Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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 MED26
Basic gene info.Gene symbolMED26
Gene namemediator complex subunit 26
SynonymsCRSP7|CRSP70
CytomapUCSC genome browser: 19p13.11
Genomic locationchr19 :16685717-16739015
Type of geneprotein-coding
RefGenesNM_004831.3,
Ensembl idENSG00000105085
DescriptionARC70CRSP complex subunit 7activator-recruited cofactor 70 kDa componentcofactor required for Sp1 transcriptional activation subunit 7cofactor required for Sp1 transcriptional activation, subunit 7 (70kD)cofactor required for Sp1 transcriptional acti
Modification date20141207
dbXrefs MIM : 605043
HGNC : HGNC
Ensembl : ENSG00000105085
HPRD : 05437
Vega : OTTHUMG00000182433
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_MED26
BioGPS: 9441
Gene Expression Atlas: ENSG00000105085
The Human Protein Atlas: ENSG00000105085
PathwayNCI Pathway Interaction Database: MED26
KEGG: MED26
REACTOME: MED26
ConsensusPathDB
Pathway Commons: MED26
MetabolismMetaCyc: MED26
HUMANCyc: MED26
RegulationEnsembl's Regulation: ENSG00000105085
miRBase: chr19 :16,685,717-16,739,015
TargetScan: NM_004831
cisRED: ENSG00000105085
ContextiHOP: MED26
cancer metabolism search in PubMed: MED26
UCL Cancer Institute: MED26
Assigned class in ccmGDBC

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Phenotypic Information for MED26(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: MED26
Familial Cancer Database: MED26
* 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_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: MED26
MedGen: MED26 (Human Medical Genetics with Condition)
ClinVar: MED26
PhenotypeMGI: MED26 (International Mouse Phenotyping Consortium)
PhenomicDB: MED26

Mutations for MED26
* 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
There's no intra-chromosomal structural variation.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
central_nervous_systemMED26chr191670798816707988MED26chr191670942416709424
ovaryMED26chr191668846316688483NAPSBchr195084504650845066
ovaryMED26chr191669721916697239MED26chr191670180716701827
ovaryMED26chr191671263816712658chr192458843424588454
pancreasMED26chr191670789016707910MED26chr191671006516710085
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 MED26 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BQ009863CARM118164191103330211033448MED26158724191662904616629612
AL516980MED261459191663628316640538MED26455546191664628116646372
BI019721PTPRJ1283114801814548018427MED26277424191670625316706400
BG953012MED261170191669595116696010MED2665316191669567516695926
BF885437MED2627116191666453716664626CEP16411231711117261985117262190
BC032658MED26241872191666344916682389KIF18B18672361174300207943002577
DA456356MED261402191668343516683835USP36401565177683466976834833

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 # sample1         1      
GAIN (# sample)1         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=19)
Stat. for Synonymous SNVs
(# total SNVs=9)
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
chr19:16689204-16689204p.A30V3
chr19:16687395-16687395p.K416Q1
chr19:16687979-16687979p.I221S1
chr19:16686957-16686957p.G562R1
chr19:16688383-16688383p.P86P1
chr19:16687442-16687442p.R400Q1
chr19:16687986-16687986p.G219C1
chr19:16686990-16686990p.D551N1
chr19:16688392-16688392p.L83L1
chr19:16687474-16687474p.S389S1

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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
# sample21 4  3 1   12 129 7
# mutation21 4  3 1   12 129 8
nonsynonymous SNV11 2  2 1   11  28 5
synonymous SNV1  2  1      1 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
chr19:16687637p.V532L1
chr19:16688023p.A225T1
chr19:16687028p.R492W1
chr19:16687644p.I221S1
chr19:16688032p.E452E1
chr19:16687047p.G219S1
chr19:16687658p.H450H1
chr19:16688149p.H217Q1
chr19:16687167p.R444W1
chr19:16687659p.G206G1

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 MED26 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 MED26

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

AKAP8,ARMC6,KXD1,CHERP,DCAF15,DDA1,DDX39A,
DDX49,FAM32A,GATAD2A,GTPBP3,HAUS8,KRI1,MED26,
MPV17L2,MRPL34,RAVER1,SIN3B,TIMM44,TRMT1,WIZ
CCDC9,DUS3L,FBXO46,FZR1,GTPBP3,MED26,NOXA1,
PPAN,RAB40C,REXO1,RRP9,CLASRP,AKAP17A,SNAPC4,
STX1A,TRMT1,NELFA,ZBTB48,ZNF446,ZNF653,ZNF777

AKAP8,AKAP8L,CACTIN,CDC37,CHERP,DOHH,EPS15L1,
GTPBP3,KRI1,MED26,MLLT1,PPAN,RAVER1,REXO1,
SUGP1,STK11,TNPO2,WIZ,XAB2,ZNF296,ZNF574
ARID3B,BAG6,CLEC16A,CORO7,CYTH1,ELL,ERCC5,
GMEB2,LEMD2,MCM3AP,MED26,MICAL1,PHRF1,PRKD2,
REPS1,REXO1,RFX1,SKIV2L,SMARCD1,TATDN2,TRIM11
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 MED26


There's no related Drug.
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Cross referenced IDs for MED26
* 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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