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 CNDP2
Basic gene info.Gene symbolCNDP2
Gene nameCNDP dipeptidase 2 (metallopeptidase M20 family)
SynonymsCN2|CPGL|HEL-S-13|HsT2298|PEPA
CytomapUCSC genome browser: 18q22.3
Genomic locationchr18 :72166822-72190689
Type of geneprotein-coding
RefGenesNM_001168499.1,
NM_018235.2,
Ensembl idENSG00000133313
Descriptioncytosolic non-specific dipeptidasecytosolic nonspecific dipeptidaseepididymis secretory protein Li 13glutamate carboxypeptidase-like protein 1peptidase A
Modification date20141222
dbXrefs MIM : 169800
HGNC : HGNC
Ensembl : ENSG00000133313
HPRD : 09893
Vega : OTTHUMG00000132853
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CNDP2
BioGPS: 55748
Gene Expression Atlas: ENSG00000133313
The Human Protein Atlas: ENSG00000133313
PathwayNCI Pathway Interaction Database: CNDP2
KEGG: CNDP2
REACTOME: CNDP2
ConsensusPathDB
Pathway Commons: CNDP2
MetabolismMetaCyc: CNDP2
HUMANCyc: CNDP2
RegulationEnsembl's Regulation: ENSG00000133313
miRBase: chr18 :72,166,822-72,190,689
TargetScan: NM_001168499
cisRED: ENSG00000133313
ContextiHOP: CNDP2
cancer metabolism search in PubMed: CNDP2
UCL Cancer Institute: CNDP2
Assigned class in ccmGDBC

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Phenotypic Information for CNDP2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: CNDP2
Familial Cancer Database: CNDP2
* 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
REACTOME_SULFUR_AMINO_ACID_METABOLISM
REACTOME_METABOLISM_OF_AMINO_ACIDS_AND_DERIVATIVES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: CNDP2
MedGen: CNDP2 (Human Medical Genetics with Condition)
ClinVar: CNDP2
PhenotypeMGI: CNDP2 (International Mouse Phenotyping Consortium)
PhenomicDB: CNDP2

Mutations for CNDP2
* 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

- Statistics for Tissue and Mutation typeTop
- 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'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
pancreasCNDP2chr187218558772185607CNDP2chr187218567172185691
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)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows CNDP2 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BF853131PAX8112482114001208114001444CNDP2237497187217619172176450
AA367702RYBP121137247556772475777CNDP2211404187216868072173247
BQ329957CNDP22255187217619772176450PAX82444802114001208114001444
BI010777CNDP212261187217619172176440FRYL26131044874114748741196
BI010769CNDP221255187217620472176440PAX82554852114001208114001438
AI906669CNDP210184187218629072187366ALKBH5178364171811239518112581
BF846333CNDP228269187217323172178184CNDP2266443187216714672168618
BF814523CNDP29207187216362072167268RPL920040743945574439456258

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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=46)
Stat. for Synonymous SNVs
(# total SNVs=11)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=1)
There's no deleted 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
chr18:72168608-72168608p.P35P2
chr18:72183517-72183517p.E320K2
chr18:72178091-72178091p.E167G2
chr18:72183560-72183561p.R334I2
chr18:72185789-72185789p.K375M2
chr18:72173106-72173106p.P76Q2
chr18:72173110-72173110p.L77L2
chr18:72168606-72168606p.P35S1
chr18:72179684-72179684p.V220G1
chr18:72185883-72185883p.?1

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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=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample321122 3  1 5 2  95 4
# mutation321122 3  1 5 2  85 5
nonsynonymous SNV22192 1  1 2 2  24 2
synonymous SNV1  3  2    3    61 3
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
chr18:72173110p.L77L2
chr18:72180810p.K169K,CNDP22
chr18:72173106p.H99R1
chr18:72183552p.G171G,CNDP21
chr18:72178114p.V323A,CNDP21
chr18:72187269p.S113S1
chr18:72180833p.I175I,CNDP21
chr18:72183571p.L327F,CNDP21
chr18:72178127p.G127G1
chr18:72187291p.G177D,CNDP21

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 CNDP2 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 CNDP2

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

ACSL5,ATP5A1,RBFA,TIMM21,C8orf34,CNDP2,CPT2,
CTDP1,CYB5A,FECH,HADHA,LAP3,MRPL44,NARS,
PPP2R4,TRAF7,TSPAN17,TXNL1,TXNL4A,UBE2L6,ZCCHC2
AP1M2,AP1S1,ATP13A1,ATP13A2,CNDP2,DAK,HYOU1,
MAN1B1,MBOAT7,MTFP1,NANS,PDIA4,PRPF19,PVRL2,
RANGAP1,RPS6KA1,RUVBL1,SMPD2,ST14,STXBP2,TMED3

ATP5A1,ATP9B,TIMM21,CDC42EP1,CNDP2,CXXC1,IRF1,
KIAA1468,MBD2,MBP,ME2,MOCOS,MPDU1,NARS,
PSMB10,SCO1,SOCS6,TNFSF13,TXNL4A,VPS4B,ZADH2
ACE2,ACY3,ANPEP,PLEKHS1,LINC00479,CA13,CDHR2,
CNDP2,DGAT1,ESPL1,RMDN3,GK,GK3P,SLC52A1,
HNF4G,MYO1A,PCK2,PLCB3,SLC2A5,SLC5A1,TM4SF20
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 CNDP2


There's no related Drug.
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Cross referenced IDs for CNDP2
* 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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