Cancer Cell Metabolism Database ~~ Bioinformatics and Systems Medicine Laboratory ~~

Cancer Cell Metabolism Gene Database

Cancer Cell Metabolism Gene DB

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	Gene Summary
	Phenotypic Information (metabolism pathway, cancer, disease, phenome)
	Mutations : SVs, CNVs, SNVs
	Gene expression: GE, Protein, DEGE, CNV vs GE
	Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG
	Pharmacological Information: Drug-Gene Network
	Cross referenced IDs

Gene Summary for FURIN

Basic gene info.	Gene symbol	FURIN
	Gene name	furin (paired basic amino acid cleaving enzyme)
	Synonyms	FUR\|PACE\|PCSK3\|SPC1
	Cytomap	UCSC genome browser: 15q26.1
	Genomic location	chr15 :91411884-91426687
	Type of gene	protein-coding
	RefGenes	NM_001289823.1, NM_001289824.1,NM_002569.3,
	Ensembl id	ENSG00000140564
	Description	FES upstream regiondibasic processing enzymefurinfurin, membrane associated receptor proteinpaired basic amino acid residue-cleaving enzymeproprotein convertase subtilisin/kexin type 3
	Modification date	20141207
dbXrefs	MIM : 136950
	HGNC : HGNC
	Ensembl : ENSG00000140564
	HPRD : 00653
	Vega : OTTHUMG00000149831
Protein	UniProt: P09958 go to UniProt's Cross Reference DB Table
Expression	CleanEX: HS_FURIN
	BioGPS: 5045
	Gene Expression Atlas: ENSG00000140564
	The Human Protein Atlas: ENSG00000140564
Pathway	NCI Pathway Interaction Database: FURIN
	KEGG: FURIN
	REACTOME: FURIN
	ConsensusPathDB
	Pathway Commons: FURIN
Metabolism	MetaCyc: FURIN
	HUMANCyc: FURIN
Regulation	Ensembl's Regulation: ENSG00000140564
	miRBase: chr15 :91,411,884-91,426,687
	TargetScan: NM_001289823
	cisRED: ENSG00000140564
Context	iHOP: FURIN
	cancer metabolism search in PubMed: FURIN
	UCL Cancer Institute: FURIN
Assigned class in ccmGDB	B - This gene belongs to cancer gene.

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Phenotypic Information for FURIN(metabolism pathway, cancer, disease, phenome)

Cancer Description
Cancer	CGAP: FURIN
	Familial Cancer Database: FURIN

* This gene is included in those cancer gene databases.

						.
Oncogene ¹	Tumor Suppressor gene ²	Cancer Gene Census ³	CancerGenes ⁴	Network of Cancer Gene ⁵	Significant driver gene in	Therapeutic Vulnerabilities in Cancer¹

cf) number; DB name
1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long,
2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/,
3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html,
4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long,
5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php,
1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/

Metabolic Pathway Description
REACTOME_METABOLISM_OF_PROTEINS

Others
OMIM	136950; gene.
Orphanet
Disease	KEGG Disease: FURIN
	MedGen: FURIN (Human Medical Genetics with Condition)
	ClinVar: FURIN
Phenotype	MGI: FURIN (International Mouse Phenotyping Consortium)
Phenotype	PhenomicDB: FURIN

Mutations for FURIN

* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site.

Structural Variants in COSMIC : go to COSMIC mutation histogram

- Statistics for Tissue and Mutation type

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- For Inter-chromosomal Variations

* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'.

- For Intra-chromosomal Variations

There's no intra-chromosomal structural variation.

Sample

Symbol_a

Chr_a

Start_a

End_a

Symbol_b

Chr_b

Start_b

End_b

cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract)

Related fusion transcripts : go to Chitars2.0

* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows FURIN related fusion information.

ID	Head Gene						Tail Gene
Accession	Gene_a	qStart_a	qEnd_a	Chromosome_a	tStart_a	tEnd_a	Gene_a	qStart_a	qEnd_a	Chromosome_a	tStart_a	tEnd_a
BF986802	FURIN	1	110	15	91419768	91420215	FURIN	107	196	15	91419119	91419545
CK822852	FURIN	1	122	15	91424801	91424922	FLOT2	120	206	17	27207151	27207237
BE812237	FURIN	1	266	15	91425548	91425809	COTL1	267	407	16	84600290	84600430
BF990968	SLCO2B1	11	166	11	74869269	74869423	FURIN	160	255	15	91422933	91423120
CK822851	FLOT2	1	53	17	27207151	27207203	FURIN	51	183	15	91424801	91424933
CB163740	C3	1	136	19	6677849	6677984	FURIN	137	516	15	91425918	91426297
AI418492	FURIN	12	174	15	91426526	91426688	PCNXL3	170	580	11	65402442	65402949
BQ102242	FLOT2	1	53	17	27207151	27207203	FURIN	51	183	15	91424801	91424933
BQ102508	FURIN	1	122	15	91424801	91424922	FLOT2	120	206	17	27207151	27207237
BG004887	FURIN	1	212	15	91419768	91420429	FURIN	209	298	15	91419119	91419545
R59927	COX6C	13	186	8	100890377	100899775	FURIN	173	412	15	91425918	91426152
BG004888	FURIN	11	192	15	91419768	91420397	FURIN	189	282	15	91419119	91419549
BF823726	FURIN	1	147	15	91419754	91420238	ANKRD11	131	317	16	89348380	89348578
BG924324	FURIN	97	280	15	91426504	91426687	TNFSF12-TNFSF13	276	664	17	7462460	7463472
T10274	COX6C	3	176	8	100890377	100899775	FURIN	163	309	15	91426006	91426152
BF959423	FURIN	1	201	15	91422716	91423136	FURIN	196	408	15	91423454	91424197

Other DBs for Structural Variants

Structural Variants in Ensembl: go to Ensembl Structural variation

Structural Variants in dbVar: go to dbVar

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Copy Number Variations in COSMIC : go to COSMIC mutation CNV/Expr

There's no copy number variation information in COSMIC data for this gene.

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SNV Counts per Each Loci in COSMIC data : go to COSMIC point mutation

: Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=5

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Somatic Mutation Counts per Tissue in COSMIC data

Stat. for Non-Synonymous SNVs (# total SNVs=52)	Stat. for Synonymous SNVs (# total SNVs=27)

Stat. for Deletions (# total SNVs=7)	Stat. for Insertions (# total SNVs=2)

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Top 10 SNVs Having the Most Samples in COSMIC data

* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID.

GRCh37 position	Mutation(aa)	Unique sampleID count
chr15:91424574-91424574	p.G617G	4
chr15:91424957-91424957	p.R745L	3
chr15:91424898-91424898	p.I725I	3
chr15:91425058-91425058	p.E779K	2
chr15:91424619-91424619	p.D632D	2
chr15:91423413-91423413	p.A489V	2
chr15:91425068-91425068	p.G782fs*>13	2
chr15:91424910-91424910	p.F729F	2
chr15:91425099-91425099	p.S792S	2
chr15:91419739-91419739	p.D108D	2

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SNV Counts per Each Loci in TCGA data

: non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=2

Point Mutation/ Tissue ID	1	2	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20
# sample	3	4		14	3		1		1			9	3	2	1		8	6		7
# mutation	3	4		15	3		1		1			10	3	2	1		10	7		7
nonsynonymous SNV	2	1		12	2		1					8	1	1	1		6	4		5
synonymous SNV	1	3		3	1				1			2	2	1			4	3		2

cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma])

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Top 10 SNVs Having the Most Samples in TCGA data

* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID.

Genomic Position	Mutation(aa)	Unique sampleID count
chr15:91424898	p.I725I,FURIN	2
chr15:91419549	p.E230D,FURIN	1
chr15:91423440	p.R490L,FURIN	1
chr15:91420789	p.G653G,FURIN	1
chr15:91424619	p.S792S,FURIN	1
chr15:91422758	p.G62W,FURIN	1
chr15:91424939	p.G260V,FURIN	1
chr15:91419555	p.Y495C,FURIN	1
chr15:91423936	p.P654S,FURIN	1
chr15:91420825	p.T73T,FURIN	1

Other DBs for Point Mutations

Point Mutation Table of Ensembl: go to Ensembl variation table

Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

Copy Number for FURIN in TCGA

* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene.

cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma]

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Gene Expression for FURIN

Gene Expression in Cancer Cell-lines (CCLE)

* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data.

Differential Gene Expression in Primary Tumors (TCGA)

* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis.
(t test, adjusted p<0.05 (using Benjamini-Hochberg FDR))

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CNV vs Gene Expression Plot

* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types

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Gene-Gene Network Information

Co-Expressed gene's network Plot

* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown.
Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene

: Open all plots for all cancer types


AEN,ST20-AS1,VWA7,DAND5,FURIN,GPR26,HDDC3, IRS2,MAN2A2,OR4C11,PKM,POLG,RASA4P,RCCD1, RSPO1,SLCO3A1,SMOC1,UNC45A,VWA1,WT1-AS,WT1	AP1M1,ASCC2,COL4A2,EFNB1,FURIN,GPX4,IMPDH1, INF2,CTIF,KIFC3,LDLRAD2,LOC80054,LZTR1,NADK, PALM,PHLDA3,POLR2E,POR,PRR5,ST6GALNAC6,TESK1

AKAP13,ARHGAP22,BCAR1,CD276,CKAP4,FURIN,HPN, IL4R,KDM6B,KIF19,KLK12,LRP10,MAPRE2,MESDC1, PHLDB3,PPARD,SCN1B,SPINT1,TJP1,TRAM2,ZNF407	ATG2A,BCAR1,C6orf132,CDC42BPG,CTDP1,EDC4,FURIN, INF2,ITGA3,ITGB4,MAP3K11,MYH14,OS9,PCNXL3, PLXNB2,PPP1R13L,PRKD2,PXN,CAPN15,TRIM11,WWP2

Co-Expressed gene's Protein-protein interaction Network Plot

: Open all plots for all cancer types

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Interacting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

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Pharmacological Information for FURIN

Cross-referenced pharmacological DB IDs from Uniprot

DB Category	DB Name	DB's ID and Url link
Chemistry	BindingDB	P09958; -.
Chemistry	ChEMBL	CHEMBL2611; -.
Chemistry	GuidetoPHARMACOLOGY	2366; -.
Organism-specific databases	PharmGKB	PA32894; -.
Organism-specific databases	CTD	5045; -.

Drug-Gene Interaction Network

* Gene Centered Interaction Network.

* Drug Centered Interaction Network.

DrugBank ID	Target Name	Drug Groups	Generic Name	Drug Centered Network	Drug Structure
DB03600	furin (paired basic amino acid cleaving enzyme)	experimental	Decanoic Acid

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Cross referenced IDs for FURIN

* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section

: Open all cross reference information