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| Phenotypic Information (metabolism pathway, cancer, disease, phenome) |
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| Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG |
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| Gene Summary for CDIPT |
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| Phenotypic Information for CDIPT(metabolism pathway, cancer, disease, phenome) |
 Cancer Description | |
| Cancer | CGAP: CDIPT |
| Familial Cancer Database: CDIPT | |
| * 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_INOSITOL_PHOSPHATE_METABOLISM KEGG_GLYCEROPHOSPHOLIPID_METABOLISM REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS | |
| Others | |
| OMIM | |
| Orphanet | |
| Disease | KEGG Disease: CDIPT |
| MedGen: CDIPT (Human Medical Genetics with Condition) | |
| ClinVar: CDIPT | |
| Phenotype | MGI: CDIPT (International Mouse Phenotyping Consortium) |
| PhenomicDB: CDIPT | |
| Mutations for CDIPT |
| * 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 CDIPT 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 |
| 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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: Non-synonymous mutation, 
: Synonymous mutation, Circle size denotes number of samples. |
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| Somatic Mutation Counts per Tissue in COSMIC data |
| Stat. for Non-Synonymous SNVs (# total SNVs=10) | (# total SNVs=8) |
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(# 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 |
| chr16:29872447-29872447 | p.S104S | 2 |
| chr16:29870635-29870635 | p.R173W | 1 |
| chr16:29873949-29873949 | p.L46L | 1 |
| chr16:29870796-29870796 | p.L155I | 1 |
| chr16:29874008-29874008 | p.F26S | 1 |
| chr16:29870823-29870823 | p.A146S | 1 |
| chr16:29874016-29874016 | p.I23I | 1 |
| chr16:29871937-29871937 | p.G127W | 1 |
| chr16:29874031-29874031 | p.R18R | 1 |
| chr16:29871964-29871964 | p.E118Q | 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 | 1 | 1 | 1 | 2 | 1 | 1 | 3 | |||||||||||||
| # mutation | 1 | 1 | 1 | 2 | 1 | 1 | 3 | |||||||||||||
| nonsynonymous SNV | 1 | 1 | 1 | 1 | ||||||||||||||||
| synonymous SNV | 1 | 1 | 1 | 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 |
| chr16:29872528 | p.L46L | 1 |
| chr16:29872572 | p.C31C | 1 |
| chr16:29873949 | p.I23I | 1 |
| chr16:29873992 | p.R18R | 1 |
| chr16:29874016 | p.R154R,CDIPT | 1 |
| chr16:29874031 | p.G82W,CDIPT | 1 |
| chr16:29870555 | p.E73Q,CDIPT | 1 |
| chr16:29871937 | p.S54S,CDIPT | 1 |
| chr16:29871964 | p.M32I,CDIPT | 1 |
| chr16:29872462 | p.F18I,CDIPT | 1 |
| Other DBs for Point Mutations |
| Copy Number for CDIPT 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. |
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| 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 CDIPT |
| 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. |
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| 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. |
: Open all plots for all cancer types
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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 |
: Open all plots for all cancer types
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| ARMC5,BCKDK,PAGR1,C16orf58,CCDC101,CD2BP2,CDIPT, FBRS,FLYWCH2,HAGH,HIRIP3,INO80E,KCTD13,MAPK3, PRR14,TBC1D10B,TMEM219,TUFM,YPEL3,ZNF688,ZNF768 | AIP,BAD,C19orf43,LAMTOR4,CDIPT,CHMP4A,CTDSP1, FAM195B,FKBP8,GNPTG,HTRA2,OCEL1,RABAC1,RANGRF, RNASEK,RNF181,TMEM219,TNFSF12,VKORC1,ZNF358,ZNHIT1 | ||||
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| C16orf58,CD2BP2,CDIPT,CLCN7,DYNLRB1,FBRS,HDAC5, INO80E,LRRC29,KAT8,NSMCE1,ORAI3,PARN,PRR14, SPNS1,SPSB3,STX4,YPEL3,ZNF213,ZNF646,ZNF688 | ABTB1,AGPAT1,CCDC101,CDIPT,CTDSP1,DYRK1B,FOXO4, HDAC11,HDAC5,HS1BP3,NFKBIL1,NR1H2,ORAI3,PDK2, TBC1D13,UBXN6,WBP2,WDTC1,WIPI2,YPEL3,ZNF358 |
| 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 |
: Open all plots for all cancer types
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| Interacting Genes (from Pathway Commons) |
: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID
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| Pharmacological Information for CDIPT |
| 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. |
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| * Drug Centered Interaction Network. |
| DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
| DB03106 | CDP-diacylglycerol--inositol 3-phosphatidyltransferase | experimental | Myo-Inositol |  |  |
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| Cross referenced IDs for CDIPT |
| * We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
: Open all cross reference information
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