Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for INPP5K
Basic gene info.Gene symbolINPP5K
Gene nameinositol polyphosphate-5-phosphatase K
SynonymsPPS|SKIP
CytomapUCSC genome browser: 17p13.3
Genomic locationchr17 :1397870-1420182
Type of geneprotein-coding
RefGenesNM_001135642.1,
NM_016532.3,NM_130766.2,
Ensembl idENSG00000132376
Descriptioninositol polyphosphate 5-phosphatase Kskeletal muscle and kidney-enriched inositol phosphatase
Modification date20141207
dbXrefs MIM : 607875
HGNC : HGNC
Ensembl : ENSG00000132376
HPRD : 08489
Vega : OTTHUMG00000150648
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_INPP5K
BioGPS: 51763
Gene Expression Atlas: ENSG00000132376
The Human Protein Atlas: ENSG00000132376
PathwayNCI Pathway Interaction Database: INPP5K
KEGG: INPP5K
REACTOME: INPP5K
ConsensusPathDB
Pathway Commons: INPP5K
MetabolismMetaCyc: INPP5K
HUMANCyc: INPP5K
RegulationEnsembl's Regulation: ENSG00000132376
miRBase: chr17 :1,397,870-1,420,182
TargetScan: NM_001135642
cisRED: ENSG00000132376
ContextiHOP: INPP5K
cancer metabolism search in PubMed: INPP5K
UCL Cancer Institute: INPP5K
Assigned class in ccmGDBC

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Phenotypic Information for INPP5K(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: INPP5K
Familial Cancer Database: INPP5K
* This gene is included in those cancer gene databases.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

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/

check002.gifMetabolic Pathway Description
KEGG_INOSITOL_PHOSPHATE_METABOLISM
REACTOME_PHOSPHOLIPID_METABOLISM
REACTOME_PI_METABOLISM
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: INPP5K
MedGen: INPP5K (Human Medical Genetics with Condition)
ClinVar: INPP5K
PhenotypeMGI: 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram

- Statistics for Tissue and Mutation typeTop
- 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'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
ovaryINPP5Kchr1713989901399010INPP5Kchr1714030571403077
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)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows INPP5K related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AI309778INPP5K11391714168011417251FBXO34124366145581917855819420

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

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check002.gifCopy 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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check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=18)
Stat. for Synonymous SNVs
(# total SNVs=17)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.There's no inserted snv.

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check002.gifTop 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 positionMutation(aa)Unique sampleID count
chr17:1401248-1401248p.S315S3
chr17:1401406-1401406p.R263C2
chr17:1417264-1417264p.V18V2
chr17:1419767-1419767p.P9P2
chr17:1412503-1412503p.G175R1
chr17:1399170-1399170p.P432S1
chr17:1416807-1416807p.A67A1
chr17:1401315-1401315p.F293S1
chr17:1412538-1412538p.H163R1
chr17:1399385-1399385p.R420H1

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check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample   112    1 121  2414
# mutation   112    1 121  2515
nonsynonymous SNV   8            25 2
synonymous SNV   32    1 121    13
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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check002.gifTop 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 PositionMutation(aa)Unique sampleID count
chr17:1401406p.R263C,INPP5K2
chr17:1416796p.P432S,INPP5K1
chr17:1399385p.D230A,INPP5K1
chr17:1401329p.R420H,INPP5K1
chr17:1416807p.H163R,INPP5K1
chr17:1399386p.R420C,INPP5K1
chr17:1401384p.P152L,INPP5K1
chr17:1416808p.E409E,INPP5K1
chr17:1399417p.V100V,INPP5K1
chr17:1416816p.G383E,INPP5K1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy 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

check002.gifGene 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.

check002.gifDifferential 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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check002.gifCNV 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
check002.gifCo-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

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
check002.gifCo-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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check002.gifInteracting 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 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

: Open all cross reference information



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