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 MAPKAPK2
Basic gene info.Gene symbolMAPKAPK2
Gene namemitogen-activated protein kinase-activated protein kinase 2
SynonymsMAPKAP-K2|MK-2|MK2
CytomapUCSC genome browser: 1q32
Genomic locationchr1 :206858364-206907630
Type of geneprotein-coding
RefGenesNM_004759.4,
NM_032960.3,
Ensembl idENSG00000266641
DescriptionMAP kinase-activated protein kinase 2MAPK-activated protein kinase 2MAPKAP kinase 2
Modification date20141207
dbXrefs MIM : 602006
HGNC : HGNC
Ensembl : ENSG00000162889
HPRD : 11882
Vega : OTTHUMG00000036342
ProteinUniProt: P49137
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_MAPKAPK2
BioGPS: 9261
Gene Expression Atlas: ENSG00000266641
The Human Protein Atlas: ENSG00000266641
PathwayNCI Pathway Interaction Database: MAPKAPK2
KEGG: MAPKAPK2
REACTOME: MAPKAPK2
ConsensusPathDB
Pathway Commons: MAPKAPK2
MetabolismMetaCyc: MAPKAPK2
HUMANCyc: MAPKAPK2
RegulationEnsembl's Regulation: ENSG00000266641
miRBase: chr1 :206,858,364-206,907,630
TargetScan: NM_004759
cisRED: ENSG00000266641
ContextiHOP: MAPKAPK2
cancer metabolism search in PubMed: MAPKAPK2
UCL Cancer Institute: MAPKAPK2
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for MAPKAPK2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: MAPKAPK2
Familial Cancer Database: MAPKAPK2
* 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_METABOLISM_OF_MRNA
REACTOME_METABOLISM_OF_RNA

check002.gifOthers
OMIM 602006; gene.
Orphanet
DiseaseKEGG Disease: MAPKAPK2
MedGen: MAPKAPK2 (Human Medical Genetics with Condition)
ClinVar: MAPKAPK2
PhenotypeMGI: MAPKAPK2 (International Mouse Phenotyping Consortium)
PhenomicDB: MAPKAPK2

Mutations for MAPKAPK2
* 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
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'.
- 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
ovaryMAPKAPK2chr1206897054206897074MAPKAPK2chr1206868810206868830
pancreasMAPKAPK2chr1206872685206872705CR1chr1207695070207695090
pancreasMAPKAPK2chr1206903328206903348DUS2Lchr166809839768098417
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 MAPKAPK2 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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample              1  
GAIN (# sample)              1  
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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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=26)
Stat. for Synonymous SNVs
(# total SNVs=7)
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
chr1:206905967-206905967p.Q369Q3
chr1:206903395-206903395p.T215P2
chr1:206858758-206858758p.D62Y2
chr1:206902418-206902418p.R153Q2
chr1:206904055-206904055p.E238D2
chr1:206902749-206902749p.E165K2
chr1:206902080-206902080p.R102H2
chr1:206902135-206902135p.I120I1
chr1:206905951-206905951p.R364H1
chr1:206902789-206902789p.H178R1

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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=1

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample21 51   1  22   61 6
# mutation21 51   1  33   61 6
nonsynonymous SNV1  41   1  32   31 6
synonymous SNV11 1        1   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
chr1:206904055p.E238E,MAPKAPK22
chr1:206902763p.L95R,MAPKAPK21
chr1:206905044p.R102H,MAPKAPK21
chr1:206902059p.L257L,MAPKAPK21
chr1:206902780p.I117I,MAPKAPK21
chr1:206905225p.P273L,MAPKAPK21
chr1:206902080p.I120I,MAPKAPK21
chr1:206902809p.R278C,MAPKAPK21
chr1:206905409p.D122Y,MAPKAPK21
chr1:206902126p.T315N,MAPKAPK21

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 MAPKAPK2 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 MAPKAPK2

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

ADIPOR1,ARF1,ARL8A,C1orf56,C9orf116,DYRK3,FAM63A,
IL20,KIAA1377,MAPKAPK2,NIT1,P4HTM,PPP2R5A,PSEN2,
PYCR2,RNF187,RNPEP,LAMTOR2,SCN1B,SPR,TMEM9
ABCF1,ABCF2,AIMP2,ATG4D,ENDOG,ENSA,IER5,
MAP2K3,MAPKAPK2,NTMT1,MRPL14,PCBP4,PGP,PKM,
PPM1J,PPP1R3F,PRMT1,PTGES2,RBM38,TIMM17B,ZNF672

ARL8A,CDC42BPA,CRTC2,DSTYK,DYRK3,GATAD2B,ITPKB,
MAPKAPK2,MEF2D,PDE4DIP,PI4KB,SH3BP5L,SHC1,SLC25A44,
SLC41A1,SRGAP2,STX6,TP53BP2,UBE2Q1,WDR26,YY1AP1
ACTG1,AXIN1,BCAR1,CHPF2,CORO7,CTBP1,ELL,
FAM83H,FRMD8,GATAD2A,KLF16,MAP2K3,MAPKAPK2,NACC1,
P2RY11,PRKD2,SH2B2,SP2,STK10,TRIM26,ZNF598
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 MAPKAPK2
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
ChemistryBindingDB P49137; -.
ChemistryChEMBL CHEMBL2208; -.
ChemistryGuidetoPHARMACOLOGY 2094; -.
Organism-specific databasesPharmGKB PA30631; -.
Organism-specific databasesCTD 9261; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB02010mitogen-activated protein kinase-activated protein kinase 2experimentalStaurosporine
DB03431mitogen-activated protein kinase-activated protein kinase 2experimentalAdenosine-5'-Diphosphate
DB07234mitogen-activated protein kinase-activated protein kinase 2experimental3-{[(1R)-1-phenylethyl]amino}-4-(pyridin-4-ylamino)cyclobut-3-ene-1,2-dione
DB07406mitogen-activated protein kinase-activated protein kinase 2experimental(4R)-N-[4-({[2-(DIMETHYLAMINO)ETHYL]AMINO}CARBONYL)-1,3-THIAZOL-2-YL]-4-METHYL-1-OXO-2,3,4,9-TETRAHYDRO-1H-BETA-CARBOLINE-6-CARBOXAMIDE
DB07430mitogen-activated protein kinase-activated protein kinase 2experimental(10R)-10-methyl-3-(6-methylpyridin-3-yl)-9,10,11,12-tetrahydro-8H-[1,4]diazepino[5',6':4,5]thieno[3,2-f]quinolin-8-one
DB07431mitogen-activated protein kinase-activated protein kinase 2experimental(3R)-3-(aminomethyl)-9-methoxy-1,2,3,4-tetrahydro-5H-[1]benzothieno[3,2-e][1,4]diazepin-5-one
DB07728mitogen-activated protein kinase-activated protein kinase 2experimental2-[2-(2-FLUOROPHENYL)PYRIDIN-4-YL]-1,5,6,7-TETRAHYDRO-4H-PYRROLO[3,2-C]PYRIDIN-4-ONE
DB08358mitogen-activated protein kinase-activated protein kinase 2experimental2-(2-QUINOLIN-3-YLPYRIDIN-4-YL)-1,5,6,7-TETRAHYDRO-4H-PYRROLO[3,2-C]PYRIDIN-4-ONE
DB00143mitogen-activated protein kinase-activated protein kinase 2approved; nutraceuticalGlutathione


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Cross referenced IDs for MAPKAPK2
* 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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