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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 NR1I3
check button Gene summary
Basic gene informationGene symbolNR1I3
Gene namenuclear receptor subfamily 1, group I, member 3
SynonymsCAR|CAR1|MB67
CytomapUCSC genome browser: 1q23.3
Type of geneprotein-coding
RefGenesNM_001077469.2,
NM_001077470.2,NM_001077471.2,NM_001077472.2,NM_001077473.2,
NM_001077474.2,NM_001077475.2,NM_001077476.2,NM_001077477.2,
NM_001077478.2,NM_001077479.2,NM_001077480.2,NM_001077481.2,
NM_001077482.2,NM_005122.4,
Descriptionconstitutive activator of retinoid responseconstitutive active receptorconstitutive active responseconstitutive androstane nuclear receptor variant 2constitutive androstane nuclear receptor variant 3constitutive androstane nuclear receptor variant 4
Modification date20141211
dbXrefs MIM : 603881
HGNC : HGNC
Ensembl : ENSG00000143257
HPRD : 04858
Vega : OTTHUMG00000034347
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_NR1I3
BioGPS: 9970
PathwayNCI Pathway Interaction Database: NR1I3
KEGG: NR1I3
REACTOME: NR1I3
Pathway Commons: NR1I3
ContextiHOP: NR1I3
ligand binding site mutation search in PubMed: NR1I3
UCL Cancer Institute: NR1I3
Assigned class in TissGDB*B
Included tissue-specific gene expression resourcesHPA,TiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)KidneyLiver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)KIRC,KIRP,KICHLIHC
Reference showing the relevant tissue of NR1I3
Description by TissGene annotationsProtective TissGene in RFS
TissgsKTS
CNV lost TissGeneKTS
* 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:0045944positive regulation of transcription from RNA polymerase II promoter11114890
GO:0045944positive regulation of transcription from RNA polymerase II promoter11114890


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TissGeneExp for NR1I3

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
LIHC4.8850752456.708181245-1.8231062.18E-058.57E-05
KICH-1.2782607550.848423245-2.1266841.93E-066.96E-06
KIRP-1.271020631.53571062-2.806731253.44E-125.14E-11
KIRC-1.5949070890.768958189-2.3638652785.47E-193.92E-18


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TissGene-miRNA for NR1I3

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 NR1I3
TissGeneSNV for NR1I3

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.E54KSKCM2
p.F167SSARC1
p.R301*LUAD1
p.R183LCHOL1
p.R250QSKCM1
p.E200KSKCM1
p.R254QBLCA1
p.G332SSKCM1
p.E280KLUAD1
p.F167LUCEC1
p.D282NSKCM1
p.G280ESKCM1
p.M340KLUAD1
p.A50DLUAD1
p.D189NBLCA1
p.R183HLUAD1
p.R145KSARC1
p.A120VCOAD1
p.L293QKIRC1
p.C63YBLCA1
p.A25VREAD1
p.S42RLIHC1
p.G280RLUAD1
p.R61HUCEC1
p.K32NPRAD1
p.T116KSKCM1
p.L91IUCEC1
p.G241ESKCM1
p.G259SSKCM1
p.P331SUCEC1
p.G314ESKCM1
p.R123HREAD1
p.C31FLUAD1
p.A267PLIHC1
p.R308QUCEC1
p.F217LLUSC1
p.F129SUCEC1
p.R250QBLCA1
p.R310*BRCA1
p.R223HLGG1
p.D291NSKCM1
p.A99TSTAD1
p.P331SSTAD1
p.T122IGBM1
p.A336TSKCM1
p.Q110HSTAD1
p.K32TCHOL1
p.W96*SKCM1
p.E256KTGCT1
p.Y337HCOAD1
p.G232VBLCA1
p.E260KTGCT1
p.L206FPAAD1
p.S40CLUAD1
p.R329WUCEC1
p.L284QKIRC1
p.P234HSTAD1
p.A84TSTAD1
p.V232LCOAD1


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TissGeneCNV for NR1I3

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 NR1I3

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


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TissGeneNet for NR1I3

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)
BRCA (tumor)BRCA (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CYP3A4, ADH1B, SNX13 (tumor)NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, ADH1B, CYP2B6, SNX13 (normal)
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COAD (tumor)COAD (normal)
NR1I3, HNF4A, SRC, NR0B2, NCOA1, RARB, EP300, EIF3I, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, CYP3A4, POU1F1, ADH1B, CYP2B6, SNX13 (tumor)NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, NOS2, PPARGC1A, ALAS1, MED1, CYP2C9, CHD9, CYP3A4, POU1F1, ADH1B, CYP2B6, SNX13 (normal)
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HNSC (tumor)HNSC (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, POU1F1, ADH1B, CYP2B6, SNX13 (tumor)NR1I3, NR3C1, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, NOS2, SNRPD3, ALAS1, MED1, MAP4, CYP2C9, CHD9, CYP3A4, POU1F1, CYP2B6, SNX13 (normal)
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KICH (tumor)KICH (normal)
NR1I3, HNF4A, SRC, NR0B2, RXRA, RARB, EP300, EIF3I, FTH1, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, CYP3A4, ADH1B, CYP2B6, SNX13 (tumor)NR1I3, NR3C1, HNF4A, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, POU1F1, ADH1B, CYP2B6, SNX13 (normal)
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KIRC (tumor)KIRC (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, NOS2, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CYP3A4, POU1F1, ADH1B, CYP2B6 (tumor)NR1I3, NR3C1, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, NOS2, SNRPD3, PPARGC1A, MED1, MAP4, CYP2C9, CHD9, CYP3A4, ADH1B, CYP2B6, SNX13 (normal)
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KIRP (tumor)KIRP (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, FTH1, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, CYP2C9, CYP3A4, POU1F1, ADH1B, CYP2B6, SNX13 (tumor)NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, NOS2, SNRPD3, ALAS1, MED1, CYP2C9, CHD9, CYP3A4, POU1F1, CYP2B6, SNX13 (normal)
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LIHC (tumor)LIHC (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, FTH1, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, CYP3A4, ADH1B, SNX13 (tumor)NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, CYP3A4, ADH1B, CYP2B6, SNX13 (normal)
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LUAD (tumor)LUAD (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, NOS2, PPARGC1A, ALAS1, MED1, CYP2C9, CHD9, CYP3A4, ADH1B, CYP2B6, SNX13 (tumor)NR1I3, NR3C1, HNF4A, SRC, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, NOS2, SNRPD3, PPARGC1A, ALAS1, MAP4, CYP2C9, CHD9, CYP3A4, POU1F1, ADH1B, CYP2B6 (normal)
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LUSC (tumor)LUSC (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, NCOA1, RARB, EP300, EIF3I, FTH1, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, POU1F1, ADH1B, CYP2B6, SNX13 (tumor)NR1I3, NR3C1, NR0B2, RXRA, RARB, EP300, EIF3I, FTH1, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, CYP3A4, POU1F1, ADH1B, CYP2B6, SNX13 (normal)
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PRAD (tumor)PRAD (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, EP300, EIF3I, FTH1, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, CYP3A4, ADH1B, SNX13 (tumor)NR1I3, NR3C1, HNF4A, SRC, NR0B2, NCOA1, RARB, EP300, EIF3I, FTH1, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, CYP3A4, POU1F1, CYP2B6, SNX13 (normal)
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STAD (tumor)STAD (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, CYP2C9, CHD9, CYP3A4, POU1F1, ADH1B, CYP2B6 (tumor)NR1I3, NR3C1, HNF4A, NR0B2, RXRA, NCOA1, EP300, FTH1, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, CYP3A4, POU1F1, ADH1B, CYP2B6, SNX13 (normal)
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THCA (tumor)THCA (normal)
NR1I3, NR3C1, HNF4A, SRC, NR0B2, RXRA, NCOA1, RARB, EP300, EIF3I, FTH1, SNRPD3, PPARGC1A, ALAS1, MED1, CYP2C9, CHD9, CYP3A4, ADH1B, CYP2B6, SNX13 (tumor)NR1I3, NR3C1, HNF4A, NR0B2, RXRA, NCOA1, EP300, EIF3I, FTH1, NOS2, SNRPD3, PPARGC1A, ALAS1, MED1, MAP4, CYP2C9, CHD9, POU1F1, ADH1B, CYP2B6, SNX13 (normal)
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TissGeneProg for NR1I3

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 NR1I3
TissGeneDrug for NR1I3

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 NR1I3

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0023418leukemia8BeFree
umls:C0023903Liver neoplasms8BeFree,CTD_human
umls:C2239176Liver carcinoma7BeFree,LHGDN
umls:C0006142Malignant neoplasm of breast6BeFree
umls:C0678222Breast Carcinoma6BeFree
umls:C0005684Malignant neoplasm of urinary bladder5BeFree
umls:C0699885Carcinoma of bladder5BeFree
umls:C0023434Chronic Lymphocytic Leukemia4BeFree
umls:C0028754Obesity4BeFree,CTD_human
umls:C0029925Ovarian Carcinoma4BeFree
umls:C0280100Solid tumour4BeFree
umls:C0376358Malignant neoplasm of prostate4BeFree
umls:C0596263Carcinogenesis4BeFree
umls:C0600139Prostate carcinoma4BeFree
umls:C1140680Malignant neoplasm of ovary4BeFree
umls:C0002395Alzheimer's Disease3BeFree
umls:C0008370Cholestasis3BeFree
umls:C0009402Colorectal Carcinoma3BeFree
umls:C0019209Hepatomegaly3CTD_human
umls:C0023530Leukopenia3BeFree,GAD
umls:C0023904Liver Neoplasms, Experimental3CTD_human
umls:C0025517Metabolic Diseases3BeFree
umls:C0027819Neuroblastoma3BeFree
umls:C0342345Hypoparathyroidism - autosomal dominant3BeFree
umls:C0376545Hematologic Neoplasms3BeFree
umls:C0700095Central neuroblastoma3BeFree
umls:C1527249Colorectal Cancer3BeFree
umls:C0004114Astrocytoma2BeFree
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent2BeFree
umls:C0019348Herpes Simplex Infections2BeFree
umls:C0019693HIV Infections2BeFree
umls:C0020433Hyperbilirubinemia2BeFree
umls:C0020626Hypoparathyroidism2BeFree
umls:C0020676Hypothyroidism2BeFree
umls:C0023467Leukemia, Myelocytic, Acute2BeFree
umls:C0024299Lymphoma2BeFree
umls:C0025202melanoma2BeFree
umls:C0027947Neutropenia2BeFree,GAD
umls:C0032927Precancerous Conditions2CTD_human
umls:C0085110Severe Combined Immunodeficiency2BeFree
umls:C0860207Drug-Induced Liver Injury2CTD_human
umls:C1261473Sarcoma2BeFree
umls:C1292769Precursor B-cell lymphoblastic leukemia2BeFree
umls:C0001430Adenoma1BeFree
umls:C0003873Rheumatoid Arthritis1BeFree
umls:C0007102Malignant tumor of colon1BeFree
umls:C0007113Rectal Carcinoma1BeFree
umls:C0007193Cardiomyopathy, Dilated1BeFree
umls:C0008372Intrahepatic Cholestasis1BeFree
umls:C0011849Diabetes Mellitus1CTD_human
umls:C0011853Diabetes Mellitus, Experimental1RGD
umls:C0017638Glioma1BeFree
umls:C0019034Hemoglobin SC Disease1BeFree
umls:C0021051Immunologic Deficiency Syndromes1BeFree
umls:C0026764Multiple Myeloma1BeFree
umls:C0036690Septicemia1BeFree
umls:C0042769Virus Diseases1BeFree
umls:C0079731B-Cell Lymphomas1BeFree
umls:C0153381Malignant neoplasm of mouth1BeFree
umls:C0153676Secondary malignant neoplasm of lung1BeFree
umls:C0154251Lipid Metabolism Disorders1BeFree
umls:C0206669Hepatocellular Adenoma1CTD_human
umls:C0220641Lip and Oral Cavity Carcinoma1BeFree
umls:C0238461Anaplastic thyroid carcinoma1BeFree
umls:C0243026Sepsis1BeFree
umls:C0262587Parathyroid Adenoma1BeFree
umls:C0282528Peroxisomal Disorders1BeFree
umls:C0333186Restenosis1BeFree
umls:C0334634Malignant lymphoma, lymphocytic, intermediate differentiation, diffuse1BeFree
umls:C0524620Metabolic Syndrome X1CTD_human
umls:C0598935Tumor Initiation1BeFree
umls:C0699790Colon Carcinoma1BeFree
umls:C0751956Acute Cerebrovascular Accidents1BeFree
umls:C0854467Myelosuppression1BeFree
umls:C0857007Hyperbilirubinemia, Neonatal1BeFree
umls:C0860204Cholestatic liver disease1BeFree
umls:C1458155Mammary Neoplasms1GAD
umls:C1512409Hepatocarcinogenesis1BeFree
umls:C1519689Tumor Promotion1BeFree
umls:C1865868ALZHEIMER DISEASE 51BeFree