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 RPL26L1
Basic gene info.Gene symbolRPL26L1
Gene nameribosomal protein L26-like 1
SynonymsRPL26P1
CytomapUCSC genome browser: 5q35.1
Genomic locationchr5 :172386438-172396774
Type of geneprotein-coding
RefGenesNM_016093.2,
Ensembl idENSG00000037241
Description60S ribosomal protein L26-like 1ribosomal protein L26 homologribosomal protein L26 pseudogene 1
Modification date20141207
dbXrefs HGNC : HGNC
Ensembl : ENSG00000037241
HPRD : 17993
Vega : OTTHUMG00000130517
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_RPL26L1
BioGPS: 51121
Gene Expression Atlas: ENSG00000037241
The Human Protein Atlas: ENSG00000037241
PathwayNCI Pathway Interaction Database: RPL26L1
KEGG: RPL26L1
REACTOME: RPL26L1
ConsensusPathDB
Pathway Commons: RPL26L1
MetabolismMetaCyc: RPL26L1
HUMANCyc: RPL26L1
RegulationEnsembl's Regulation: ENSG00000037241
miRBase: chr5 :172,386,438-172,396,774
TargetScan: NM_016093
cisRED: ENSG00000037241
ContextiHOP: RPL26L1
cancer metabolism search in PubMed: RPL26L1
UCL Cancer Institute: RPL26L1
Assigned class in ccmGDBC

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Phenotypic Information for RPL26L1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: RPL26L1
Familial Cancer Database: RPL26L1
* 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: RPL26L1
MedGen: RPL26L1 (Human Medical Genetics with Condition)
ClinVar: RPL26L1
PhenotypeMGI: RPL26L1 (International Mouse Phenotyping Consortium)
PhenomicDB: RPL26L1

Mutations for RPL26L1
* 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 RPL26L1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

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=13)
Stat. for Synonymous SNVs
(# total SNVs=1)
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
chr5:172396461-172396461p.L119I3
chr5:172386886-172386886p.N4D2
chr5:172395521-172395521p.K76N2
chr5:172395553-172395553p.R87L2
chr5:172386880-172386880p.K2Q1
chr5:172396424-172396424p.I106I1
chr5:172386933-172386933p.F19F1
chr5:172396492-172396492p.G129A1
chr5:172386963-172386963p.I29I1
chr5:172396497-172396497p.E131*1

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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
# sample3     1 11  2   34 5
# mutation3     1 11  2   34 4
nonsynonymous SNV1     1 11  1   24 4
synonymous SNV2           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
chr5:172396461p.L119I3
chr5:172386880p.K2Q1
chr5:172395553p.E145K1
chr5:172386933p.F19F1
chr5:172396424p.I29I1
chr5:172386963p.S31P1
chr5:172386967p.P33T1
chr5:172396492p.E37D1
chr5:172386973p.R39W1
chr5:172396527p.Y74H1

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 RPL26L1 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 RPL26L1

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

ATP6V0E1,BNIP1,C14orf2,DDX41,HIGD2A,HNRNPAB,MRPL22,
MRPL28,MXD3,NDUFA2,NDUFAB1,NDUFB10,NDUFS6,NHP2,
NOP16,NUDCD2,PRELID1,RPL26L1,SRA1,TCEB2,PAM16
APOA1BP,C11orf31,COA3,CHCHD5,COA4,CNPY2,CUTA,
MRFAP1,MRPL17,MRPL52,NHP2,POLR2G,PRELID1,RANBP1,
RPL26L1,SNRPF,TXNDC17,UBE2I,UFC1,VPS25,WIBG

C19orf53,CCDC58,CCDC59,TMA7,GEMIN6,HSPE1,ICT1,
LSM3,MRPL22,MRPL36,MYEOV2,NDUFA2,NDUFAF2,NHP2,
NME1,NUDCD2,RPL26L1,SNRPG,TAF9,TBCA,UQCRQ
HYPK,CDC123,EBNA1BP2,EIF5AL1,EXOSC8,H2AFZ,ILF2,
MRPL52,NUP37,PFDN6,PREB,PSMA5,PSMD14,RAN,
RPL26L1,SEC61B,SNRNP40,SNRPD1,SNRPG,SSBP1,TOMM5
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 RPL26L1
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB02494ribosomal protein L26-like 1experimentalAlpha-Hydroxy-Beta-Phenyl-Propionic Acid
DB07374ribosomal protein L26-like 1experimentalANISOMYCIN
DB08437ribosomal protein L26-like 1experimentalPUROMYCIN


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Cross referenced IDs for RPL26L1
* 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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