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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for DGKB |
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Phenotypic Information for DGKB(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: DGKB |
Familial Cancer Database: DGKB |
* 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 KEGG_GLYCEROPHOSPHOLIPID_METABOLISM |
Others | |
OMIM | 604070; gene. 604070; gene. |
Orphanet | |
Disease | KEGG Disease: DGKB |
MedGen: DGKB (Human Medical Genetics with Condition) | |
ClinVar: DGKB | |
Phenotype | MGI: DGKB (International Mouse Phenotyping Consortium) |
PhenomicDB: DGKB |
Mutations for DGKB |
* 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 | DGKB | chr7 | 14197044 | 14197064 | DGKB | chr7 | 14200674 | 14200694 |
ovary | DGKB | chr7 | 14203393 | 14203413 | ABCB5 | chr7 | 20764245 | 20764265 |
ovary | DGKB | chr7 | 14213992 | 14214012 | DGKB | chr7 | 14215736 | 14215756 |
ovary | DGKB | chr7 | 14355546 | 14355566 | chr12 | 26425785 | 26425805 | |
ovary | DGKB | chr7 | 14391090 | 14391110 | DGKB | chr7 | 14315615 | 14315635 |
ovary | DGKB | chr7 | 14454578 | 14454598 | MPP6 | chr7 | 24664740 | 24664760 |
ovary | DGKB | chr7 | 14709880 | 14709900 | DGKB | chr7 | 14710043 | 14710063 |
ovary | DGKB | chr7 | 14710938 | 14710958 | DGKB | chr7 | 14711052 | 14711072 |
ovary | DGKB | chr7 | 14714574 | 14714594 | DGKB | chr7 | 14715071 | 14715091 |
ovary | DGKB | chr7 | 14864530 | 14864550 | DGKB | chr7 | 14866436 | 14866456 |
pancreas | DGKB | chr7 | 14250901 | 14250921 | DGKB | chr7 | 14251491 | 14251511 |
pancreas | DGKB | chr7 | 14270697 | 14270717 | chr5 | 15005277 | 15005297 | |
pancreas | DGKB | chr7 | 14510905 | 14511105 | DGKB | chr7 | 14510072 | 14510272 |
pancreas | DGKB | chr7 | 14510938 | 14510958 | DGKB | chr7 | 14510822 | 14510842 |
pancreas | DGKB | chr7 | 14794140 | 14794160 | DGKB | chr7 | 14795373 | 14795393 |
pancreas | DGKB | chr7 | 14795593 | 14795613 | DGKB | chr7 | 14792767 | 14792787 |
prostate | DGKB | chr7 | 14277383 | 14277383 | KCND2 | chr7 | 120204270 | 120204270 |
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 DGKB 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 |
BF961320 | DGKB | 2 | 93 | 7 | 14775729 | 14775820 | DGKB | 93 | 225 | 7 | 14652965 | 14661060 | |
EY123371 | DGKB | 20 | 39 | 7 | 14806596 | 14806615 | MALAT1 | 34 | 106 | 11 | 65266660 | 65266734 | |
FJ423747 | MIPOL1 | 1 | 148 | 14 | 37969196 | 37969343 | DGKB | 149 | 256 | 7 | 14188756 | 14188863 |
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 | 4 | 3 |   |   |   |   |   |   | 1 |   | 3 |   |   | 4 |   |   | 3 | |||
GAIN (# sample) | 2 | 3 |   |   |   |   |   |   | 1 |   | 2 |   |   | 4 |   |   | 3 | |||
LOSS (# sample) | 2 |   |   |   |   |   |   |   |   |   | 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=125) | (# total SNVs=39) |
(# 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 |
chr7:14775824-14775824 | p.? | 16 |
chr7:14775823-14775823 | p.? | 9 |
chr7:14647098-14647098 | p.R466H | 5 |
chr7:14613992-14613992 | p.E540K | 4 |
chr7:14517850-14517850 | p.D592Y | 4 |
chr7:14613939-14613939 | p.I557I | 4 |
chr7:14880876-14880876 | p.E5K | 3 |
chr7:14620517-14620517 | p.D528Y | 3 |
chr7:14378214-14378214 | p.R684Q | 3 |
chr7:14378223-14378223 | p.R681Q | 3 |
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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 | 4 | 1 | 35 | 1 |   | 7 |   | 2 | 1 |   | 27 | 9 | 6 | 1 |   | 26 | 10 |   | 18 |
# mutation | 2 | 3 | 1 | 33 | 1 |   | 7 |   | 2 | 1 |   | 29 | 9 | 6 | 1 |   | 23 | 12 |   | 25 |
nonsynonymous SNV | 1 | 1 |   | 23 | 1 |   | 5 |   | 1 | 1 |   | 22 | 6 | 3 | 1 |   | 18 | 11 |   | 23 |
synonymous SNV | 1 | 2 | 1 | 10 |   |   | 2 |   | 1 |   |   | 7 | 3 | 3 |   |   | 5 | 1 |   | 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 |
chr7:14613939 | p.I557I,DGKB | 4 |
chr7:14378223 | p.R681Q,DGKB | 4 |
chr7:14378214 | p.E5K,DGKB | 3 |
chr7:14880876 | p.R684Q,DGKB | 3 |
chr7:14622703 | p.T163T,DGKB | 2 |
chr7:14188781 | p.S13L,DGKB | 2 |
chr7:14741333 | p.T499N,DGKB | 2 |
chr7:14647097 | p.T696T,DGKB | 2 |
chr7:14613992 | p.D411N,DGKB | 2 |
chr7:14797283 | p.R797K | 2 |
Other DBs for Point Mutations |
Copy Number for DGKB 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 DGKB |
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 |
ADRA1A,ASPG,CCDC172,C7orf65,CAV3,DGKB,DRGX, GLB1L3,HLA-G,HOXD12,LOC285954,OR1L3,OR4D6,OR52N2, OR5A1,OR9I1,PATL2,SH2D4B,SNORD103A,STMN4,TOMM7 | ANKRD2,ASB12,ATP2A2,DGKB,GADL1,GDNF,IP6K3, JPH1,JSRP1,KBTBD13,LRRC39,MYBPC1,MYH13,MYH8, MYOM3,NPY6R,PEBP4,SMTNL1,TNNT1,TXLNB,YIPF7 |
MRGPRG-AS1,C12orf50,C15orf26,LAMP5,C3orf35,FAXDC2,DGKB, FGF3,IFNA1,KCNJ9,NTF4,PCDHA3,PCDHGC5,OOSP2, SACS,SCN2A,SLC5A12,SMAD9,SPANXN2,TM9SF1,UPP2 | BAI3,BCHE,SERTM1,C14orf39,CRISPLD1,DGKB,FSTL5, GLRB,GNG2,LOC255167,LPPR5,NECAB1,PENK,RERG, SGCE,SH3BGR,SLITRK3,SNAP25,SYT4,ZCCHC12,ZDHHC22 |
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 DGKB |
There's no related Drug. |
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Cross referenced IDs for DGKB |
* 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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