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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for DCP1A |
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Phenotypic Information for DCP1A(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: DCP1A |
Familial Cancer Database: DCP1A |
* 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_MRNA REACTOME_METABOLISM_OF_RNA |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: DCP1A |
MedGen: DCP1A (Human Medical Genetics with Condition) | |
ClinVar: DCP1A | |
Phenotype | MGI: DCP1A (International Mouse Phenotyping Consortium) |
PhenomicDB: DCP1A |
Mutations for DCP1A |
* 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 DCP1A 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 |
BQ277160 | DCP1A | 2 | 468 | 3 | 53326464 | 53381554 | DCP1A | 464 | 768 | 3 | 53353434 | 53381473 | |
AA368822 | DCP1A | 1 | 82 | 3 | 53324327 | 53324408 | CSH2 | 82 | 107 | 17 | 61949937 | 61949962 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
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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=21) | (# total SNVs=15) |
(# 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 |
chr3:53376254-53376254 | p.N74S | 2 |
chr3:53353455-53353455 | p.R117H | 2 |
chr3:53346282-53346282 | p.E167K | 1 |
chr3:53376249-53376249 | p.H76Y | 1 |
chr3:53324879-53324879 | p.Q464L | 1 |
chr3:53326447-53326447 | p.V345V | 1 |
chr3:53346285-53346285 | p.D166Y | 1 |
chr3:53326157-53326157 | p.A442G | 1 |
chr3:53326499-53326499 | p.T328I | 1 |
chr3:53346310-53346310 | p.I157I | 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 | 4 | 2 | 4 |   |   | 2 |   |   |   |   | 4 | 1 |   |   |   | 3 | 3 | 1 | 5 |
# mutation | 2 | 4 | 2 | 4 |   |   | 2 |   |   |   |   | 5 | 1 |   |   |   | 3 | 3 | 1 | 5 |
nonsynonymous SNV | 1 | 2 | 2 | 2 |   |   | 2 |   |   |   |   | 4 | 1 |   |   |   | 1 | 1 |   | 3 |
synonymous SNV | 1 | 2 |   | 2 |   |   |   |   |   |   |   | 1 |   |   |   |   | 2 | 2 | 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 |
chr3:53353456 | p.D45Y,DCP1A | 1 |
chr3:53326255 | p.S232S,DCP1A | 1 |
chr3:53326711 | p.L230F,DCP1A | 1 |
chr3:53376192 | p.I36I,DCP1A | 1 |
chr3:53326309 | p.Q213H,DCP1A | 1 |
chr3:53326729 | p.Q20Q,DCP1A | 1 |
chr3:53376249 | p.L197L,DCP1A | 1 |
chr3:53326317 | p.R17W,DCP1A | 1 |
chr3:53326747 | p.T189T,DCP1A | 1 |
chr3:53376252 | p.R117C,DCP1A | 1 |
Other DBs for Point Mutations |
Copy Number for DCP1A 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 DCP1A |
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 |
ACTR8,APPL1,FAM208A,CREBRF,DCP1A,DENND6A,KIAA1109, KIAA1143,NEK4,PBRM1,PPP4R2,PRKAR2A,RAD54L2,SACM1L, SETD2,SLMAP,TMF1,TTBK2,VPRBP,WDR82,ZNF445 | ANKRD12,ARID4A,ATRX,C16orf52,FAM208A,CAPN7,CEP120, CTDSPL2,DCP1A,DENND4C,DIS3,FAM135A,HACE1,MON2, MORC3,RUFY2,SCAF11,USP8,ZDHHC17,ZNF280D,ZNF451 |
ACTR8,ASXL2,CAPN7,CLASP2,DCP1A,EAF1,KIF2A, LATS1,NEK4,PBRM1,PPP4R2,PRKAR2A,QRICH1,RAD54L2, RAPGEF6,RIF1,RPP14,SMARCC1,VHL,VPRBP,WDR82 | NSRP1,DCP1A,EIF5B,HNRNPA3,INTS6,ITPRIP,KIF5B, LUC7L2,MAP4K5,MED1,PBRM1,PNN,RBBP6,RPGR, NEMF,SEC63,SRRM1,TAF2,TCERG1,TUBGCP3,UPF2 |
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 DCP1A |
There's no related Drug. |
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Cross referenced IDs for DCP1A |
* 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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