EuRBPDB

Note: to get the extension of tumor abbreviations.

Cancer Related Information
Basic Information

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
19010819	Overexpression and hypomethylation of flap endonuclease 1 gene in breast and other cancers.	Mol Cancer Res	2008 Nov	Singh P	doi: 10.1158/1541-7786.MCR-08-0269.
29937070	Base Excision Repair Gene Polymorphisms and Wilms Tumor Susceptibility.	EBioMedicine	2018 Jul	Zhu J	doi: 10.1016/j.ebiom.2018.06.018
27270424	The FEN1 L209P mutation interferes with long-patch base excision repair and induces cellular transformation.	Oncogene	2017 Jan 12	Sun H	doi: 10.1038/onc.2016.188
29037854	Overexpression of Flap Endonuclease 1 Correlates with Enhanced Proliferation and Poor Prognosis of Non-Small-Cell Lung Cancer.	Am J Pathol	2018 Jan	Zhang K	doi: 10.1016/j.ajpath.2017.09.011
25154853	FEN1 -69G>A and 4150G>T polymorphisms and cancer risk in Chinese population.	Sci Rep	2014 Aug 26	Gao XR	doi: 10.1038/srep06183.
19218431	Specific synthetic lethal killing of RAD54B-deficient human colorectal cancer cells by FEN1 silencing.	Proc Natl Acad Sci U S A	2009 Mar 3	McManus KJ	doi: 10.1073/pnas.0813414106
25922071	Flap Endonuclease 1 Limits Telomere Fragility on the Leading Strand.	J Biol Chem	2015 Jun 12	Teasley DC	doi: 10.1074/jbc.M115.647388
24880630	Genomic and protein expression analysis reveals flap endonuclease 1 (FEN1) as a key biomarker in breast and ovarian cancer.	Mol Oncol	2014 Oct	Abdel-Fatah TM	doi: 10.1016/j.molonc.2014.04.009
19618370	Functional FEN1 polymorphisms are associated with DNA damage levels and lung cancer risk.	Hum Mutat	2009 Sep	Yang M	doi: 10.1002/humu.21060.
26668074	Variants and haplotypes in Flap endonuclease 1 and risk of gallbladder cancer and gallstones: a population-based study in China.	Sci Rep	2015 Dec 15	Jiao X	doi: 10.1038/srep18160.
14562054	Increased expression and no mutation of the Flap endonuclease (FEN1) gene in human lung cancer.	Oncogene	2003 Oct 16	Sato M	-
23382697	An evolutionarily conserved synthetic lethal interaction network identifies FEN1 as a broad-spectrum target for anticancer therapeutic development.	PLoS Genet	2013	van Pel DM	doi: 10.1371/journal.pgen.1003254
24440783	Association of functional FEN1 genetic variants and haplotypes and breast cancer risk.	Gene	2014 Mar 15	Lv Z	doi: 10.1016/j.gene.2014.01.025
28371273	FEN1 promotes tumor progression and confers cisplatin resistance in non-small-cell lung cancer.	Mol Oncol	2017 Jun	He L	doi: 10.1002/1878-0261.12058
27801669	FEN1 gene variants confer reduced risk of breast cancer in chinese women: A case-control study.	Oncotarget	2016 Nov 22	Lin S	doi: 10.18632/oncotarget.12948.

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr11	61795916	Missense_Mutation	novel	F185L	0.36
BLCA	chr11	61795693	Missense_Mutation	novel	L111P	0.15
BLCA	chr11	61796199	Missense_Mutation	rs764028854	H280Y	0.18
BRCA	chr11	61795468	Missense_Mutation	novel	S36C	0.5
BRCA	chr11	61796149	Missense_Mutation	NA	L263H	0.36
CESC	chr11	61795862	Silent	NA	V167V	0.42
CESC	chr11	61796498	Frame_Shift_Del	novel	*K380Nfs21**	0.29
CESC	chr11	61796138	Silent	novel	I259I	0.49
CESC	chr11	61796749	3'UTR	novel		0.67
CESC	chr11	61792753	5'UTR	novel		0.6
CESC	chr11	61795829	Silent	NA	P156P	0.48
COAD	chr11	61795421	Missense_Mutation	NA	E20D	0.33
COAD	chr11	61795718	Silent	rs745612425	A119A	0.27
COAD	chr11	61797224	3'UTR	novel		0.31
COAD	chr11	61795646	Silent	rs371846488	G95G	0.36
COAD	chr11	61795968	Missense_Mutation	NA	P203S	0.28
COAD	chr11	61797185	3'UTR	rs190960407		0.34
COAD	chr11	61796094	Missense_Mutation	novel	R245G	0.39
COAD	chr11	61796370	Missense_Mutation	novel	Q337K	0.13
COAD	chr11	61796377	Missense_Mutation	rs573495657	R339H	0.15
ESCA	chr11	61795929	Silent	novel	L190L	0.22
GBM	chr11	61795473	Missense_Mutation	novel	S38R	0.06
GBM	chr11	61795646	Silent	novel	G95G	0.09
HNSC	chr11	61795791	Missense_Mutation	novel	L144V	0.18
HNSC	chr11	61796425	Missense_Mutation	novel	R355L	0.17
KIRC	chr11	61796163	Frame_Shift_Ins	novel	*P269Tfs29**	0.38
KIRP	chr11	61796834	3'UTR	novel		0.42
LIHC	chr11	61796377	Missense_Mutation	rs573495657	R339H	0.37
LIHC	chr11	61796982	3'UTR	novel		0.42
LIHC	chr11	61795847	Silent	NA	S162S	0.34
LUAD	chr11	61796360	Missense_Mutation	NA	Q333H	0.31
LUSC	chr11	61795598	Missense_Mutation	novel	I79M	0.15
LUSC	chr11	61796123	Missense_Mutation	novel	K254N	0.13
OV	chr11	61796314	Missense_Mutation	NA	E318V	0.33
OV	chr11	61795443	Missense_Mutation	NA	G28C	0.14
READ	chr11	61796347	Missense_Mutation	novel	S329N	0.47
SARC	chr11	61796138	Silent	novel	I259I	0.23
SKCM	chr11	61796167	Missense_Mutation	rs138109450	P269L	0.17
SKCM	chr11	61795717	Missense_Mutation	NA	A119V	0.63
SKCM	chr11	61796440	Missense_Mutation	NA	P360L	0.25
SKCM	chr11	61796186	Silent	NA	L275L	0.36
SKCM	chr11	61796045	Silent	NA	I228I	0.33
SKCM	chr11	61795578	Missense_Mutation	rs145709748	R73C	0.35
STAD	chr11	61795936	Missense_Mutation	rs778764875	R192Q	0.19
STAD	chr11	61795959	Frame_Shift_Del	novel	*K201Sfs9**	0.26
STAD	chr11	61795836	Missense_Mutation	rs778852873	A159T	0.35
STAD	chr11	61796425	Missense_Mutation	rs761723999	R355H	0.35
STAD	chr11	61796320	Missense_Mutation	NA	R320Q	0.14
STAD	chr11	61796326	Missense_Mutation	rs756180049	R322H	0.48
STAD	chr11	61795669	Missense_Mutation	rs762018999	R103Q	0.43
STAD	chr11	61795466	Silent	NA	A35A	0.11
THYM	chr11	61796255	Missense_Mutation	novel	W298C	0.09
UCEC	chr11	61796498	Silent	novel	G379G	0.33
UCEC	chr11	61797168	3'UTR	novel		0.14
UCEC	chr11	61796129	Silent	rs548432286	I256I	0.32
UCEC	chr11	61792706	5'UTR	novel		0.5
UCEC	chr11	61796319	Nonsense_Mutation	rs751470906	R320*	0.43
UCEC	chr11	61796002	Missense_Mutation	NA	Q214P	0.3
UCEC	chr11	61796049	Silent	novel	L230L	0.53
UCEC	chr11	61796319	Nonsense_Mutation	rs751470906	R320*	0.55
UCEC	chr11	61796825	3'UTR	rs559278852		0.41
UCEC	chr11	61797224	3'UTR	novel		0.47
UCEC	chr11	61796600	3'UTR	novel		0.18
UCEC	chr11	61796436	Nonsense_Mutation	novel	E359*	0.46
UCEC	chr11	61796139	Missense_Mutation	rs371695318	V260M	0.22
UCEC	chr11	61795352	5'UTR	novel		0.14
UCEC	chr11	61796354	Silent	NA	S331S	0.16
UCEC	chr11	61796103	Missense_Mutation	novel	D248N	0.24
UCEC	chr11	61796210	Silent	novel	F283F	0.21
UCEC	chr11	61796404	Missense_Mutation	novel	G348D	0.19
UCEC	chr11	61795341	Splice_Region	novel		0.43
UCEC	chr11	61795582	Missense_Mutation	novel	M74T	0.4
UCEC	chr11	61796812	3'UTR	novel		0.34
UCEC	chr11	61797021	3'UTR	novel		0.28
UCEC	chr11	61796357	Silent	novel	R332R	0.26

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
ESCA	AMP	0.1739	0.018342
TGCT	DEL	0.7	0.21504

Survival Analysis

Cancer	P-value	Q-value
THYM	0.01	Kaplan-Meier Survival Analysis
STAD	0.0014	Kaplan-Meier Survival Analysis
MESO	0.00017	Kaplan-Meier Survival Analysis
ACC	0.0001	Kaplan-Meier Survival Analysis
KIRP	0.00011	Kaplan-Meier Survival Analysis
PAAD	0.01	Kaplan-Meier Survival Analysis
PCPG	0.023	Kaplan-Meier Survival Analysis
CESC	0.041	Kaplan-Meier Survival Analysis
LAML	0.0037	Kaplan-Meier Survival Analysis
KICH	0.025	Kaplan-Meier Survival Analysis
LIHC	0.00011	Kaplan-Meier Survival Analysis
DLBC	0.041	Kaplan-Meier Survival Analysis
LGG	0.0014	Kaplan-Meier Survival Analysis
THCA	0.044	Kaplan-Meier Survival Analysis
LUAD	0.0006	Kaplan-Meier Survival Analysis
UVM	0.0008	Kaplan-Meier Survival Analysis
OV	0.002	Kaplan-Meier Survival Analysis

Drugs

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000168496 (Gene tree)
Gene ID: 2237
Gene Symbol: FEN1
Alias: FEN-1|MF1|RAD2
Full Name: flap structure-specific endonuclease 1
Gene Type: protein_coding
Species: Homo_sapiens
Status: putative
Strand: Plus strand
Length: 4,608 bases
Position: chr11:61,792,637-61,797,244
Accession: 3650
RBP type: non-canonical RBP
Summary: The protein encoded by this gene removes 5' overhanging flaps in DNA repair and processes the 5' ends of Okazaki fragments in lagging strand DNA synthesis. Direct physical interaction between this protein and AP endonuclease 1 during long-patch base excision repair provides coordinated loading of the proteins onto the substrate, thus passing the substrate from one enzyme to another. The protein is a member of the XPG/RAD2 endonuclease family and is one of ten proteins essential for cell-free DNA replication. DNA secondary structure can inhibit flap processing at certain trinucleotide repeats in a length-dependent manner by concealing the 5' end of the flap that is necessary for both binding and cleavage by the protein encoded by this gene. Therefore, secondary structure can deter the protective function of this protein, leading to site-specific trinucleotide expansions. [provided by RefSeq, Jul 2008]

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
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
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

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000535307	FEN1-202	768	-	ENSP00000460402	154 (aa)	-	I3L3E9
ENST00000535723	FEN1-203	776	-	ENSP00000445692	165 (aa)	-	F5H1Y3
ENST00000305885	FEN1-201	2296	-	ENSP00000305480	380 (aa)	-	P39748

Gene Model

Click here to download ENSG00000168496's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa03030	DNA replication	KEGG
hsa03410	Base excision repair	KEGG
hsa03450	Non-homologous end-joining	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000168496	alpha-Linolenic Acid	8.5920000E-060	21829377
ENSG00000168496	Docosahexaenoic Acids	5.2470000E-006	21829377
ENSG00000168496	docosapentaenoic acid	1.3800000E-139	21829377
ENSG00000168496	Eicosapentaenoic Acid	5.9610000E-055	21829377
ENSG00000168496	Metabolism	9E-14	24816252
ENSG00000168496	Platelet Count	3E-10	22139419
ENSG00000168496	Eicosapentaenoic Acid	6E-55	21829377
ENSG00000168496	Eicosapentaenoic Acid	5E-58	21829377
ENSG00000168496	alpha-Linolenic Acid	9E-60	21829377
ENSG00000168496	docosapentaenoic acid	1E-139	21829377
ENSG00000168496	Trans Fatty Acids	5E-13	25646338
ENSG00000168496	Trans Fatty Acids	1E-12	25646338
ENSG00000168496	Insulin Resistance	3E-9	23378610
ENSG00000168496	Inflammatory Bowel Diseases	2E-15	23128233
ENSG00000168496	Fatty Acids	1E-9	25500335
ENSG00000168496	Linoleic Acid	1E-9	25500335
ENSG00000168496	Trans Fatty Acids	4E-13	25646338
ENSG00000168496	Crohn Disease	9E-7	28067908
ENSG00000168496	Fatty Acids	3E-19	25500335

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000168496	rs4246215	11	61796827	T	Platelet count	22139419	[1.69-3.22] 10^9/l increase	2.451	EFO_0004309
ENSG00000168496	rs4246215	11	61796827	?	Crohn's disease	28067908			EFO_0000384
ENSG00000168496	rs4246215	11	61796827	T	Plasma omega-3 polyunsaturated fatty acid levels (alphalinolenic acid)	21829377	[NR] % increase	0.02	EFO_0007759
ENSG00000168496	rs4246215	11	61796827	T	Plasma omega-3 polyunsaturated fatty acid level (eicosapentaenoic acid)	21829377	[NR] % decrease	0.08	EFO_0007760
ENSG00000168496	rs4246215	11	61796827	T	Plasma omega-3 polyunsaturated fatty acid levels (docosapentaenoic acid)	21829377	[NR] % decrease	0.07	EFO_0006809
ENSG00000168496	rs4246215	11	61796827	T	Inflammatory bowel disease	23128233	[1.046-1.112]	1.079	EFO_0003767
ENSG00000168496	rs4246215	11	61796827	?	Red blood cell fatty acid levels	25500335	[NR] unit increase	0.113	EFO_0005110\|EFO_0006807
ENSG00000168496	rs4246215	11	61796827	T	Trans fatty acid levels	25646338	[0.0023-0.0039] unit increase	0.0031	EFO_0006824\|EFO_0006821

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000168496'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
ENSG00000168496	FEN1	100	69.697	FBgn0025832	Fen1	100	62.857	Drosophila_melanogaster

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000287	magnesium ion binding	21873635.	IBA	Function
GO:0000724	double-strand break repair via homologous recombination	-	TAS	Process
GO:0000784	nuclear chromosome, telomeric region	19135898.	HDA	Component
GO:0000784	nuclear chromosome, telomeric region	24270157.	IDA	Component
GO:0003677	DNA binding	11986308.	IMP	Function
GO:0003684	damaged DNA binding	8007985.	TAS	Function
GO:0003690	double-stranded DNA binding	8131753.	TAS	Function
GO:0004519	endonuclease activity	8131753.	TAS	Function
GO:0004523	RNA-DNA hybrid ribonuclease activity	21873635.	IBA	Function
GO:0004523	RNA-DNA hybrid ribonuclease activity	7961795.	IDA	Function
GO:0004527	exonuclease activity	9778254.	TAS	Function
GO:0005515	protein binding	9305916.11430825.11598021.14657243.14688284.15576034.18499658.18692475.22551069.26496610.26751069.29997244.	IPI	Function
GO:0005634	nucleus	21873635.	IBA	Component
GO:0005634	nucleus	7961795.18995831.	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005730	nucleolus	-	IDA	Component
GO:0005739	mitochondrion	18995831.	IDA	Component
GO:0006260	DNA replication	9778254.	TAS	Process
GO:0006281	DNA repair	8007985.	TAS	Process
GO:0006284	base-excision repair	-	IEA	Process
GO:0006302	double-strand break repair	8131753.	TAS	Process
GO:0007613	memory	-	IEA	Process
GO:0008309	double-stranded DNA exodeoxyribonuclease activity	8131753.	TAS	Function
GO:0008409	5'-3' exonuclease activity	21873635.	IBA	Function
GO:0008409	5'-3' exonuclease activity	7961795.	IDA	Function
GO:0009650	UV protection	8007985.	TAS	Process
GO:0016020	membrane	19946888.	HDA	Component
GO:0017108	5'-flap endonuclease activity	21873635.	IBA	Function
GO:0017108	5'-flap endonuclease activity	18995831.	IDA	Function
GO:0017108	5'-flap endonuclease activity	8621570.11986308.	IMP	Function
GO:0017108	5'-flap endonuclease activity	-	TAS	Function
GO:0030145	manganese ion binding	21873635.	IBA	Function
GO:0032201	telomere maintenance via semi-conservative replication	-	TAS	Process
GO:0032991	protein-containing complex	25378300.	IDA	Component
GO:0043137	DNA replication, removal of RNA primer	18995831.	IDA	Process
GO:0045876	positive regulation of sister chromatid cohesion	18499658.	IMP	Process
GO:0048256	flap endonuclease activity	21873635.	IBA	Function
GO:0048256	flap endonuclease activity	18499658.	IDA	Function
GO:0090305	nucleic acid phosphodiester bond hydrolysis	18499658.	IDA	Process
GO:0090502	RNA phosphodiester bond hydrolysis, endonucleolytic	-	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

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.