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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for AGK |
Basic gene info. | Gene symbol | AGK |
Gene name | acylglycerol kinase | |
Synonyms | CATC5|CTRCT38|MTDPS10|MULK | |
Cytomap | UCSC genome browser: 7q34 | |
Genomic location | chr7 :141251077-141354209 | |
Type of gene | protein-coding | |
RefGenes | NM_018238.3, | |
Ensembl id | ENSG00000262327 | |
Description | acylglycerol kinase, mitochondrialhAGKhsMuLKmulti-substrate lipid kinasemultiple substrate lipid kinase | |
Modification date | 20141207 | |
dbXrefs | MIM : 610345 | |
HGNC : HGNC | ||
HPRD : 08554 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_AGK | |
BioGPS: 55750 | ||
Gene Expression Atlas: ENSG00000262327 | ||
The Human Protein Atlas: ENSG00000262327 | ||
Pathway | NCI Pathway Interaction Database: AGK | |
KEGG: AGK | ||
REACTOME: AGK | ||
ConsensusPathDB | ||
Pathway Commons: AGK | ||
Metabolism | MetaCyc: AGK | |
HUMANCyc: AGK | ||
Regulation | Ensembl's Regulation: ENSG00000262327 | |
miRBase: chr7 :141,251,077-141,354,209 | ||
TargetScan: NM_018238 | ||
cisRED: ENSG00000262327 | ||
Context | iHOP: AGK | |
cancer metabolism search in PubMed: AGK | ||
UCL Cancer Institute: AGK | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for AGK(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: AGK |
Familial Cancer Database: AGK |
* 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 | |
KEGG_GLYCEROLIPID_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: AGK |
MedGen: AGK (Human Medical Genetics with Condition) | |
ClinVar: AGK | |
Phenotype | MGI: AGK (International Mouse Phenotyping Consortium) |
PhenomicDB: AGK |
Mutations for AGK |
* 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 | AGK | chr7 | 141260936 | 141260956 | chr8 | 64347721 | 64347741 | |
ovary | AGK | chr7 | 141303716 | 141303736 | AGK | chr7 | 141300251 | 141300271 |
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 AGK 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 |
BM547306 | LRRC37BP1 | 1 | 672 | 17 | 28973553 | 28975474 | AGK | 672 | 821 | 7 | 141301004 | 141311067 | |
BC040877 | LRRC37BP1 | 1 | 671 | 17 | 28973554 | 28975474 | AGK | 671 | 2696 | 7 | 141301004 | 141353700 | |
CV333650 | AGK | 1 | 156 | 7 | 141295563 | 141296143 | AGK | 152 | 267 | 7 | 141295895 | 141296010 | |
CB993911 | AGK | 49 | 164 | 7 | 141255252 | 141255367 | NDUFB2 | 164 | 762 | 7 | 140402665 | 140405099 |
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 |   |   |   | |||
GAIN (# sample) | 1 |   |   |   |   |   |   |   |   |   | 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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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=41) | (# total SNVs=7) |
(# total SNVs=1) | (# 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 |
chr7:141255292-141255292 | p.R9Q | 5 |
chr7:141315312-141315312 | p.G155G | 2 |
chr7:141315346-141315346 | p.E167K | 2 |
chr7:141341172-141341172 | p.A284V | 2 |
chr7:141321608-141321608 | p.? | 2 |
chr7:141296429-141296429 | p.A70V | 1 |
chr7:141341072-141341072 | p.S251P | 1 |
chr7:141349069-141349069 | p.E328K | 1 |
chr7:141333710-141333710 | p.E200Q | 1 |
chr7:141352635-141352635 | p.P394S | 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 |   | 11 |   |   | 3 |   | 3 |   |   | 4 | 2 | 2 |   | 1 | 5 | 5 |   | 7 |
# mutation |   | 2 |   | 10 |   |   | 3 |   | 4 |   |   | 4 | 2 | 2 |   | 1 | 5 | 5 |   | 6 |
nonsynonymous SNV |   | 2 |   | 7 |   |   | 1 |   | 4 |   |   | 4 |   | 2 |   | 1 | 5 | 5 |   | 6 |
synonymous SNV |   |   |   | 3 |   |   | 2 |   |   |   |   |   | 2 |   |   |   |   |   |   |   |
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 |
chr7:141255292 | p.R9Q | 3 |
chr7:141315312 | p.G155G | 2 |
chr7:141341172 | p.A284V | 2 |
chr7:141315310 | p.E167K | 1 |
chr7:141333701 | p.E328K | 1 |
chr7:141349069 | p.T7P | 1 |
chr7:141255285 | p.E167V | 1 |
chr7:141315311 | p.K352T | 1 |
chr7:141333742 | p.V172V | 1 |
chr7:141351333 | p.T363M | 1 |
Other DBs for Point Mutations |
Copy Number for AGK 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 AGK |
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 |
ABCF2,AGK,ARMC10,CASP2,CHCHD3,CNOT4,CUL1, DNAJC2,LUC7L2,MKRN1,MRPS33,NOM1,C7orf73,PMPCB, PRKAG2,PUS7,RHEB,RINT1,SLC37A3,SSBP1,ZC3HC1 | AGK,ANKRD13A,ARMCX5,ATXN7L3B,BDNF-AS,CASK,CDC23, CEP57,DUS4L,NFIB,POT1,RBBP4,RBMX,RFC5, TTC19,ZCCHC7,ZNF195,ZNF204P,ZNF268,ZNF512,ZNF85 |
ABCF2,ACTR3B,AGK,ARF5,ARMC10,CHCHD3,COPS6, CPSF4,CUL1,DNAJC2,FAM185A,HSD17B10,IMMP2L,MEST, MRPS33,NUBPL,PTCD1,PUS7,RBM28,SSBP1,CEP41 | AGK,ANAPC7,ARSK,C12orf43,XXYLT1,C5orf24,CWC27, DARS,DBT,FZD3,IPO5,IRAK1BP1,KIAA1586,LZTFL1, PRKD3,RPL4,STYX,TMEM123,TRMT5,TXNRD3NB,TYW3 |
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 AGK |
There's no related Drug. |
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Cross referenced IDs for AGK |
* 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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