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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PIP4K2C |
Basic gene info. | Gene symbol | PIP4K2C |
Gene name | phosphatidylinositol-5-phosphate 4-kinase, type II, gamma | |
Synonyms | PIP5K2C | |
Cytomap | UCSC genome browser: 12q13.3 | |
Genomic location | chr12 :57984941-57997211 | |
Type of gene | protein-coding | |
RefGenes | NM_001146258.1, NM_001146259.1,NM_001146260.1,NM_024779.4, | |
Ensembl id | ENSG00000166908 | |
Description | PI(5)P 4-kinase type II gammaPIP4KII-gammaphosphatidylinositol 4-phosphate 5-kinasephosphatidylinositol 5-phosphate 4-kinase type II gammaphosphatidylinositol 5-phosphate 4-kinase type-2 gammaphosphatidylinositol-4-phosphate 5-kinase, type II, gamma | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000166908 | ||
HPRD : 15138 | ||
Vega : OTTHUMG00000170144 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PIP4K2C | |
BioGPS: 79837 | ||
Gene Expression Atlas: ENSG00000166908 | ||
The Human Protein Atlas: ENSG00000166908 | ||
Pathway | NCI Pathway Interaction Database: PIP4K2C | |
KEGG: PIP4K2C | ||
REACTOME: PIP4K2C | ||
ConsensusPathDB | ||
Pathway Commons: PIP4K2C | ||
Metabolism | MetaCyc: PIP4K2C | |
HUMANCyc: PIP4K2C | ||
Regulation | Ensembl's Regulation: ENSG00000166908 | |
miRBase: chr12 :57,984,941-57,997,211 | ||
TargetScan: NM_001146258 | ||
cisRED: ENSG00000166908 | ||
Context | iHOP: PIP4K2C | |
cancer metabolism search in PubMed: PIP4K2C | ||
UCL Cancer Institute: PIP4K2C | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for PIP4K2C(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: PIP4K2C |
Familial Cancer Database: PIP4K2C |
* 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/ |
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KEGG_INOSITOL_PHOSPHATE_METABOLISM |
Mutations for PIP4K2C |
* 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. |
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There's no structural variation information in COSMIC data for this gene. |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows PIP4K2C 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 |
AW606546 | PIP4K2C | 7 | 194 | 12 | 57994170 | 57994730 | MIEN1 | 191 | 428 | 17 | 37885508 | 37885744 |
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Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   | |||
GAIN (# sample) |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   | |||
LOSS (# sample) |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract) |
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Stat. for Non-Synonymous SNVs (# total SNVs=37) | (# total SNVs=9) |
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(# total SNVs=3) | (# total SNVs=0) |
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* 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 |
chr12:57988969-57988969 | p.L111L | 2 |
chr12:57988971-57988971 | p.R112H | 2 |
chr12:57994645-57994645 | p.D289Y | 2 |
chr12:57992945-57992945 | p.R204H | 2 |
chr12:57994176-57994176 | p.E257K | 2 |
chr12:57987869-57987869 | p.S79N | 2 |
chr12:57989809-57989809 | p.H170Y | 1 |
chr12:57994848-57994848 | p.I356M | 1 |
chr12:57993209-57993209 | p.S229S | 1 |
chr12:57985204-57985204 | p.A44A | 1 |
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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 | 5 | 3 | 1 | 4 | 3 |   | 2 |   | 3 |   |   | 7 | 3 |   |   |   | 5 | 3 | 1 | 2 |
# mutation | 5 | 3 | 1 | 3 | 4 |   | 2 |   | 3 |   |   | 9 | 3 |   |   |   | 6 | 3 | 1 | 3 |
nonsynonymous SNV | 3 | 3 | 1 | 3 | 4 |   | 1 |   | 1 |   |   | 4 | 2 |   |   |   | 2 | 1 | 1 | 3 |
synonymous SNV | 2 |   |   |   |   |   | 1 |   | 2 |   |   | 5 | 1 |   |   |   | 4 | 2 |   |   |
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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* 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 |
chr12:57988951 | p.R156H,PIP4K2C | 2 |
chr12:57992919 | p.P105P,PIP4K2C | 2 |
chr12:57992945 | p.N147K,PIP4K2C | 2 |
chr12:57993187 | p.V254M,PIP4K2C | 1 |
chr12:57994654 | p.K81R,PIP4K2C | 1 |
chr12:57987869 | p.L163F,PIP4K2C | 1 |
chr12:57989791 | p.T279T,PIP4K2C | 1 |
chr12:57993195 | p.F89F,PIP4K2C | 1 |
chr12:57994655 | p.K168K,PIP4K2C | 1 |
chr12:57987870 | p.R292R,PIP4K2C | 1 |
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* 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. |
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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 PIP4K2C |
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* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
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* 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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* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
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* 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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ARF3,CCDC172,C12orf66,CDK4,CTDSP2,DCTN2,DNAJC14, METTL21B,LARP4,LOC285954,MARCH9,MARS,METTL1,NECAP1, OR4D6,OR5A1,OS9,PIP4K2C,RAB5B,TSFM,TSPAN31 | C11orf80,TMEM241,KDF1,C3orf14,CDH1,CDS1,DLG3, ESRP1,ESRP2,FAM174B,GRHL2,HDAC1,HHAT,ILDR1, MAP7,MARVELD2,PIP4K2C,PTPLAD1,SAMD12,SEC23B,STX3 |
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ARF3,CDA,CDKN2B,DHRS9,DUSP5,EMP1,EPHB6, GJB4,ITGA3,LAMA3,LAMB3,LRRC8A,MFSD5,MMP28, OASL,PIP4K2C,PXN,RSAD2,TGFA,TICAM1,TMEM127 | CAB39,CEACAM5,CGN,CLCN2,CTNND1,ELF4,ABHD17C, GCNT3,GNA13,KIF16B,LRRC1,MARK2,NR3C2,OSBPL2, PDCD6IP,PIP4K2C,PIP5K1B,RBM47,SPATS2L,STX3,WIPF2 |
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* 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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Pharmacological Information for PIP4K2C |
There's no related Drug. |
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Cross referenced IDs for PIP4K2C |
* 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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