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 ABCC5
Basic gene info.Gene symbolABCC5
Gene nameATP-binding cassette, sub-family C (CFTR/MRP), member 5
SynonymsABC33|EST277145|MOAT-C|MOATC|MRP5|SMRP|pABC11
CytomapUCSC genome browser: 3q27
Genomic locationchr3 :183701540-183735727
Type of geneprotein-coding
RefGenesNM_001023587.1,
NM_005688.2,
Ensembl idENSG00000114770
DescriptionATP-binding cassette sub-family C member 5canalicular multispecific organic anion transporter Cmulti-specific organic anion transporter Cmultidrug resistance-associated protein 5
Modification date20141207
dbXrefs MIM : 605251
HGNC : HGNC
Ensembl : ENSG00000114770
HPRD : 06898
Vega : OTTHUMG00000156871
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ABCC5
BioGPS: 10057
Gene Expression Atlas: ENSG00000114770
The Human Protein Atlas: ENSG00000114770
PathwayNCI Pathway Interaction Database: ABCC5
KEGG: ABCC5
REACTOME: ABCC5
ConsensusPathDB
Pathway Commons: ABCC5
MetabolismMetaCyc: ABCC5
HUMANCyc: ABCC5
RegulationEnsembl's Regulation: ENSG00000114770
miRBase: chr3 :183,701,540-183,735,727
TargetScan: NM_001023587
cisRED: ENSG00000114770
ContextiHOP: ABCC5
cancer metabolism search in PubMed: ABCC5
UCL Cancer Institute: ABCC5
Assigned class in ccmGDBC

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Phenotypic Information for ABCC5(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ABCC5
Familial Cancer Database: ABCC5
* 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_HYALURONAN_METABOLISM
REACTOME_METABOLISM_OF_CARBOHYDRATES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: ABCC5
MedGen: ABCC5 (Human Medical Genetics with Condition)
ClinVar: ABCC5
PhenotypeMGI: ABCC5 (International Mouse Phenotyping Consortium)
PhenomicDB: ABCC5

Mutations for ABCC5
* 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 ABCC5 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BC007229ABCC515463183705558183732135TGFBI53412705135397183135399507
AW062626ABCC511003183638354183638453TSPAN1488149108227855182278612
CN409264ABCC52012303183643359183643388ATN12314721270453907045631

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 # sample        3        
GAIN (# sample)        3        
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=5

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=108)
Stat. for Synonymous SNVs
(# total SNVs=45)
Stat. for Deletions
(# total SNVs=7)
Stat. for Insertions
(# total SNVs=0)
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
chr3:183665257-183665257p.L1090fs*264
chr3:183665244-183665244p.A1094A3
chr3:183667646-183667646p.R1041H3
chr3:183699516-183699516p.Q382Q3
chr3:183639099-183639099p.V1435I2
chr3:183639117-183639117p.A1429T2
chr3:183705647-183705647p.R168*2
chr3:183700632-183700632p.G252A2
chr3:183667837-183667837p.I1007I2
chr3:183700635-183700635p.R251L2

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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
# sample551186 5 41 16115 1914114
# mutation551206 5 41 18155 1915123
nonsynonymous SNV441133 4 41 12113 1612113
synonymous SNV11 73 1    642  33 10
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
chr3:183639099p.I1007I2
chr3:183667837p.V1435I2
chr3:183689508p.R251Q2
chr3:183700635p.H1053N2
chr3:183667611p.R535L2
chr3:183665113p.L1315L1
chr3:183670874p.S272S1
chr3:183689601p.Q1138P1
chr3:183707056p.H82R,ABCC51
chr3:183667630p.G889G1

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 ABCC5 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 ABCC5

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

ABCC5,HECTD4,CACNG4,CCDC117,DNAJC14,EIF2B5,EPB41L5,
GPRC5A,KIAA0196,KIF3B,CERS6,MARVELD2,MKL2,KAT6B,
PIGX,RAB30,SAMD8,SENP2,SIX4,VPS8,WWP1
ABCC5,AURKA,BMP8A,RHPN1-AS1,EZH2,FAM111A,FBXO43,
GGA2,KDM2B,KNTC1,MTBP,MYO19,ORC6,OSBP2,
RIMKLA,SLC17A9,SYCP2,TRAF5,ZNF251,ZNF589,ZNF7

ABCC5,CCNL1,DVL3,FCHSD1,KIAA1407,L3MBTL1,LOC202181,
LOC220729,LOC91316,LPIN3,LY6G5B,NKTR,PHC3,PLXNB1,
RPL32P3,SNORA71E,STK36,TTC14,TTLL3,UCKL1-AS1,ZDHHC23
ABCC5,ANKRD36,BDP1,BTAF1,C17orf85,CEP290,CPSF7,
DNHD1,FAM156A,LOC202181,MEG3,NKTR,NXF1,OTUD3,
PRDM2,RBM5,SFSWAP,SIN3B,TAF1C,ZNF621,ZNF767P
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 ABCC5
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
DB00544ATP-binding cassette, sub-family C (CFTR/MRP), member 5approvedFluorouracil
DB01248ATP-binding cassette, sub-family C (CFTR/MRP), member 5approved; investigationalDocetaxel
DB00515ATP-binding cassette, sub-family C (CFTR/MRP), member 5approvedCisplatin
DB00441ATP-binding cassette, sub-family C (CFTR/MRP), member 5approvedGemcitabine
DB00203ATP-binding cassette, sub-family C (CFTR/MRP), member 5approved; investigationalSildenafil
DB01033ATP-binding cassette, sub-family C (CFTR/MRP), member 5approvedMercaptopurine
DB00352ATP-binding cassette, sub-family C (CFTR/MRP), member 5approvedThioguanine
DB00762ATP-binding cassette, sub-family C (CFTR/MRP), member 5approved; investigationalIrinotecan
DB00987ATP-binding cassette, sub-family C (CFTR/MRP), member 5approved; investigationalCytarabine
DB00741ATP-binding cassette, sub-family C (CFTR/MRP), member 5approvedHydrocortisone
DB00650ATP-binding cassette, sub-family C (CFTR/MRP), member 5approvedLeucovorin
DB00563ATP-binding cassette, sub-family C (CFTR/MRP), member 5approvedMethotrexate
DB01004ATP-binding cassette, sub-family C (CFTR/MRP), member 5approved; investigationalGanciclovir
DB00495ATP-binding cassette, sub-family C (CFTR/MRP), member 5approvedZidovudine


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Cross referenced IDs for ABCC5
* 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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