|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for MED17 |
Basic gene info. | Gene symbol | MED17 |
Gene name | mediator complex subunit 17 | |
Synonyms | CRSP6|CRSP77|DRIP80|TRAP80 | |
Cytomap | UCSC genome browser: 11q14 | |
Genomic location | chr11 :93517404-93546496 | |
Type of gene | protein-coding | |
RefGenes | NM_004268.4, | |
Ensembl id | ENSG00000042429 | |
Description | ARC77CRSP complex subunit 6activator-recruited cofactor 77 kDa componentcofactor required for Sp1 transcriptional activation, subunit 6, 77kDamediator of RNA polymerase II transcription subunit 17thyroid hormone receptor-associated protein complex 80 | |
Modification date | 20141207 | |
dbXrefs | MIM : 603810 | |
HGNC : HGNC | ||
HPRD : 04816 | ||
Protein | UniProt: Q9NVC6 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_MED17 | |
BioGPS: 9440 | ||
Gene Expression Atlas: ENSG00000042429 | ||
The Human Protein Atlas: ENSG00000042429 | ||
Pathway | NCI Pathway Interaction Database: MED17 | |
KEGG: MED17 | ||
REACTOME: MED17 | ||
ConsensusPathDB | ||
Pathway Commons: MED17 | ||
Metabolism | MetaCyc: MED17 | |
HUMANCyc: MED17 | ||
Regulation | Ensembl's Regulation: ENSG00000042429 | |
miRBase: chr11 :93,517,404-93,546,496 | ||
TargetScan: NM_004268 | ||
cisRED: ENSG00000042429 | ||
Context | iHOP: MED17 | |
cancer metabolism search in PubMed: MED17 | ||
UCL Cancer Institute: MED17 | ||
Assigned class in ccmGDB | B - This gene belongs to cancer gene. |
Top |
Phenotypic Information for MED17(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: MED17 |
Familial Cancer Database: MED17 |
* This gene is included in those cancer gene databases. |
. | ||||||||||||||||||||
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 | 603810; gene. 613668; phenotype. |
Orphanet | 402364; Infantile cerebral and cerebellar atrophy with postnatal progressive microcephaly. |
Disease | KEGG Disease: MED17 |
MedGen: MED17 (Human Medical Genetics with Condition) | |
ClinVar: MED17 | |
Phenotype | MGI: MED17 (International Mouse Phenotyping Consortium) |
PhenomicDB: MED17 |
Mutations for MED17 |
* 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 |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows MED17 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 |
BG822170 | RMI2 | 31 | 331 | 16 | 11444722 | 11445022 | MED17 | 332 | 901 | 11 | 93517552 | 93528170 |
Other DBs for Structural Variants |
Top |
Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
Top |
SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
|
Top |
Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=44) | (# total SNVs=8) |
(# total SNVs=0) | (# total SNVs=0) |
Top |
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 |
chr11:93517886-93517886 | p.E69D | 3 |
chr11:93523911-93523911 | p.R197* | 3 |
chr11:93527011-93527011 | p.E252G | 3 |
chr11:93523932-93523932 | p.L204F | 2 |
chr11:93517874-93517874 | p.G65G | 2 |
chr11:93523888-93523888 | p.R189Q | 1 |
chr11:93540766-93540766 | p.Q517E | 1 |
chr11:93543040-93543040 | p.S581L | 1 |
chr11:93528152-93528152 | p.R313Q | 1 |
chr11:93530766-93530766 | p.K403K | 1 |
Top |
SNV Counts per Each Loci in TCGA data |
|
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 | 1 |   | 2 | 5 | 1 |   | 3 |   | 4 | 1 |   | 5 | 5 | 1 |   |   | 3 | 5 |   | 9 |
# mutation | 1 |   | 2 | 5 | 1 |   | 3 |   | 4 | 1 |   | 5 | 7 | 1 |   |   | 3 | 5 |   | 10 |
nonsynonymous SNV | 1 |   | 2 | 3 | 1 |   | 2 |   | 4 | 1 |   | 5 | 6 | 1 |   |   | 2 | 4 |   | 9 |
synonymous SNV |   |   |   | 2 |   |   | 1 |   |   |   |   |   | 1 |   |   |   | 1 | 1 |   | 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]) |
Top |
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 |
chr11:93527011 | p.E252G | 3 |
chr11:93528152 | p.R313L | 2 |
chr11:93526948 | p.A566V | 1 |
chr11:93545144 | p.P137L | 1 |
chr11:93529642 | p.A566A | 1 |
chr11:93521326 | p.T143M | 1 |
chr11:93542995 | p.K319E | 1 |
chr11:93545200 | p.P574Q | 1 |
chr11:93529669 | p.L153V | 1 |
chr11:93523750 | p.Q321H | 1 |
Other DBs for Point Mutations |
Copy Number for MED17 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] |
Top |
Gene Expression for MED17 |
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)) |
Top |
CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
Top |
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 |
ANKRD49,C11orf54,VSTM5,CCDC90B,CEP57,CHORDC1,CWC15, EED,FAM76B,CEP295,LOC727896,MED17,MRE11A,MTMR2, PANX1,PICALM,SRSF8,SLC36A4,SNORA8,TAF1D,ZW10 | METTL25,CCSAP,COIL,FAM60A,FANCL,MED17,NKRF, NUFIP1,NUP35,REPS1,SUZ12P1,TEX10,THUMPD2,USP42, WDR89,ZNF131,ZNF140,ZNF146,ZNF195,ZNF202,ZNF586 |
AASDHPPT,BBS10,BUD13,C11orf57,C5orf24,CCDC90B,CEP57, CUL5,EED,FAM76B,HINFP,MSANTD4,MED17,PMS1, RBM4,ZFR,ZNF124,ZNF143,ZNF202,ZNF816,ZW10 | ANP32A,URI1,CCDC117,CDC40,HMG20A,L3MBTL3,MED17, MIOS,MS4A2,MSH2,POLG2,PPWD1,SIAH2,SLC15A2, VPS54,ZNF253,ZNF485,ZNF525,ZNF682,ZNF780A,ZNF816 |
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 |
Top |
Interacting Genes (from Pathway Commons) |
Top |
Pharmacological Information for MED17 |
There's no related Drug. |
Top |
Cross referenced IDs for MED17 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |