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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for DCK |
Basic gene info. | Gene symbol | DCK |
Gene name | deoxycytidine kinase | |
Synonyms | - | |
Cytomap | UCSC genome browser: 4q13.3-q21.1 | |
Genomic location | chr4 :71859264-71896629 | |
Type of gene | protein-coding | |
RefGenes | NM_000788.2, | |
Ensembl id | ENSG00000156136 | |
Description | deoxynucleoside kinase | |
Modification date | 20141207 | |
dbXrefs | MIM : 125450 | |
HGNC : HGNC | ||
Ensembl : ENSG00000156136 | ||
HPRD : 00507 | ||
Vega : OTTHUMG00000129908 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_DCK | |
BioGPS: 1633 | ||
Gene Expression Atlas: ENSG00000156136 | ||
The Human Protein Atlas: ENSG00000156136 | ||
Pathway | NCI Pathway Interaction Database: DCK | |
KEGG: DCK | ||
REACTOME: DCK | ||
ConsensusPathDB | ||
Pathway Commons: DCK | ||
Metabolism | MetaCyc: DCK | |
HUMANCyc: DCK | ||
Regulation | Ensembl's Regulation: ENSG00000156136 | |
miRBase: chr4 :71,859,264-71,896,629 | ||
TargetScan: NM_000788 | ||
cisRED: ENSG00000156136 | ||
Context | iHOP: DCK | |
cancer metabolism search in PubMed: DCK | ||
UCL Cancer Institute: DCK | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for DCK(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: DCK |
Familial Cancer Database: DCK |
* 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_PURINE_METABOLISM KEGG_PYRIMIDINE_METABOLISM REACTOME_METABOLISM_OF_NUCLEOTIDES REACTOME_PURINE_METABOLISM REACTOME_PYRIMIDINE_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: DCK |
MedGen: DCK (Human Medical Genetics with Condition) | |
ClinVar: DCK | |
Phenotype | MGI: DCK (International Mouse Phenotyping Consortium) |
PhenomicDB: DCK |
Mutations for DCK |
* 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 DCK 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 |
BG315007 | RAPGEF1 | 1 | 265 | 9 | 134454093 | 134454357 | DCK | 262 | 398 | 4 | 71888127 | 71888262 |
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 |   |   |   |   |   |   | |||
GAIN (# sample) |   |   |   |   |   |   |   |   |   |   | 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=24) | (# total SNVs=7) |
(# total SNVs=0) | (# 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 |
chr4:71889409-71889409 | p.Q179K | 3 |
chr4:71888182-71888182 | p.L102L | 2 |
chr4:71892391-71892391 | p.F225F | 2 |
chr4:71888090-71888090 | p.T72S | 2 |
chr4:71888092-71888092 | p.T72T | 2 |
chr4:71889394-71889394 | p.G174R | 2 |
chr4:71891546-71891546 | p.R188I | 1 |
chr4:71891559-71891559 | p.R192R | 1 |
chr4:71888183-71888183 | p.S103G | 1 |
chr4:71891606-71891606 | p.L208R | 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 |   |   | 6 | 1 |   | 2 |   |   | 1 |   | 4 | 1 | 3 |   |   |   |   |   | 5 |
# mutation | 2 |   |   | 5 | 1 |   | 2 |   |   | 1 |   | 4 | 1 | 3 |   |   |   |   |   | 5 |
nonsynonymous SNV | 1 |   |   | 3 | 1 |   | 2 |   |   | 1 |   | 3 | 1 | 1 |   |   |   |   |   | 4 |
synonymous SNV | 1 |   |   | 2 |   |   |   |   |   |   |   | 1 |   | 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 |
chr4:71892391 | p.F225F | 2 |
chr4:71888090 | p.T72S | 2 |
chr4:71888092 | p.T72T | 2 |
chr4:71888183 | p.N164T | 1 |
chr4:71892401 | p.Q165Q | 1 |
chr4:71888189 | p.R192L | 1 |
chr4:71892453 | p.R192R | 1 |
chr4:71888254 | p.I26M | 1 |
chr4:71895091 | p.L208R | 1 |
chr4:71859630 | p.V61V | 1 |
Other DBs for Point Mutations |
Copy Number for DCK 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 DCK |
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 |
ANKRD17,CEP135,CNOT6L,DCK,ENOPH1,G3BP2,GNA13, GRSF1,LIN54,MOB1B,NUP54,PAQR3,PDS5A,PPAT, SDAD1,SRSF10,TMEM194A,TMEM33,UBA6,UBE2K,USO1 | ANKRD13C,ANP32E,CGGBP1,DCK,DEK,GNA13,GOLT1B, HSPA13,LRRC40,MIER1,NUS1,PAPD4,BLOC1S6,RAP2C, RNGTT,SMNDC1,SPAST,TMX1,TRAM1,TROVE2,UFM1 | ||||
C14orf142,CISD2,CNIH1,COMMD8,COPS4,COX18,DCK, ENOPH1,LRRC40,MAD2L1,MED28,MTHFD2L,NUP54,PAQR3, PRDX3,RCHY1,SELT,SEP15,SRP72,TMEM165,UBE2D3 | BUB3,MZT1,C5orf28,DCK,E2F5,ERLEC1,FAM49B, GABPB1,HAUS1,MRPS14,NIF3L1,PDCD2,PMS2P1,POLB, PRKRIR,PRPSAP2,RBBP4,SLBP,TANK,TFAM,UNC50 |
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 DCK |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB01073 | deoxycytidine kinase | approved | Fludarabine | ||
DB02594 | deoxycytidine kinase | experimental | 2'-Deoxycytidine | ||
DB03431 | deoxycytidine kinase | experimental | Adenosine-5'-Diphosphate | ||
DB00709 | deoxycytidine kinase | approved; investigational | Lamivudine | ||
DB00694 | deoxycytidine kinase | approved | Daunorubicin | ||
DB00773 | deoxycytidine kinase | approved | Etoposide | ||
DB00619 | deoxycytidine kinase | approved | Imatinib | ||
DB01204 | deoxycytidine kinase | approved; investigational | Mitoxantrone | ||
DB00541 | deoxycytidine kinase | approved; investigational | Vincristine | ||
DB02745 | deoxycytidine kinase | experimental | Uridine | ||
DB00987 | deoxycytidine kinase | approved; investigational | Cytarabine | ||
DB00441 | deoxycytidine kinase | approved | Gemcitabine | ||
DB00515 | deoxycytidine kinase | approved | Cisplatin |
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Cross referenced IDs for DCK |
* 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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