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 RPL32
Basic gene info.Gene symbolRPL32
Gene nameribosomal protein L32
SynonymsL32
CytomapUCSC genome browser: 3p25-p24
Genomic locationchr3 :12876443-12881949
Type of geneprotein-coding
RefGenesNM_000994.3,
NM_001007073.1,NM_001007074.1,
Ensembl idENSG00000144713
Description60S ribosomal protein L32
Modification date20141207
dbXrefs HGNC : HGNC
Ensembl : ENSG00000144713
HPRD : 17995
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_RPL32
BioGPS: 6161
Gene Expression Atlas: ENSG00000144713
The Human Protein Atlas: ENSG00000144713
PathwayNCI Pathway Interaction Database: RPL32
KEGG: RPL32
REACTOME: RPL32
ConsensusPathDB
Pathway Commons: RPL32
MetabolismMetaCyc: RPL32
HUMANCyc: RPL32
RegulationEnsembl's Regulation: ENSG00000144713
miRBase: chr3 :12,876,443-12,881,949
TargetScan: NM_000994
cisRED: ENSG00000144713
ContextiHOP: RPL32
cancer metabolism search in PubMed: RPL32
UCL Cancer Institute: RPL32
Assigned class in ccmGDBC

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Phenotypic Information for RPL32(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: RPL32
Familial Cancer Database: RPL32
* 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
REACTOME_METABOLISM_OF_PROTEINS
REACTOME_METABOLISM_OF_MRNA
REACTOME_METABOLISM_OF_RNA

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: RPL32
MedGen: RPL32 (Human Medical Genetics with Condition)
ClinVar: RPL32
PhenotypeMGI: RPL32 (International Mouse Phenotyping Consortium)
PhenomicDB: RPL32

Mutations for RPL32
* 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 RPL32 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AA837061ASH1L1311155314966155315156RPL322259031287754812881706
AI343531RPL32111631287753912877654CA12112446156361752663618065
AA505147RPL325615231287754812877644SERPINA9143295149493585594936007
W48816RPL3219831287754812877645PPP2R1A94407195271633152719874

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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample1                
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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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=2

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=10)
Stat. for Synonymous SNVs
(# total SNVs=7)
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
chr3:12880903-12880903p.R75W2
chr3:12880966-12880966p.L54L2
chr3:12881657-12881657p.R27Q1
chr3:12877707-12877707p.E98E1
chr3:12881679-12881679p.F20L1
chr3:12880849-12880849p.K93*1
chr3:12881705-12881705p.K11R1
chr3:12881707-12881707p.P10P1
chr3:12880925-12880925p.K67K1
chr3:12881730-12881730p.A3T1

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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=1

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample1  32     111   2  1
# mutation1  32     111   2  1
nonsynonymous SNV   2      1 1   1   
synonymous SNV1  12      1    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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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
chr3:12881730p.I111I,RPL321
chr3:12880913p.E98E,RPL321
chr3:12880925p.P71P,RPL321
chr3:12880933p.K67K,RPL321
chr3:12880946p.K65E,RPL321
chr3:12880958p.Y60Y,RPL321
chr3:12880994p.P56P,RPL321
chr3:12881651p.R44S,RPL321
chr3:12881657p.V29A,RPL321
chr3:12881705p.R27Q,RPL321

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 RPL32 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 RPL32

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

RPL11,RPL12,RPL13,RPL14,RPL15,RPL18,RPL24,
RPL27A,RPL29,RPL32,RPL34,RPL35,RPL36,RPL37,
RPL37A,RPLP2,RPS11,RPS18,RPS2,RPS8,RPSA
RPL10,RPL12,RPL14,RPL23A,RPL24,RPL30,RPL32,
RPL35A,RPL37,RPL41,RPL4,RPL5,RPL6,RPS11,
RPS12,RPS23,RPS27A,RPS3A,RPS4X,RPS6,RPS7

EEF1B2,RPL10A,RPL14,RPL15,RPL24,RPL29,RPL32,
RPL35A,RPL37A,RPL7A,RPS10,RPS11,RPS13,RPS14,
RPS15A,RPS18,RPS25,RPS3,RPS6,RPSA,RPSAP58
EEF1A1,RPL10,RPL14,RPL15,RPL18,RPL19,RPL29,
RPL32,RPL38,RPL7A,RPL8,RPLP0,RPLP1,RPS10,
RPS11,RPS12,RPS13,RPS23,RPS3,RPS5,RPS8
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 RPL32


There's no related Drug.
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Cross referenced IDs for RPL32
* 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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