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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for OGN |
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Phenotypic Information for OGN(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: OGN |
Familial Cancer Database: OGN |
* 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_CARBOHYDRATES |
Others | |
OMIM | 602383; gene. |
Orphanet | |
Disease | KEGG Disease: OGN |
MedGen: OGN (Human Medical Genetics with Condition) | |
ClinVar: OGN | |
Phenotype | MGI: OGN (International Mouse Phenotyping Consortium) |
PhenomicDB: OGN |
Mutations for OGN |
* 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 OGN 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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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=17) | (# total SNVs=11) |
(# 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 |
chr9:95155370-95155370 | p.I142K | 2 |
chr9:95165597-95165597 | p.Y31Y | 2 |
chr9:95155465-95155465 | p.D110D | 2 |
chr9:95165630-95165630 | p.A20A | 2 |
chr9:95152322-95152322 | p.L148L | 2 |
chr9:95155369-95155369 | p.I142M | 1 |
chr9:95165563-95165563 | p.F43V | 1 |
chr9:95148533-95148533 | p.E226K | 1 |
chr9:95152157-95152157 | p.G203G | 1 |
chr9:95155439-95155439 | p.K119T | 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 | 5 |   |   |   |   | 1 |   |   | 2 |   | 1 |   |   | 2 | 3 |   | 7 |
# mutation | 1 | 1 | 1 | 5 |   |   |   |   | 1 |   |   | 2 |   | 1 |   |   | 2 | 3 |   | 7 |
nonsynonymous SNV | 1 | 1 | 1 | 4 |   |   |   |   | 1 |   |   |   |   |   |   |   | 2 | 1 |   | 2 |
synonymous SNV |   |   |   | 1 |   |   |   |   |   |   |   | 2 |   | 1 |   |   |   | 2 |   | 5 |
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 |
chr9:95165630 | p.A20A,OGN | 2 |
chr9:95152322 | p.L148L,OGN | 2 |
chr9:95165623 | p.R147T,OGN | 1 |
chr9:95152321 | p.D112N,OGN | 1 |
chr9:95165647 | p.D110D,OGN | 1 |
chr9:95152326 | p.Y105C,OGN | 1 |
chr9:95165682 | p.P84P,OGN | 1 |
chr9:95147920 | p.E68E,OGN | 1 |
chr9:95155461 | p.P293P,OGN | 1 |
chr9:95147960 | p.I64L,OGN | 1 |
Other DBs for Point Mutations |
Copy Number for OGN 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 OGN |
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 |
ANGPTL1,ARR3,C8orf34,CCR3,CCR6,CHIA,COL14A1, DLC1,ECM2,IGF1,LAMA2,LHFP,LOC149620,LOC340508, MYBPC1,OGN,OMD,PODN,PROK1,SLC16A12,TUBAL3 | ADAMTS3,C11orf87,ACKR4___CX3CR1,CTSK,DCN,FAM46A,FKBP7, GALNT12,LTBP1,LUM,NT5E,OGN,OLFML1,OMD, PDGFRL,PROS1,PRRX1,PTGFR,RECK,TFPI,UST |
ABCB5,ADAMTS8,ADAMTSL3,ATP1A2,C2orf40,CHRDL1,CHRDL2, CMA1,COL14A1,FAM13C,FRMPD4,MGP,OGN,PCP4L1, POPDC2,RNF150,SCN2B,SCN7A,SDPR,SPARCL1,TLL1 | CHRDL1,DLG4,FAM13C,FGF13,GALNT16,GLT8D2,HTRA1, ISLR,JAM2,LHFP,LRFN5,LRRK2,NAP1L5,OGN, OLFML3,PAM,RBMS1,RIMKLB,STXBP1,TCEAL4,ZFPM2 |
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 OGN |
There's no related Drug. |
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Cross referenced IDs for OGN |
* 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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