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 PIK3R1
Basic gene info.Gene symbolPIK3R1
Gene namephosphoinositide-3-kinase, regulatory subunit 1 (alpha)
SynonymsAGM7|GRB1|IMD36|p85|p85-ALPHA
CytomapUCSC genome browser: 5q13.1
Genomic locationchr5 :67586466-67597649
Type of geneprotein-coding
RefGenesNM_001242466.1,
NM_181504.3,NM_181523.2,NM_181524.1,
Ensembl idENSG00000145675
DescriptionPI3-kinase subunit p85-alphaPI3K regulatory subunit alphaphosphatidylinositol 3-kinase 85 kDa regulatory subunit alphaphosphatidylinositol 3-kinase regulatory subunit alphaphosphatidylinositol 3-kinase, regulatory subunit, polypeptide 1 (p85 alpha)ph
Modification date20141221
dbXrefs MIM : 171833
HGNC : HGNC
Ensembl : ENSG00000145675
HPRD : 01381
Vega : OTTHUMG00000131251
ProteinUniProt: P27986
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PIK3R1
BioGPS: 5295
Gene Expression Atlas: ENSG00000145675
The Human Protein Atlas: ENSG00000145675
PathwayNCI Pathway Interaction Database: PIK3R1
KEGG: PIK3R1
REACTOME: PIK3R1
ConsensusPathDB
Pathway Commons: PIK3R1
MetabolismMetaCyc: PIK3R1
HUMANCyc: PIK3R1
RegulationEnsembl's Regulation: ENSG00000145675
miRBase: chr5 :67,586,466-67,597,649
TargetScan: NM_001242466
cisRED: ENSG00000145675
ContextiHOP: PIK3R1
cancer metabolism search in PubMed: PIK3R1
UCL Cancer Institute: PIK3R1
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of PIK3R1 in cancer cell metabolism1. Hellwinkel OJ, Rogmann JP, Asong LE, Luebke AM, Eichelberg C, et al. (2008) A comprehensive analysis of transcript signatures of the phosphatidylinositol‐3 kinase/protein kinase B signal‐transduction pathway in prostate cancer. BJU international 101: 1454-1460. go to article

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Phenotypic Information for PIK3R1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: PIK3R1
Familial Cancer Database: PIK3R1
* 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 BRCA 6, GBM 7, UCEC 8, GBM 9,

Therapeutic Vulnerabilities in Cancer10

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,
6 http://www.nature.com/nature/journal/v490/n7418/full/nature11412.html,
7 http://www.sciencedirect.com/science/article/pii/S0092867413012087,
8 http://www.nature.com/nature/journal/v497/n7447/full/nature12113.html,
9 http://www.nejm.org/doi/full/10.1056/NEJMoa1402121,
10Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/

check002.gifMetabolic Pathway Description
KEGG_FC_GAMMA_R_MEDIATED_PHAGOCYTOSIS
REACTOME_PHOSPHOLIPID_METABOLISM
REACTOME_PI_METABOLISM
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM 171833; gene.
171833; gene.
269880; phenotype.
269880; phenotype.
615214; phenotype.
615214; phenotype.
Orphanet 3163; SHORT syndrome.
3163; SHORT syndrome.
33110; Autosomal agammaglobulinemia.
33110; Autosomal agammaglobulinemia.
DiseaseKEGG Disease: PIK3R1
MedGen: PIK3R1 (Human Medical Genetics with Condition)
ClinVar: PIK3R1
PhenotypeMGI: PIK3R1 (International Mouse Phenotyping Consortium)
PhenomicDB: PIK3R1

Mutations for PIK3R1
* 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
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'.
- 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
breastPIK3R1chr56758761167587611chr167474042174740421
central_nervous_systemPIK3R1chr56759060867590608chr56746599667465996
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 PIK3R1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BF849250LRCH16162134715536547155523PIK3R114444056759326867593562
BX648791NFIA1456016181742361821979PIK3R14560538656759336667594192
BU742563PIK3R1827856759429967594570PIK3R127265156759590067596280

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=13

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=251)
Stat. for Synonymous SNVs
(# total SNVs=27)
Stat. for Deletions
(# total SNVs=97)
Stat. for Insertions
(# total SNVs=31)

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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
chr5:67588951-67588951p.R348*22
chr5:67589138-67589138p.G376R12
chr5:67591106-67591106p.K567E8
chr5:67591097-67591097p.N564D7
chr5:67591086-67591086p.D560G7
chr5:67591246-67591246p.?7
chr5:67591125-67591125p.L573P6
chr5:67589628-67589628p.D464G6
chr5:67592108-67592108p.R642*6
chr5:67591128-67591128p.R574I6

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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=8

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample2914816 4 22 632  66127
# mutation2913511 4 23 632  66128
nonsynonymous SNV2812410 4 21 221  26125
synonymous SNV 1 111    2 411  4  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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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
chr5:67589138p.G13R,PIK3R18
chr5:67591097p.D101G,PIK3R17
chr5:67589628p.N201D,PIK3R17
chr5:67591086p.D197G,PIK3R15
chr5:67591125p.R211G,PIK3R13
chr5:67591127p.R140L,PIK3R13
chr5:67591106p.K204E,PIK3R13
chr5:67590446p.L210P,PIK3R13
chr5:67589614p.D185G,PIK3R12
chr5:67576771p.R286Q,PIK3R12

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 PIK3R1 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 PIK3R1

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

ARID5B,ARRDC3,ATF7,MIR99AHG,DST,FRMD4B,IQGAP2,
MTUS1,NUMB,PDZD2,PIK3R1,PJA2,PRDM2,RBMS3,
RFX7,SH3RF2,SP1,TLR3,TSHZ2,UTRN,YAP1
EPC2,FAM13B,FNBP1L,HPS5,GLTSCR1L,KANSL1,MAML2,
OGFRL1,PIK3R1,PLCB1,PUM1,RNF169,THUMPD1,TUG1,
ZNF136,ZNF197,ZNF268,ZNF430,ZNF677,ZNF84,ZZZ3

ARL15,ATAD2B,DNMT3A,FOXO3B,GDF10,GOLIM4,KCTD16,
KRT32,KRT38,MYL3,MYO10,NAV2,NCKAP5,NRXN3,
OLFML3,PHYHIPL,PIK3R1,PRSS23,STK38L,TP53BP1,UGT2A3
AP3B2,ATP2B3,ATXN1,CDH2,CNR1,CRMP1,DNAJC6,
DPYSL5,EZH1,GFRA1,LGI3,LIFR,NCAM2,PCDHA3,
JADE1,PIK3R1,PJA2,RBPJ,RNF38,SEZ6L,WDR47
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 PIK3R1
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
ChemistryBindingDB P27986; -.
ChemistryChEMBL CHEMBL2111367; -.
ChemistryBindingDB P27986; -.
ChemistryChEMBL CHEMBL2111367; -.
Organism-specific databasesPharmGKB PA33312; -.
Organism-specific databasesPharmGKB PA33312; -.
Organism-specific databasesCTD 5295; -.
Organism-specific databasesCTD 5295; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB01064phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedIsoproterenol
DB08059phosphoinositide-3-kinase, regulatory subunit 1 (alpha)experimental(1S,6BR,9AS,11R,11BR)-9A,11B-DIMETHYL-1-[(METHYLOXY)METHYL]-3,6,9-TRIOXO-1,6,6B,7,8,9,9A,10,11,11B-DECAHYDRO-3H-FURO[4,3,2-DE]INDENO[4,5-H][2]BENZOPYRAN-11-YL ACETATE
DB00171phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; nutraceuticalAdenosine triphosphate
DB00877phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; investigationalSirolimus
DB00122phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; nutraceuticalCholine
DB00394phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedBeclomethasone
DB00443phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedBetamethasone
DB01222phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; investigationalBudesonide
DB01410phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; investigationalCiclesonide
DB01260phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; investigationalDesonide
DB01234phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; investigationalDexamethasone
DB00180phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; investigationalFlunisolide
DB00588phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; investigationalFluticasone Propionate
DB00741phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedHydrocortisone
DB00959phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedMethylprednisolone
DB00764phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedMometasone
DB01384phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedParamethasone
DB00860phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedPrednisolone
DB00635phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedPrednisone
DB00896phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedRimexolone
DB00620phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedTriamcinolone
DB00131phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; nutraceuticalAdenosine monophosphate
DB00125phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; nutraceuticalL-Arginine
DB00155phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; nutraceuticalL-Citrulline
DB00435phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedNitric Oxide
DB00864phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approved; investigationalTacrolimus
DB00619phosphoinositide-3-kinase, regulatory subunit 1 (alpha)approvedImatinib


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Cross referenced IDs for PIK3R1
* 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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