0.38
UCEC	chr5	126811855	Missense_Mutation	rs746656679	R299I	0.38
UCEC	chr5	126826069	Missense_Mutation	rs747836126	E525K	0.08
UCEC	chr5	126836411	3'UTR	novel		0.43
UCEC	chr5	126822797	Missense_Mutation	novel	G468D	0.42
UCEC	chr5	126810249	Missense_Mutation	novel	Y238H	0.28
UCEC	chr5	126819111	Missense_Mutation	novel	Y377H	0.45
UCEC	chr5	126810188	Silent	rs762491977	N217N	0.36
UCEC	chr5	126804823	Missense_Mutation	novel	R136Q	0.46
UCEC	chr5	126810189	Missense_Mutation	novel	E218K	0.38
UCEC	chr5	126810265	Missense_Mutation	novel	A243V	0.53
UCEC	chr5	126819174	Intron	novel		0.34
UCEC	chr5	126836312	3'UTR	novel		0.22
UCEC	chr5	126810215	Silent	novel	R226R	0.34
UCEC	chr5	126819204	Intron	novel		0.31
UCEC	chr5	126836296	3'UTR	novel		0.2
UCEC	chr5	126832744	Silent	NA	E554E	0.4
UCEC	chr5	126832747	Silent	novel	E555E	0.47
UCS	chr5	126818951	Silent	novel	E323E	0.41
UCS	chr5	126836345	3'UTR	novel		0.35

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
KIRP	DEL	0.0382	0.11554
LAML	DEL	0.0838	1.2971e-07
LUAD	DEL	0.2926	7.4776e-05
LUSC	DEL	0.6547	0.002071
MESO	DEL	0.1724	0.20184
PRAD	AMP	0.0244	0.16448
STAD	DEL	0.2721	2.8835e-08
THCA	DEL	0	0.23456

Survival Analysis

Cancer	P-value	Q-value
THYM	0.0057	Kaplan-Meier Survival Analysis
KIRC	0.00012	Kaplan-Meier Survival Analysis
STAD	0.0076	Kaplan-Meier Survival Analysis
SARC	0.0024	Kaplan-Meier Survival Analysis
MESO	0.03	Kaplan-Meier Survival Analysis
ACC	0.00019	Kaplan-Meier Survival Analysis
LUSC	0.019	Kaplan-Meier Survival Analysis
KIRP	0.0001	Kaplan-Meier Survival Analysis
PAAD	0.002	Kaplan-Meier Survival Analysis
PCPG	0.029	Kaplan-Meier Survival Analysis
CESC	0.031	Kaplan-Meier Survival Analysis
READ	0.05	Kaplan-Meier Survival Analysis
LAML	0.01	Kaplan-Meier Survival Analysis
LIHC	0.00011	Kaplan-Meier Survival Analysis
LGG	0.00011	Kaplan-Meier Survival Analysis
LUAD	0.00076	Kaplan-Meier Survival Analysis
UVM	0.035	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: ENSG00000113368 (Gene tree)
Gene ID: 4001
Gene Symbol: LMNB1
Alias: N
Full Name: lamin B1
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 60,398 bases
Position: chr5:126,776,623-126,837,020
Accession: 6637
RBP type: non-canonical RBP
Summary: This gene encodes one of the two B-type lamin proteins and is a component of the nuclear lamina. A duplication of this gene is associated with autosomal dominant adult-onset leukodystrophy (ADLD). Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2015]

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
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
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
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & MCF7	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 & U2OS	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
11168378	Identification of tyrosine-phosphorylated proteins associated with the nuclear envelope.	Eur J Biochem	2001 Jan	Otto H	-

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000395354	LMNB1-202	1572	-	ENSP00000378761	387 (aa)	-	E9PBF6
ENST00000494185	LMNB1-207	579	-	-	- (aa)	-	-
ENST00000504788	LMNB1-208	1801	-	-	- (aa)	-	-
ENST00000460265	LMNB1-203	3475	-	ENSP00000486528	329 (aa)	-	A0A0D9SFE5
ENST00000261366	LMNB1-201	2878	-	ENSP00000261366	586 (aa)	-	P20700
ENST00000492190	LMNB1-206	738	-	ENSP00000486992	166 (aa)	-	A0A0D9SFY5
ENST00000463908	LMNB1-204	557	-	-	- (aa)	-	-
ENST00000472034	LMNB1-205	730	-	-	- (aa)	-	-

Gene Model

Click here to download ENSG00000113368's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa04210	Apoptosis	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000113368	C-Reactive Protein	9.0410000E-005	-
ENSG00000113368	Platelet Function Tests	2.2325000E-005	-
ENSG00000113368	Platelet Function Tests	5.6992866E-006	-
ENSG00000113368	Platelet Function Tests	7.0324041E-006	-
ENSG00000113368	Transforming Growth Factor beta	6.7670000E-005	-
ENSG00000113368	Parkinson Disease	5E-6	22658654

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000113368	rs36105360	5	126825998	T	Blood protein levels	29875488	[0.64-0.96] unit increase	0.8	EFO_0007937
ENSG00000113368	rs36105360	5	126825998	C	Blood protein levels	30072576	[0.38-0.74] unit decrease	0.56	EFO_0007937

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000113368'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
ENSG00000113368	LMNB1	100	95.918	ENSMUSG00000024590	Lmnb1	100	95.918	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0005198	structural molecule activity	-	IEA	Function
GO:0005515	protein binding	21346760.21988832.25158218.26496610.26524528.29568061.29997244.30021884.	IPI	Function
GO:0005634	nucleus	10791971.	IDA	Component
GO:0005635	nuclear envelope	21610090.	IDA	Component
GO:0005635	nuclear envelope	-	TAS	Component
GO:0005637	nuclear inner membrane	-	IEA	Component
GO:0005638	lamin filament	-	IEA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0016020	membrane	19946888.	HDA	Component
GO:0016363	nuclear matrix	-	IEA	Component
GO:0031965	nuclear membrane	16791210.	HDA	Component
GO:0031965	nuclear membrane	-	IDA	Component
GO:0035722	interleukin-12-mediated signaling pathway	-	TAS	Process
GO:0043274	phospholipase binding	-	IEA	Function
GO:1990837	sequence-specific double-stranded DNA binding	-	IEA	Function

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.