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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for MED27 |
Basic gene info. | Gene symbol | MED27 |
Gene name | mediator complex subunit 27 | |
Synonyms | CRAP34|CRSP34|CRSP8|TRAP37 | |
Cytomap | UCSC genome browser: 9q34.13 | |
Genomic location | chr9 :134735496-134955274 | |
Type of gene | protein-coding | |
RefGenes | NM_001253881.1, NM_001253882.1,NM_004269.3, | |
Ensembl id | ENSG00000160563 | |
Description | CRSP complex subunit 8cofactor required for Sp1 transcriptional activation, subunit 8, 34kDamediator of RNA polymerase II transcription subunit 27p37 TRAP/SMCC/PC2 subunittranscriptional coactivator CRSP34 | |
Modification date | 20141207 | |
dbXrefs | MIM : 605044 | |
HGNC : HGNC | ||
Ensembl : ENSG00000160563 | ||
HPRD : 05438 | ||
Vega : OTTHUMG00000020833 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_MED27 | |
BioGPS: 9442 | ||
Gene Expression Atlas: ENSG00000160563 | ||
The Human Protein Atlas: ENSG00000160563 | ||
Pathway | NCI Pathway Interaction Database: MED27 | |
KEGG: MED27 | ||
REACTOME: MED27 | ||
ConsensusPathDB | ||
Pathway Commons: MED27 | ||
Metabolism | MetaCyc: MED27 | |
HUMANCyc: MED27 | ||
Regulation | Ensembl's Regulation: ENSG00000160563 | |
miRBase: chr9 :134,735,496-134,955,274 | ||
TargetScan: NM_001253881 | ||
cisRED: ENSG00000160563 | ||
Context | iHOP: MED27 | |
cancer metabolism search in PubMed: MED27 | ||
UCL Cancer Institute: MED27 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for MED27(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: MED27 |
Familial Cancer Database: MED27 |
* This gene is included in those cancer gene databases. |
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Oncogene 1 | Significant driver gene in |
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 | |
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: MED27 |
MedGen: MED27 (Human Medical Genetics with Condition) | |
ClinVar: MED27 | |
Phenotype | MGI: MED27 (International Mouse Phenotyping Consortium) |
PhenomicDB: MED27 |
Mutations for MED27 |
* 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 | Top |
- 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'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | MED27 | chr9 | 134881029 | 134881049 | chr10 | 15520453 | 15520473 | |
ovary | MED27 | chr9 | 134881470 | 134881490 | MED27 | chr9 | 134881523 | 134881543 |
pancreas | MED27 | chr9 | 134893520 | 134893540 | MED27 | chr9 | 134893582 | 134893602 |
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 MED27 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 |
AI702094 | MED27 | 20 | 91 | 9 | 134735497 | 134735568 | MED27 | 86 | 163 | 9 | 134735616 | 134735693 | |
CA391201 | MED27 | 2 | 162 | 9 | 134773490 | 134773650 | MED27 | 155 | 510 | 9 | 134752996 | 134753351 | |
AK026378 | MED27 | 1 | 1143 | 9 | 134798294 | 134799436 | UVRAG | 1138 | 1173 | 11 | 75635697 | 75635732 |
Other DBs for Structural Variants |
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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 | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 1 | 1 |   |   |   | 1 |   |   |   |   | 1 |   |   | 1 |   |   | 1 | |||
GAIN (# sample) | 1 | 1 |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   | |||
LOSS (# sample) |   |   |   |   |   | 1 |   |   |   |   |   |   |   | 1 |   |   | 1 |
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 |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=22) | (# total SNVs=12) |
(# total SNVs=3) | (# total SNVs=0) |
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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 |
chr9:134735980-134735980 | p.P294L | 7 |
chr9:134955076-134955076 | p.F52F | 4 |
chr9:134952878-134952878 | p.K100T | 1 |
chr9:134738461-134738461 | p.R264* | 1 |
chr9:134955187-134955187 | p.S15S | 1 |
chr9:134814829-134814829 | p.R171K | 1 |
chr9:134952890-134952890 | p.P96L | 1 |
chr9:134955211-134955211 | p.V7V | 1 |
chr9:134738469-134738469 | p.V261G | 1 |
chr9:134814846-134814846 | p.V165V | 1 |
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SNV Counts per Each Loci in TCGA data |
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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 | 2 |   | 4 |   |   | 1 |   | 4 |   |   | 1 | 2 |   |   |   |   | 1 |   | 4 |
# mutation | 2 | 2 |   | 4 |   |   | 1 |   | 3 |   |   | 1 | 2 |   |   |   |   | 1 |   | 5 |
nonsynonymous SNV | 2 | 2 |   | 3 |   |   | 1 |   | 1 |   |   | 1 |   |   |   |   |   |   |   | 5 |
synonymous SNV |   |   |   | 1 |   |   |   |   | 2 |   |   |   | 2 |   |   |   |   | 1 |   |   |
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 |
chr9:134769340 | p.P258L,MED27 | 2 |
chr9:134735980 | p.R205W | 2 |
chr9:134955076 | p.I201I | 1 |
chr9:134769350 | p.R171K,MED27 | 1 |
chr9:134955096 | p.V165V,MED27 | 1 |
chr9:134814829 | p.T154T,MED27 | 1 |
chr9:134955185 | p.R146H,MED27 | 1 |
chr9:134814846 | p.N115K,MED27 | 1 |
chr9:134955187 | p.Q109E,MED27 | 1 |
chr9:134889741 | p.Q106E,MED27 | 1 |
Other DBs for Point Mutations |
Copy Number for MED27 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 MED27 |
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. |
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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 |
ARPC5L,C9orf16,DGUOK,DPM2,FAM96B,LOC441089,MED27, NTMT1,NDUFA8,PSMB7,PTGES2,REXO4,SEC61B,SSNA1, SURF2,UBAC1,UCK1,URM1,WDR5,DPH7,ZMYND19 | ARF5,C12orf57,C17orf49,CNFN,CUTA,EIF6,EMD, ETHE1,FIBP,MED27,NHP2,NHP2L1,OTUB1,PPP4C, PSMG3,RAB34,SF3B5,SNRPC,SNRPD2,SNRPF,SSSCA1 |
CKS2,DCTN3,GADD45GIP1,LOC441089,LSM2,MED27,NTMT1, MRPL22,MYEOV2,NDUFA11,NDUFA13,NDUFB6,NDUFB7,PSMB7, RPL35,SEC61B,SNRPG,SSNA1,STOML2,UBL5,URM1 | BANF1,CCDC167,RRP36,CCT7,CIRH1A,COPS3,DCUN1D5, EBNA1BP2,EIF2B3,EIF2S1,LOC441089,MED27,MRPL24,MRPL36, NUTF2,PARK7,PPIL1,PRMT1,PSMD6,RAN,TCEB1 |
Co-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 |
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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for MED27 |
There's no related Drug. |
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Cross referenced IDs for MED27 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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