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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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TissGeneSummary

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TissGeneExp

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TissGene-miRNA

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TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

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TissGeneNet

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TissGeneProg

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TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for CYP26A1
check button Gene summary
Basic gene informationGene symbolCYP26A1
Gene namecytochrome P450, family 26, subfamily A, polypeptide 1
SynonymsCP26|CYP26|P450RAI|P450RAI1
CytomapUCSC genome browser: 10q23-q24
Type of geneprotein-coding
RefGenesNM_000783.3,
NM_057157.2,
DescriptionP450, retinoic acid-inactivating, 1cytochrome P450 26A1cytochrome P450 retinoic acid-inactivating 1cytochrome P450, subfamily XXVIA, polypeptide 1cytochrome P450RAIhP450RAIretinoic acid 4-hydroxylaseretinoic acid-metabolizing cytochrome
Modification date20141207
dbXrefs MIM : 602239
HGNC : HGNC
Ensembl : ENSG00000095596
HPRD : 03759
Vega : OTTHUMG00000018765
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CYP26A1
BioGPS: 1592
PathwayNCI Pathway Interaction Database: CYP26A1
KEGG: CYP26A1
REACTOME: CYP26A1
Pathway Commons: CYP26A1
ContextiHOP: CYP26A1
ligand binding site mutation search in PubMed: CYP26A1
UCL Cancer Institute: CYP26A1
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesHPA,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Liver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)LIHC
Reference showing the relevant tissue of CYP26A1
Description by TissGene annotations
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C.

check button Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO termPubMed ID
GO:0034653retinoic acid catabolic process10823918
GO:0034653retinoic acid catabolic process10823918


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TissGeneExp for CYP26A1

check button Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
gene exp


check button Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01)
gene isoform exp


check button Gene expressions across normal tissues of GTEx data
(GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct)
- Here, we shows the matched tissue types only among our 28 cancer types.
normal gene exp


check button Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
DEG exp

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)
Cancer typeMean(exp) in tumorMean(exp) in matched normalLog2FCP-val.FDR
LUSC1.973479568-1.6818067073.6552862753.02E-099.96E-09
LIHC0.241748945.50764094-5.2658921.22E-218.74E-20
THCA-1.261028043-2.3339704161.0729423731.07E-053.46E-05
LUAD-0.671713198-1.9465597491.2748465520.0004680.001071147
STAD-1.738185935-2.7716984351.03351250.0001380.001024297


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TissGene-miRNA for CYP26A1

check button Significantly anti-correlated miRNAs of TissGene across 28 cancer types
(Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016)
(TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21)
(TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16)
(Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25))
Cancer typemiRNA idmiRNA accessionP-val.Coeff.# samples


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TissGeneMut for CYP26A1
TissGeneSNV for CYP26A1

check button nsSNV counts per each loci.
Different colors of circles represent different cancer types. Circle size denotes number of samples.
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)

* Click on the image to enlarge it in a new window.
SNV lollipop
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check button Somatic nucleotide variants of TissGene across 28 cancer types
(X-axis: cancer type and Y-axis: % of mutated samples)
The numbers in parentheses are numbers of samples with mutation (nsSNVs).
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
SNV distribution

- nsSNVs sorted by frequency.
AAchangeCancer type# samples
p.R64WSTAD2
p.V322ILAML1
p.G76SKIRP1
p.D134NHNSC1
p.Y355CPAAD1
p.P424SUCEC1
p.R306QUCS1
p.Q255RHNSC1
p.H425YSKCM1
p.C12RLUAD1
p.G52EBLCA1
p.V142LLUAD1
p.G232RUCEC1
p.L125QHNSC1
p.A24VSTAD1
p.G204RSTAD1
p.E296KCESC1
p.R375QUCS1
p.W465RBRCA1
p.L459PSTAD1
p.E78KBLCA1
p.E193KLUAD1
p.G16RCOAD1
p.R106WSTAD1
p.R327*UCEC1
p.K338NBRCA1
p.A460VUCEC1
p.E446*UCEC1
p.G401RSKCM1
p.K331NUCEC1
p.R90LKIRP1
p.G7SKIRP1
p.L194QHNSC1
p.I287LCOAD1
p.Q324RHNSC1
p.T12MCOAD1
p.A176TPRAD1
p.L168RUCEC1
p.Y286CPAAD1
p.E227KSKCM1
p.L164PLUSC1
p.T473ISTAD1
p.R349QBLCA1
p.G135RSTAD1
p.R418*UCEC1
p.R418QBLCA1
p.G123DSTAD1
p.A460TSTAD1
p.T387ALUAD1
p.R98WSTAD1
p.E293QBLCA1
p.R191HSTAD1
p.S441TOV1
p.F222LUCEC1
p.R219HSTAD1
p.F153VCOAD1
p.W279RUCEC1
p.A358VSKCM1
p.A170ETGCT1
p.R365QUCEC1
p.E362QBLCA1
p.I31MBLCA1
p.E147KBLCA1


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TissGeneCNV for CYP26A1

check button Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples)
(TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16)
CNV


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TissGeneFusions for CYP26A1

check button Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)
DatabaseSrcCancer typeSampleFusion geneORF5'-gene BP3'-gene BP
Chimerdb3.0ChiTaRsNABE350062CYP26A1-DGCR2chr10:94833799chr22:19029387
Chimerdb3.0FusionScanESCATCGA-IG-A97I-01AEXOC6-CYP26A1In-Framechr10:94708136chr10:94834064
TCGAfusionPortalPRADABRCATCGA-E2-A576-01ANRBF2-CYP26A1In-frameChr10:64893260Chr10:94835583


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TissGeneNet for CYP26A1

check button Co-expressed gene networks based on protein-protein interaction data (CePIN)
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(PINA2 ppi data)


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TissGeneProg for CYP26A1

check button Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image to enlarge it in a new window.
survival 1

check button Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 2

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 3

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 4

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TissGeneClin for CYP26A1
TissGeneDrug for CYP26A1

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status


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TissGeneDisease for CYP26A1

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0023487Acute Promyelocytic Leukemia4BeFree
umls:C0006142Malignant neoplasm of breast3BeFree
umls:C0042842Vitamin A Deficiency3BeFree,GAD
umls:C0678222Breast Carcinoma3BeFree
umls:C1168401Squamous cell carcinoma of the head and neck3BeFree
umls:C0010278Craniosynostosis2BeFree
umls:C0080178Spina Bifida2BeFree,LHGDN
umls:C0001418Adenocarcinoma1BeFree,CTD_human
umls:C0001430Adenoma1BeFree
umls:C0002395Alzheimer's Disease1GAD
umls:C0003850Arteriosclerosis1BeFree
umls:C0004153Atherosclerosis1BeFree
umls:C0004763Barrett Esophagus1CTD_human
umls:C0009375Colonic Neoplasms1BeFree,CTD_human
umls:C0014175Endometriosis1CTD_human
umls:C0014859Esophageal Neoplasms1CTD_human
umls:C0017612Glaucoma, Open-Angle1GAD
umls:C0022658Kidney Diseases1GAD
umls:C0023418leukemia1BeFree
umls:C0024198Lyme Disease1BeFree
umls:C0027794Neural Tube Defects1GAD
umls:C0027819Neuroblastoma1BeFree
umls:C0032580Adenomatous Polyposis Coli1BeFree,CTD_human
umls:C0036341Schizophrenia1GAD
umls:C0038013Ankylosing spondylitis1BeFree
umls:C0263641Epithelial hyperplasia of skin1BeFree
umls:C0497327Dementia1GAD
umls:C0596263Carcinogenesis1BeFree
umls:C0684249Carcinoma of lung1BeFree
umls:C0700095Central neuroblastoma1BeFree
umls:C1561546Alkaline Phosphatase Adverse Event1GAD
umls:C1860042Antley-Bixler Syndrome with Disordered Steroidogenesis1BeFree
umls:C2745900Promyelocytic leukemia1BeFree