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 IPPK
Basic gene info.Gene symbolIPPK
Gene nameinositol 1,3,4,5,6-pentakisphosphate 2-kinase
SynonymsC9orf12|INSP5K2|IP5K|IPK1|bA476B13.1
CytomapUCSC genome browser: 9q22.31
Genomic locationchr9 :95375465-95432547
Type of geneprotein-coding
RefGenesNM_022755.5,
Ensembl idENSG00000127080
DescriptionIPK1 homologbA476B13.1 (novel protein)inositol-pentakisphosphate 2-kinaseins(1,3,4,5,6)P5 2-kinaseinsP5 2-kinase
Modification date20141207
dbXrefs HGNC : HGNC
Ensembl : ENSG00000127080
HPRD : 10799
Vega : OTTHUMG00000020231
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_IPPK
BioGPS: 64768
Gene Expression Atlas: ENSG00000127080
The Human Protein Atlas: ENSG00000127080
PathwayNCI Pathway Interaction Database: IPPK
KEGG: IPPK
REACTOME: IPPK
ConsensusPathDB
Pathway Commons: IPPK
MetabolismMetaCyc: IPPK
HUMANCyc: IPPK
RegulationEnsembl's Regulation: ENSG00000127080
miRBase: chr9 :95,375,465-95,432,547
TargetScan: NM_022755
cisRED: ENSG00000127080
ContextiHOP: IPPK
cancer metabolism search in PubMed: IPPK
UCL Cancer Institute: IPPK
Assigned class in ccmGDBC

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Phenotypic Information for IPPK(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: IPPK
Familial Cancer Database: IPPK
* 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

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: IPPK
MedGen: IPPK (Human Medical Genetics with Condition)
ClinVar: IPPK
PhenotypeMGI: IPPK (International Mouse Phenotyping Consortium)
PhenomicDB: IPPK

Mutations for IPPK
* 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
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows IPPK related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
CF595670CORO2A5679100934909100934971IPPK6541199539801495415281

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=24)
Stat. for Synonymous SNVs
(# total SNVs=7)
Stat. for Deletions
(# total SNVs=3)
Stat. for Insertions
(# total SNVs=0)
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
chr9:95378269-95378269p.D441H2
chr9:95397569-95397569p.S313L2
chr9:95405063-95405063p.S178R2
chr9:95400352-95400352p.P283A2
chr9:95400511-95400511p.W230R2
chr9:95420948-95420948p.R33W2
chr9:95397513-95397513p.L332M2
chr9:95432220-95432220p.N18fs*181
chr9:95400488-95400488p.L237L1
chr9:95403027-95403027p.L201L1

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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=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample22 81 1 2  112 135 1
# mutation22 71 1 2  112 137 2
nonsynonymous SNV2  51   2  112  26 2
synonymous SNV 2 2  1        111  
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
chr9:95400511p.W230R2
chr9:95400509p.S410S1
chr9:95411776p.Q176Q1
chr9:95378327p.I335I1
chr9:95411818p.M163R1
chr9:95381788p.S313L1
chr9:95400515p.C159Y1
chr9:95414916p.P283L1
chr9:95397502p.P145H1
chr9:95400522p.R277Q1

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 IPPK 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 IPPK

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

AUH,C9orf41,INIP,C9orf91,FAM120A,GLE1,IARS,
IPPK,KIAA0368,NAA35,NOL8,RAD23B,RASEF,RBM18,
RNF20,SECISBP2,SPTLC1,TDRD7,TSTD2,UBQLN1,WDR31
TMEM241,C3orf52,CDS1,CORO2A,DLG3,HDAC1,ILDR1,
IPPK,LMX1B,LRRC8E,MARVELD2,PIP4K2C,RAB11FIP4,RAB3IP,
RBM47,RUNDC1,SLC37A1,SLC4A5,STX3,TBC1D22B,ZNF544

ARPC5L,CEP78,DNAJC25,FANCC,FXN,GLE1,HIATL1,
IARS,IKBKAP,IPPK,MCM10,MELK,NUP188,ODF2,
PRPF4,RAD23B,RELT,SHCBP1,SLC31A1,SMC2,TRIM14
CDC25A,FUT4,IPPK,KCTD5,KLHL18,LRRC59,MCL1,
NOP2,NSUN2,PDE12,PHLDA2,PIGW,PSME3,PTPN1,
RDH13,SERPINB8,SRSF2,SRRT,TOMM40,TUBB4B,WDR4
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 IPPK


There's no related Drug.
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Cross referenced IDs for IPPK
* 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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