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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PI4K2B |
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Phenotypic Information for PI4K2B(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: PI4K2B |
Familial Cancer Database: PI4K2B |
* 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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REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_PI_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: PI4K2B |
MedGen: PI4K2B (Human Medical Genetics with Condition) | |
ClinVar: PI4K2B | |
Phenotype | MGI: PI4K2B (International Mouse Phenotyping Consortium) |
PhenomicDB: PI4K2B |
Mutations for PI4K2B |
* 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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- Statistics for Tissue and Mutation type | Top |
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- 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'. |
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Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | PI4K2B | chr4 | 25243686 | 25243706 | chr4 | 25219772 | 25219792 |
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) |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows PI4K2B 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 |
AW936523 | PI4K2B | 12 | 306 | 4 | 25255011 | 25255306 | PI4K2B | 302 | 558 | 4 | 25238182 | 25238438 |
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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=40) | (# total SNVs=4) |
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(# total SNVs=1) | (# 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 |
chr4:25262148-25262148 | p.R305G | 4 |
chr4:25256861-25256861 | p.H200Y | 2 |
chr4:25258231-25258231 | p.K231* | 2 |
chr4:25258233-25258233 | p.K231N | 2 |
chr4:25235801-25235801 | p.E6K | 2 |
chr4:25258269-25258269 | p.K243N | 1 |
chr4:25278772-25278772 | p.T470I | 1 |
chr4:25236017-25236017 | p.S78P | 1 |
chr4:25262185-25262185 | p.Q317R | 1 |
chr4:25256828-25256828 | p.E189K | 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 |   | 2 |   | 14 |   |   | 2 |   | 2 |   |   | 3 | 1 | 3 |   |   | 6 | 4 | 1 | 7 |
# mutation |   | 2 |   | 12 |   |   | 2 |   | 2 |   |   | 3 | 1 | 3 |   |   | 5 | 4 | 1 | 8 |
nonsynonymous SNV |   | 2 |   | 10 |   |   |   |   | 2 |   |   | 3 | 1 | 2 |   |   | 2 | 3 | 1 | 7 |
synonymous SNV |   |   |   | 2 |   |   | 2 |   |   |   |   |   |   | 1 |   |   | 3 | 1 |   | 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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* 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 |
chr4:25262148 | p.R305G | 4 |
chr4:25258233 | p.K231N | 3 |
chr4:25256832 | p.A190V | 2 |
chr4:25256861 | p.H200Y | 2 |
chr4:25258202 | p.A221V | 2 |
chr4:25262149 | p.G145C | 1 |
chr4:25254052 | p.L249P | 1 |
chr4:25270149 | p.N390S | 1 |
chr4:25258218 | p.L158P | 1 |
chr4:25262150 | p.Y263D | 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 PI4K2B |
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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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ACTR2,CLINT1,DCUN1D1,DHX15,KIAA1033,KLF3,MOB1A, NCAPG,PDS5A,PI4K2B,PPP1CB,PPP3R1,SCYL2,SEC24A, SLC30A6,SMC2,SMC5,SMEK2,STRN,TMPO,XPO1 | ABCE1,ABI1,C5orf28,CD47,DSC2,ETNK1,FBXO5, NUS1,OAT,PHF6,PI4K2B,PPAT,PRKCI,PRPF40A, RFC3,RNF138,PTBP3,TMEM123,TMPO,USP1,ZNF131 |
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CCNA2,COQ2,COX18,DCK,DEPDC1,DHX15,GRSF1, MAD2L1,NCAPG,NUP54,PACRGL,PDS5A,PGM2,PI4K2B, PPA2,RMI1,SLBP,SLC30A9,TMEM33,UBE2K,ZCCHC4 | ABCB10,AK2,C1GALT1,INIP,CXorf38,ERP44,GCH1, GSR,H2AFY,MGST2,MPDU1,NECAP1,OXNAD1,PI4K2B, PPP2R2A,RAB1A,RTCA,S100A14,TPD52,TSPAN8,ZBTB8OS |
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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 PI4K2B |
There's no related Drug. |
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Cross referenced IDs for PI4K2B |
* 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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