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 GUCY2F
Basic gene info.Gene symbolGUCY2F
Gene nameguanylate cyclase 2F, retinal
SynonymsCYGF|GC-F|GUC2DL|GUC2F|RETGC-2|ROS-GC2
CytomapUCSC genome browser: Xq22
Genomic locationchrX :108616134-108725285
Type of geneprotein-coding
RefGenesNM_001522.2,
Ensembl idENSG00000101890
Descriptionguanylate cyclase 2D-like, membrane (retina-specific)guanylate cyclase Fretinal guanylyl cyclase 2rod outer segment membrane guanylate cyclase 2
Modification date20141207
dbXrefs MIM : 300041
HGNC : HGNC
Ensembl : ENSG00000101890
HPRD : 02078
Vega : OTTHUMG00000022184
ProteinUniProt: P51841
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GUCY2F
BioGPS: 2986
Gene Expression Atlas: ENSG00000101890
The Human Protein Atlas: ENSG00000101890
PathwayNCI Pathway Interaction Database: GUCY2F
KEGG: GUCY2F
REACTOME: GUCY2F
ConsensusPathDB
Pathway Commons: GUCY2F
MetabolismMetaCyc: GUCY2F
HUMANCyc: GUCY2F
RegulationEnsembl's Regulation: ENSG00000101890
miRBase: chrX :108,616,134-108,725,285
TargetScan: NM_001522
cisRED: ENSG00000101890
ContextiHOP: GUCY2F
cancer metabolism search in PubMed: GUCY2F
UCL Cancer Institute: GUCY2F
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for GUCY2F(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: GUCY2F
Familial Cancer Database: GUCY2F
* 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/

check002.gifMetabolic Pathway Description
KEGG_PURINE_METABOLISM

check002.gifOthers
OMIM 300041; gene.
Orphanet
DiseaseKEGG Disease: GUCY2F
MedGen: GUCY2F (Human Medical Genetics with Condition)
ClinVar: GUCY2F
PhenotypeMGI: GUCY2F (International Mouse Phenotyping Consortium)
PhenomicDB: GUCY2F

Mutations for GUCY2F
* 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows GUCY2F related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

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check002.gifCopy 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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check002.gifSNV 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=8

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=152)
Stat. for Synonymous SNVs
(# total SNVs=42)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.There's no inserted snv.

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check002.gifTop 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 positionMutation(aa)Unique sampleID count
chr23:108719136-108719136p.R10R4
chr23:108619137-108619137p.N1106K3
chr23:108673541-108673541p.E596K3
chr23:108684589-108684589p.A564A3
chr23:108691389-108691389p.R493H3
chr23:108691390-108691390p.R493C3
chr23:108695265-108695265p.A487T2
chr23:108635150-108635150p.D924V2
chr23:108719117-108719117p.A17T2
chr23:108619381-108619381p.E1056K2

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check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=4

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample261312 6 6  178311136 18
# mutation261282 5 6  199311157 26
nonsynonymous SNV14 191 4 5  164311106 22
synonymous SNV12191 1 1  35   51 4
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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check002.gifTop 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 PositionMutation(aa)Unique sampleID count
chrX:108719136p.R10R4
chrX:108673541p.E596K3
chrX:108708565p.Y831H2
chrX:108708574p.F595F2
chrX:108691390p.R493C2
chrX:108619383p.P280S2
chrX:108708626p.V277I2
chrX:108636218p.S404L2
chrX:108619392p.E1055G2
chrX:108673542p.Q259H2

check002.gifOther 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

check002.gifCopy Number for GUCY2F 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 GUCY2F

check002.gifGene 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.

check002.gifDifferential 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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check002.gifCNV 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
check002.gifCo-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

ADAMTS3,ASUN,C12orf71,NUTM1,CCL1,CREB5,E2F6,
FGFR1OP2,GOLGA6L1,GOLGA6L6,GOLGA8CP,GOLGA8DP,GOLT1B,GUCY2F,
LIN28B,LOC348840,OR3A2,RECQL,SNCAIP,SSPN,TBX18
ADAM3A,APOC1,CELA1,CHIT1,DEC1,GUCY2F,MAGEA9B,
MGAM,LINC00112,NKX2-6,PKD2L1,PPIAL4E,PRAMEF22,SCARNA11,
SLC17A4,SNORA18,SNORA27,SNORA56,SNORA67,STRA8,TEX101

ACTR3BP2,GUCY2F,HLA-L,HSFX1,LCE2B,LOC653544,LOC653545,
LOC728410,OR6N2,OR7E37P,OR8B3,PPIAL4B,PRAMEF17,PRAMEF3,
RBMY1B,REXO1L1P,SNORA38,SNORD104,SNORD16,SNORD35B,SNORD58C,
SNORD62A,SNORD76,SNORD88B,SNORD88C,TP
CLCNKB,CLDN17,CPN2,CRH,CST4,CYP2W1,GABRA6,
GUCY2F,INSL5,ITGAD,KCNK15,KIAA1210,KLK3,KRTAP3-3,
NEUROD1,RASSF10,RIMS4,TAS2R1,TNNC1,TPH1,TTR
check002.gifCo-Expressed gene's Protein-protein interaction 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

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check002.gifInteracting 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 GUCY2F


There's no related Drug.
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Cross referenced IDs for GUCY2F
* 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



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