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 FABP6
Basic gene info.Gene symbolFABP6
Gene namefatty acid binding protein 6, ileal
SynonymsI-15P|I-BABP|I-BALB|I-BAP|ILBP|ILBP3|ILLBP
CytomapUCSC genome browser: 5q33.3-q34
Genomic locationchr5 :159626047-159665729
Type of geneprotein-coding
RefGenesNM_001040442.1,
NM_001130958.1,NM_001445.2,
Ensembl idENSG00000170231
DescriptionGTgastrotropinileal bile acid binding proteinileal lipid-binding proteinilleal lipid-binding proteinintestinal 15 kDa protein
Modification date20141207
dbXrefs MIM : 600422
HGNC : HGNC
Ensembl : ENSG00000170231
HPRD : 02689
Vega : OTTHUMG00000130329
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_FABP6
BioGPS: 2172
Gene Expression Atlas: ENSG00000170231
The Human Protein Atlas: ENSG00000170231
PathwayNCI Pathway Interaction Database: FABP6
KEGG: FABP6
REACTOME: FABP6
ConsensusPathDB
Pathway Commons: FABP6
MetabolismMetaCyc: FABP6
HUMANCyc: FABP6
RegulationEnsembl's Regulation: ENSG00000170231
miRBase: chr5 :159,626,047-159,665,729
TargetScan: NM_001040442
cisRED: ENSG00000170231
ContextiHOP: FABP6
cancer metabolism search in PubMed: FABP6
UCL Cancer Institute: FABP6
Assigned class in ccmGDBC

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Phenotypic Information for FABP6(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: FABP6
Familial Cancer Database: FABP6
* 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_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: FABP6
MedGen: FABP6 (Human Medical Genetics with Condition)
ClinVar: FABP6
PhenotypeMGI: FABP6 (International Mouse Phenotyping Consortium)
PhenomicDB: FABP6

Mutations for FABP6
* 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 FABP6 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
DB067617FABP613575159624751159640827CRK3555071713402991340451

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 # sample2                
GAIN (# sample)                 
LOSS (# sample)2                
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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=16)
Stat. for Synonymous SNVs
(# total SNVs=6)
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
chr5:159656585-159656585p.F7L3
chr5:159659148-159659148p.I37I3
chr5:159661872-159661872p.N97Y2
chr5:159661892-159661892p.E103D2
chr5:159659203-159659203p.G56W2
chr5:159656578-159656578p.G5D2
chr5:159659253-159659253p.I72M1
chr5:159656619-159656619p.M19L1
chr5:159661834-159661834p.V84A1
chr5:159659125-159659125p.E30K1

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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=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample 1 41 1 1  22   34 3
# mutation 1 41 1 1  22   34 3
nonsynonymous SNV 1 21 1 1  11    3 2
synonymous SNV   2       11   31 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
chr5:159656578p.E103E,FABP62
chr5:159661892p.G5D,FABP62
chr5:159640768p.C26Y,FABP61
chr5:159659203p.R37I,FABP61
chr5:159640801p.I104I,FABP61
chr5:159659229p.H42L,FABP61
chr5:159640816p.G117G,FABP61
chr5:159659239p.G44R,FABP61
chr5:159640821p.F7F,FABP61
chr5:159661850p.M19L,FABP61

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 FABP6 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 FABP6

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

AADAT,ABCC12,ACE2,ANKRD26P1,C2orf83,CELP,CKMT2,
CSAG1,CSTB,FABP6,GGT1,GGTLC1,GGTLC2,H2AFB1,
H2BFWT,LCN15,LYZL4,PLA2G4E,SLED1,SSX4,SSX6
ADH7,CLPSL2,CALML3,DLX1,DNAJB3,ETNK2,FABP6,
FAM81B,HMGB4,KRT13,KRTAP15-1,LOC286359,MRFAP1,OR10G8,
OR4P4,PNMT,PTHLH,SLC18A3,SLC39A11,TNFSF11,TSPAN1

C12orf45,MAPKAPK5-AS1,C12orf73,SWSAP1,SMIM15,CCNH,FABP6,
MED7,METTL5,MFF,MTERF2,NACA,NDUFAF2,PDCD5,
POC5,QTRT1,TAF7,TBCA,TTC1,ZNF443,ZNF799
AADAC,APOA1,APOA4,APOC3,C17orf78,CRISP1,FABP6,
FAM99A,FAM99B,GSTA5,KCNJ13,LCE3E,LOC388428,MOS,
ONECUT3,OR10H1,OR10H5,OR4N5,PWAR4___F2RL3___PAWR,SLC2A2,SPANXN3
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 FABP6
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
DB02659fatty acid binding protein 6, ilealexperimentalCholic Acid
DB02691fatty acid binding protein 6, ilealexperimentalN-Cholylglycine
DB04348fatty acid binding protein 6, ilealexperimentalTaurocholic Acid
DB00145fatty acid binding protein 6, ilealapproved; nutraceuticalGlycine


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Cross referenced IDs for FABP6
* 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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