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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for COX15 |
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Phenotypic Information for COX15(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: COX15 |
Familial Cancer Database: COX15 |
* 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_PORPHYRIN_AND_CHLOROPHYLL_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: COX15 |
MedGen: COX15 (Human Medical Genetics with Condition) | |
ClinVar: COX15 | |
Phenotype | MGI: COX15 (International Mouse Phenotyping Consortium) |
PhenomicDB: COX15 |
Mutations for COX15 |
* 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 |
There's no inter-chromosomal structural variation. |
- 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 |
pancreas | COX15 | chr10 | 101486246 | 101486266 | CUTC | chr10 | 101495421 | 101495441 |
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 COX15 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 |
BI038422 | CD44 | 5 | 151 | 11 | 35194829 | 35194974 | COX15 | 151 | 392 | 10 | 101486747 | 101487274 | |
BF886586 | COX15 | 4 | 194 | 10 | 101486876 | 101489341 | TRAPPC4 | 182 | 313 | 11 | 118892467 | 118892598 |
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=24) | (# total SNVs=3) |
(# 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 |
chr10:101487249-101487249 | p.E115G | 3 |
chr10:101489326-101489326 | p.L86I | 2 |
chr10:101486818-101486818 | p.Y163Y | 1 |
chr10:101487299-101487299 | p.S98S | 1 |
chr10:101491804-101491804 | p.M1I | 1 |
chr10:101480791-101480791 | p.R262Q | 1 |
chr10:101486835-101486835 | p.L158I | 1 |
chr10:101487313-101487313 | p.E94K | 1 |
chr10:101483723-101483723 | p.P247L | 1 |
chr10:101486849-101486849 | p.R153Q | 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 |   | 8 |   |   | 2 |   | 2 |   |   | 1 | 1 | 1 |   |   | 4 | 7 |   | 4 |
# mutation | 1 | 1 |   | 7 |   |   | 2 |   | 2 |   |   | 2 | 1 | 1 |   |   | 3 | 8 |   | 4 |
nonsynonymous SNV | 1 | 1 |   | 5 |   |   | 2 |   | 2 |   |   | 2 |   | 1 |   |   | 3 | 5 |   | 3 |
synonymous SNV |   |   |   | 2 |   |   |   |   |   |   |   |   | 1 |   |   |   |   | 3 |   | 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 |
chr10:101487249 | p.R345L,COX15 | 3 |
chr10:101476172 | p.E115G,COX15 | 3 |
chr10:101489326 | p.L86I,COX15 | 2 |
chr10:101487248 | p.G228G,COX15 | 1 |
chr10:101489459 | p.T57A,COX15 | 1 |
chr10:101480789 | p.L196V,COX15 | 1 |
chr10:101489466 | p.S47S,COX15 | 1 |
chr10:101480791 | p.L190I,COX15 | 1 |
chr10:101487250 | p.G41G,COX15 | 1 |
chr10:101489475 | p.Y163Y,COX15 | 1 |
Other DBs for Point Mutations |
Copy Number for COX15 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 COX15 |
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 |
ATAD1,BLOC1S2,C10orf76,CHUK,COX15,CWF19L1,ERLIN1, FAM178A,FAM35A,GLUD1,GLUD2,HIF1AN,IDE,MARCH5, MMS19,OBFC1,PRDX3,TBC1D12,TCTN3,TM9SF3,TRUB1 | ARIH1,ATAD1,CCNG1,CNOT4,COPS2,COX15,DBT, DCTN4,DDX6,DYM,POLR2M___GCOM1,KLHL24,LRPPRC,NAA30, NBAS,PCMTD1,PPM1A,PTCD2,RMND5A,RPRD1A,TOMM70A |
ATP5B,BLOC1S2,TIMM21,C1QBP,COX15,DPCD,ECHS1, GHITM,GLUD1,GOT1,KLLN,MCAT,NDUFB8,NDUFV1, NOLC1,PGAM1,PRDX3,RNMTL1,SCO1,SUPV3L1,XPNPEP1 | AP1M2,BDH1,CLYBL,COX15,DTX4,EIF2AK1,ERBB2, ERBB3,KLF5,MARVELD2,OVOL1,PAFAH2,PGM1,PROSC, RNF170,SH3BGRL2,SIRT5,SUCLG2,TCEA3,TRAF3IP2,VAV3 |
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 COX15 |
There's no related Drug. |
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Cross referenced IDs for COX15 |
* 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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