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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for INPP5K |
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Phenotypic Information for INPP5K(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: INPP5K |
Familial Cancer Database: INPP5K |
* This gene is included in those cancer gene databases. |
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 REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_PI_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: INPP5K |
MedGen: INPP5K (Human Medical Genetics with Condition) | |
ClinVar: INPP5K | |
Phenotype | MGI: INPP5K (International Mouse Phenotyping Consortium) |
PhenomicDB: INPP5K |
Mutations for INPP5K |
* 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 |
ovary | INPP5K | chr17 | 1398990 | 1399010 | INPP5K | chr17 | 1403057 | 1403077 |
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 INPP5K 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 |
AI309778 | INPP5K | 1 | 139 | 17 | 1416801 | 1417251 | FBXO34 | 124 | 366 | 14 | 55819178 | 55819420 |
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=18) | (# total SNVs=17) |
(# 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 |
chr17:1401248-1401248 | p.S315S | 3 |
chr17:1417264-1417264 | p.V18V | 2 |
chr17:1419767-1419767 | p.P9P | 2 |
chr17:1401406-1401406 | p.R263C | 2 |
chr17:1410318-1410318 | p.P244P | 1 |
chr17:1413014-1413014 | p.S114F | 1 |
chr17:1400005-1400005 | p.T352T | 1 |
chr17:1417212-1417212 | p.L36F | 1 |
chr17:1410355-1410355 | p.L232P | 1 |
chr17:1413055-1413055 | p.V100V | 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 |   |   |   | 11 | 2 |   |   |   |   | 1 |   | 1 | 2 | 1 |   |   | 2 | 4 | 1 | 4 |
# mutation |   |   |   | 11 | 2 |   |   |   |   | 1 |   | 1 | 2 | 1 |   |   | 2 | 5 | 1 | 5 |
nonsynonymous SNV |   |   |   | 8 |   |   |   |   |   |   |   |   |   |   |   |   | 2 | 5 |   | 2 |
synonymous SNV |   |   |   | 3 | 2 |   |   |   |   | 1 |   | 1 | 2 | 1 |   |   |   |   | 1 | 3 |
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 |
chr17:1401406 | p.R263C,INPP5K | 2 |
chr17:1410361 | p.G307S,INPP5K | 1 |
chr17:1417237 | p.S64S | 1 |
chr17:1400056 | p.F293S,INPP5K | 1 |
chr17:1412538 | p.L38M | 1 |
chr17:1417245 | p.A290A,INPP5K | 1 |
chr17:1401243 | p.A27A | 1 |
chr17:1412571 | p.P288P,INPP5K | 1 |
chr17:1417264 | p.S25A | 1 |
chr17:1401248 | p.R270H,INPP5K | 1 |
Other DBs for Point Mutations |
Copy Number for INPP5K 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 INPP5K |
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 |
C17orf59,ELP5,CAMTA2,DPH1,CTDNEP1,GABARAP,GLOD4, GPS2,INPP5K,MED11,MYO1C,OVCA2,RANGRF,RNF167, RNMTL1,SAT2,SLC25A11,SPAG7,TIMM22,TMEM102,VAMP2 | AIFM2,ANXA6,FAM213A,CALB2,EHD2,EPHX1,GPX4, INPP5K,ITGA7,ITPK1,LIPE,MYO1C,PLA2G16,RDH5, RETSAT,RRAS,ST6GALNAC6,TESK1,TFE3,VEGFB,VTI1B |
ABTB1,C17orf59,CAMTA2,CRK,CXCL16,DPH1,FLII, FXR2,GABARAP,INPP5K,MINK1,MYO1C,NDEL1,NR1H2, PAFAH1B1,PLD2,psiTPTE22,RILP,RNF167,MIEF2,SMG6 | ACOT8,ASB13,B3GALT4,B3GNT8,KDF1,C2orf68,CTDSP1, CTSD,FAM134A,FCGRT,GPATCH3,INPP5K,KLC4,LCMT1, MKNK2,MPND,OAF,PMM1,PRRG2,USP30,VIPR1 |
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 INPP5K |
There's no related Drug. |
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Cross referenced IDs for INPP5K |
* 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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