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 ENO1

Basic gene info.	Gene symbol	ENO1
	Gene name	enolase 1, (alpha)
	Synonyms	ENO1L1\|MPB1\|NNE\|PPH
	Cytomap	UCSC genome browser: 1p36.2
	Genomic location	chr1 :8921058-8939151
	Type of gene	protein-coding
	RefGenes	NM_001201483.1, NM_001428.3,
	Ensembl id	ENSG00000074800
	Description	2-phospho-D-glycerate hydro-lyaseMYC promoter-binding protein 1alpha enolase like 1alpha-enolaseenolase-alphanon-neural enolasephosphopyruvate hydrataseplasminogen-binding proteintau-crystallin
	Modification date	20141222
dbXrefs	MIM : 172430
	HGNC : HGNC
	Ensembl : ENSG00000074800
	HPRD : 01400
	Vega : OTTHUMG00000001773
Protein	UniProt: P06733 go to UniProt's Cross Reference DB Table
Expression	CleanEX: HS_ENO1
	BioGPS: 2023
	Gene Expression Atlas: ENSG00000074800
	The Human Protein Atlas: ENSG00000074800
Pathway	NCI Pathway Interaction Database: ENO1
	KEGG: ENO1
	REACTOME: ENO1
	ConsensusPathDB
	Pathway Commons: ENO1
Metabolism	MetaCyc: ENO1
	HUMANCyc: ENO1
Regulation	Ensembl's Regulation: ENSG00000074800
	miRBase: chr1 :8,921,058-8,939,151
	TargetScan: NM_001201483
	cisRED: ENSG00000074800
Context	iHOP: ENO1
	cancer metabolism search in PubMed: ENO1
	UCL Cancer Institute: ENO1
Assigned class in ccmGDB	A - This gene has a literature evidence and it belongs to cancer gene.
References showing role of ENO1 in cancer cell metabolism	1. Bobrovnikova-Marjon E, Hurov JB (2014) Targeting metabolic changes in cancer: novel therapeutic approaches. Annu Rev Med 65: 157-170. doi: 10.1146/annurev-med-092012-112344. go to article 2. Konieczna A, Szczepanska A, Sawiuk K, Wegrzyn G, Lyzen R (2015) Effects of partial silencing of genes coding for enzymes involved in glycolysis and tricarboxylic acid cycle on the enterance of human fibroblasts to the S phase. BMC Cell Biol 16: 16. doi: 10.1186/s12860-015-0062-8. pmid: 4446904. go to article 3. Fu QF, Liu Y, Fan Y, Hua SN, Qu HY, et al. (2015) Alpha-enolase promotes cell glycolysis, growth, migration, and invasion in non-small cell lung cancer through FAK-mediated PI3K/AKT pathway. J Hematol Oncol 8: 22. doi: 10.1186/s13045-015-0117-5. pmid: 4359783. go to article 4. Muller FL, Colla S, Aquilanti E, Manzo VE, Genovese G, et al. (2012) Passenger deletions generate therapeutic vulnerabilities in cancer. Nature 488: 337-342. doi: 10.1038/nature11331. pmid: 3712624. go to article 5. Migneco G, Whitaker-Menezes D, Chiavarina B, Castello-Cros R, Pavlides S, et al. (2010) Glycolytic cancer associated fibroblasts promote breast cancer tumor growth, without a measurable increase in angiogenesis: evidence for stromal-epithelial metabolic coupling. Cell Cycle 9: 2412-2422. go to article

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Phenotypic Information for ENO1(metabolism pathway, cancer, disease, phenome)

Cancer Description
Cancer	CGAP: ENO1
	Familial Cancer Database: ENO1

* 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
KEGG_GLYCOLYSIS_GLUCONEOGENESIS BIOCARTA_GLYCOLYSIS_PATHWAY REACTOME_METABOLISM_OF_CARBOHYDRATES REACTOME_GLUCOSE_METABOLISM

Others
OMIM	172430; gene. 172430; gene.
Orphanet
Disease	KEGG Disease: ENO1
	MedGen: ENO1 (Human Medical Genetics with Condition)
	ClinVar: ENO1
Phenotype	MGI: ENO1 (International Mouse Phenotyping Consortium)
Phenotype	PhenomicDB: ENO1

Mutations for ENO1

* 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

There's no inter-chromosomal structural variation.

- For Intra-chromosomal Variations

* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'.

Sample	Symbol_a	Chr_a	Start_a	End_a	Symbol_b	Chr_b	Start_b	End_b
ovary	ENO1	chr1	8937630	8937650		chr1	8891596	8891616
pancreas	ENO1	chr1	8933320	8933320	CAPZB	chr1	19703969	19703969

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 ENO1 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
AW362574	ENO1	1	54	1	8926432	8926485	COL4A2	49	159	13	111121594	111125307
BM015435	ENO1	1	302	1	8926441	8928094	CCDC90A	294	636	6	13787862	13788202
DA702843	IFI16	1	78	1	158979716	158979793	ENO1	79	508	1	8928047	8938749
BU192820	IQCG	42	479	3	197677812	197682722	ENO1	474	800	1	8925376	8926493
AY703046	AKNA	1	2234	9	117098442	117122378	ENO1	2235	2315	1	8938650	8938730
BG611652	ENO1	2	398	1	8928076	8938745	MAPRE1	398	750	20	31424542	31434538
BQ940416	ESYT2	1	577	7	158524160	158524736	ENO1	577	720	1	8938643	8938785
AK090592	CCDC58	1	552	3	122078635	122102074	ENO1	551	2328	1	8921063	8938746
CR993092	EXOSC6	1	226	16	70285575	70285799	ENO1	222	560	1	8927188	8932037
BQ292604	ENO1	22	452	1	8926394	8930570	RPA1	451	562	17	1783837	1783948
AA157183	LGMN	1	85	14	93214868	93214953	ENO1	86	422	1	8928060	8938673
AW074340	ENO1	3	156	1	8921067	8921220	APP	152	362	21	27253998	27264161
CA419890	ENO1	20	127	1	8923347	8924001	ENO1	122	550	1	8923961	8926377
BE268890	ICAM2	43	175	17	62084059	62097977	ENO1	175	455	1	8931949	8938728
DA665291	LOC100507412	1	106	?	112074	112179	ENO1	106	513	1	8928063	8938743
BG389117	ARHGDIB	1	461	12	15097711	15114517	ENO1	462	746	1	8931542	8938731
BG036247	ENO1	1	271	1	8921208	8921478	ENO1	266	431	1	8921064	8921229
U88968	ENO1	1	1169	1	8921062	8926511	ENO1	1169	1346	1	8934884	8938723
BQ360948	ENO1	9	85	1	8921255	8921333	ENO1	80	150	1	8921166	8921235
BQ646179	ENO1	39	575	1	8921061	8923343	CCT7	575	790	2	73461450	73466921
BF926899	SPTBN1	1	144	2	54894747	54895594	ENO1	131	323	1	8931100	8931292
BE267696	ICAM2	43	178	17	62084057	62097977	ENO1	178	570	1	8928063	8938728
AW882184	ENO1	13	184	1	8921371	8923000	ENO1	174	236	1	8923302	8923364
CN406714	ENO1	16	171	1	8934881	8938698	ENO1	168	611	1	8926450	8932019
BI088704	ENO1	18	73	1	8921238	8921293	ENO1	72	251	1	8921064	8921242
BI023233	SAAL1	4	228	11	18103075	18103299	ENO1	221	303	1	8921085	8921167

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

Mutation type/ Tissue ID

brca

cns

cerv

endome

haematopo

kidn

Lintest

liver

lung

ovary

pancre

prost

skin

stoma

thyro

urina

Total # sample

GAIN (# sample)

LOSS (# sample)

cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract)

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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=3

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Somatic Mutation Counts per Tissue in COSMIC data

Stat. for Non-Synonymous SNVs (# total SNVs=18)	Stat. for Synonymous SNVs (# total SNVs=14)

Stat. for Deletions (# total SNVs=1)	Stat. for Insertions (# total SNVs=0)
	There's no inserted snv.

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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
chr1:8922989-8922989	p.P398S	2
chr1:8928072-8928072	p.I95I	2
chr1:8924018-8924018	p.N333N	2
chr1:8922979-8922979	p.S401F	1
chr1:8927294-8927294	p.N109S	1
chr1:8925441-8925441	p.K256N	1
chr1:8932046-8932046	p.?	1
chr1:8926394-8926394	p.A204V	1
chr1:8922984-8922984	p.C399C	1
chr1:8927296-8927296	p.A108A	1

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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	2	1		7			1	1	2			5		2			2	5		6
# mutation	2	1		6			1	1	2			5		2			1	5		7
nonsynonymous SNV	1	1		3				1	2			4					1	3		5
synonymous SNV	1			3			1					1		2				2		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
chr1:8928072	p.I2I,ENO1	2
chr1:8922989	p.P305S,ENO1	2
chr1:8923329	p.S280L,ENO1	1
chr1:8934961	p.A45T,ENO1	1
chr1:8926394	p.S243F,ENO1	1
chr1:8927294	p.I41I,ENO1	1
chr1:8923352	p.N240N,ENO1	1
chr1:8926457	p.P36P,ENO1	1
chr1:8927297	p.N240S,ENO1	1
chr1:8924010	p.A28A,ENO1	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 ENO1 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 ENO1

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


ATAD3A,BRI3,MSANTD3,CA9,CDC20,CTNNBIP1,ENO1, FSCN1,GAPDH,GPI,KIAA2013,MICALL1,PFKP,PGAM1, PKM,PLOD1,PSMB2,S100A10,TMEM201,TPI1,TUBA1C	APRT,DDOST,EIF3B,ENO1,F12,FBXW9,JMJD4, MCM5,MRTO4,NHP2,NME1,NPM3,PAFAH1B3,PES1, PRELID1,PRKCSH,RUVBL1,RUVBL2,SLC27A5,TRAF7,TRIP6

ACOT7,APITD1,CDC20,CDC45,CENPM,EIF5A,EIF5AL1, ENO1,FEN1,GAPDH,H2AFZ,MRTO4,NUDC,PGAM1, PKM,POLA2,RCC1,SNRPD1,TK1,TPI1,TUBA1B	CALR,CRELD2,DNAJB11,ENO1,GAPDH,GINS4,GMPPB, HSPA5,HYOU1,LRRC59,NOS2,OR52I1,PDIA3,PDIA3P1, PDIA4,PKM,PSMB2,PSMC4,PSMD2,RPN1,RPN2

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 ENO1

Cross-referenced pharmacological DB IDs from Uniprot

DB Category	DB Name	DB's ID and Url link
Organism-specific databases	PharmGKB	PA27786; -.
Organism-specific databases	PharmGKB	PA27786; -.
Organism-specific databases	CTD	2023; -.
Organism-specific databases	CTD	2023; -.

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
DB04066	enolase 1, (alpha)	experimental	Para-Coumaric Acid

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Cross referenced IDs for ENO1

* 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