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 RPL37A
Basic gene info.Gene symbolRPL37A
Gene nameribosomal protein L37a
SynonymsL37A
CytomapUCSC genome browser: 2q35
Genomic locationchr2 :217363519-217366188
Type of geneprotein-coding
RefGenesNM_000998.4,
Ensembl idENSG00000197756
Description60S ribosomal protein L37a
Modification date20141207
dbXrefs MIM : 613314
HGNC : HGNC
HPRD : 17997
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_RPL37A
BioGPS: 6168
Gene Expression Atlas: ENSG00000197756
The Human Protein Atlas: ENSG00000197756
PathwayNCI Pathway Interaction Database: RPL37A
KEGG: RPL37A
REACTOME: RPL37A
ConsensusPathDB
Pathway Commons: RPL37A
MetabolismMetaCyc: RPL37A
HUMANCyc: RPL37A
RegulationEnsembl's Regulation: ENSG00000197756
miRBase: chr2 :217,363,519-217,366,188
TargetScan: NM_000998
cisRED: ENSG00000197756
ContextiHOP: RPL37A
cancer metabolism search in PubMed: RPL37A
UCL Cancer Institute: RPL37A
Assigned class in ccmGDBC

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Phenotypic Information for RPL37A(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: RPL37A
Familial Cancer Database: RPL37A
* 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: RPL37A
MedGen: RPL37A (Human Medical Genetics with Condition)
ClinVar: RPL37A
PhenotypeMGI: RPL37A (International Mouse Phenotyping Consortium)
PhenomicDB: RPL37A

Mutations for RPL37A
* 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 RPL37A related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
CD365929RPL37A121332217366069217366190HCK130658203065952230671812
AW246883RPL37A73472217363991217366190CBX6345477223926227339262405
BG478185PRPF822091715818111582127RPL37A2035472217363988217366190
BU954401RPL37A73752217363568217366187MYL6376472125655391356554103
BQ227726RPL37A13482217363589217366187PPIA34943274483942644840921
AK001254CCDC88A1220425552293755555532RPL37A220322912217366095217366183
DR759675RPL37A1722217363588217364051DHX577286823902543039046202
AA631668RPL37A202152217364685217366190KLHL122113271202887306202887422
CD049225RPL37A10882217366106217366184EIF4A1898891774776057480964
BC000136DNM1L223143123285434632897354RPL37A312632132217366103217366190

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=8)
Stat. for Synonymous SNVs
(# total SNVs=2)
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
chr2:217364706-217364706p.H56R2
chr2:217364070-217364070p.K27N1
chr2:217364099-217364099p.Y37S1
chr2:217364108-217364108p.S40C1
chr2:217364692-217364692p.A51A1
chr2:217364707-217364707p.H56H1
chr2:217364716-217364716p.S59S1
chr2:217364733-217364733p.A65D1
chr2:217366081-217366081p.T78M1
chr2:217366090-217366090p.S81F1

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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
# sample   2  1  1   1   2 1
# mutation   1  1  1   1   2 1
nonsynonymous SNV   1  1            1
synonymous SNV         1   1   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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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
chr2:217364706p.H56R2
chr2:217364099p.R23W1
chr2:217364692p.Y37S1
chr2:217364707p.A51A1
chr2:217364716p.H56H1
chr2:217364725p.S59S1
chr2:217366124p.K62N1
chr2:217364056p.Q92Q1

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 RPL37A 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 RPL37A

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,RPL13,RPL18,RPL24,RPL27A,RPL28,RPL29,
RPL31,RPL32,RPL35,RPL36,RPL37,RPL37A,RPLP2,
RPS10,RPS11,RPS14,RPS15,RPS19,RPS8,RPS9
PHB2,RPL10,RPL13,RPL14,RPL18,RPL18A,RPL19,
RPL29,RPL32,RPL35,RPL37,RPL37A,RPL4,RPS11,
RPS12,RPS14,RPS16,RPS21,RPS23,RPS6,RPS8

EEF1B2,RPL10A,RPL12,RPL14,RPL29,RPL31,RPL32,
RPL35A,RPL36,RPL37,RPL37A,RPL38,RPL7A,RPS13,
RPS17,RPS18,RPS23,RPS25,RPS27A,RPS6,RPS7
RPL18,RPL18A,RPL19,RPL32,RPL36,RPL37,RPL37A,
RPL38,RPL7A,RPL8,RPLP0,RPLP1,RPS10,RPS12,
RPS16,RPS19,RPS21,RPS23,RPS29,RPS3,RPS9
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 RPL37A


There's no related Drug.
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Cross referenced IDs for RPL37A
* 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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