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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 CASP9
check button Gene summary
Basic gene informationGene symbolCASP9
Gene namecaspase 9, apoptosis-related cysteine peptidase
SynonymsAPAF-3|APAF3|ICE-LAP6|MCH6|PPP1R56
CytomapUCSC genome browser: 1p36.21
Type of geneprotein-coding
RefGenesNM_001229.4,
NM_001278054.1,NM_032996.3,NR_102732.1,NR_102733.1,
DescriptionICE-like apoptotic protease 6apoptotic protease MCH-6apoptotic protease activating factor 3caspase-9protein phosphatase 1, regulatory subunit 56
Modification date20141207
dbXrefs MIM : 602234
HGNC : HGNC
Ensembl : ENSG00000132906
HPRD : 03756
Vega : OTTHUMG00000002256
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CASP9
BioGPS: 842
PathwayNCI Pathway Interaction Database: CASP9
KEGG: CASP9
REACTOME: CASP9
Pathway Commons: CASP9
ContextiHOP: CASP9
ligand binding site mutation search in PubMed: CASP9
UCL Cancer Institute: CASP9
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesTiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)CervixOvary
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)CESCOV
Reference showing the relevant tissue of CASP9
Description by TissGene annotationsCancer gene
Have significant anti-correlated miRNA
TissgsLTS
* 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:0006974cellular response to DNA damage stimulus15657060
GO:0034644cellular response to UV15657060
GO:0042770signal transduction in response to DNA damage15657060
GO:0006974cellular response to DNA damage stimulus15657060
GO:0034644cellular response to UV15657060
GO:0042770signal transduction in response to DNA damage15657060


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TissGeneExp for CASP9

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
KICH0.2952593881.690327388-1.3950684.63E-147.14E-13


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TissGene-miRNA for CASP9

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
ACChsa-miR-526b-3pMIMAT00028360.016-0.2778
ACChsa-miR-526b-3pMIMAT00028360.016-0.2778
LUADhsa-miR-20a-5pMIMAT00000750.03-0.2860
LUADhsa-miR-186-5pMIMAT00004560.026-0.2960
LUADhsa-miR-17-5pMIMAT00000700.022-0.360


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TissGeneMut for CASP9
TissGeneSNV for CASP9

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.A28VCOAD6
p.R65PLUSC1
p.V109LGBM1
p.E114DBLCA1
p.S307FSKCM1
p.G205VLUAD1
p.D330EOV1
p.L58RLUAD1
p.E174*CESC1
p.R108WCOAD1
p.P71SSKCM1
p.S224FSKCM1
p.R65LLUSC1
p.T337ALUSC1
p.S133FKIRP1
p.G101SBRCA1
p.V169MLUAD1
p.R180HUCEC1
p.G137SSTAD1
p.G252SSTAD1
p.P30SCOAD1
p.D83YPRAD1
p.K278NLUAD1
p.G238SSTAD1
p.L214MPAAD1
p.R52WHNSC1
p.D53YBLCA1
p.R191QESCA1
p.W291RCOAD1
p.Q373HLUAD1
p.R95CCOAD1
p.I341VLIHC1
p.G81DUCEC1
p.R65QBLCA1
p.G134VLUAD1
p.V343MUCEC1
p.R180HSTAD1
p.G255RBLCA1


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TissGeneCNV for CASP9

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 CASP9

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
Chimerdb3.0FusionScanSARCTCGA-K1-A3PO-01ASCMH1-CASP95'UTR-5'UTRchr1:41707730chr1:15844890


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TissGeneNet for CASP9

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)
CASP9, GMEB1, CASP10, MAP2K1, LGALS3, ILK, DSP, KRT17, MAPK3, SRF, CAPN2, PRKCZ, HSD17B4, GJB3, VIM, DIABLO, CASP2, NLRP1, GZMB, CARD8, HIP1 (tumor)CASP9, CASP3, MAPK1, BIRC6, LYN, APAF1, BIRC2, EP300, AKT1, DSP, MAPK3, MAP2K2, CYCS, PRKCZ, HSPD1, HSD17B4, GJB3, BIRC5, CASP2, EFHD2, PTCH1 (normal)
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COAD (tumor)COAD (normal)
CASP9, CASP3, BCL2L1, GMEB1, LGALS3, BIRC2, AKT1, ILK, BCL10, MAPK3, SRF, MAP2K2, PRKCZ, GNAS, DCC, VIM, CASP7, EFHD2, CARD8, HIP1, C20orf166 (tumor)CASP9, UBC, GMEB1, CASP10, EP300, AKT1, RNF2, DSP, BCL10, MAPK3, CYCS, CAPN2, PRKCZ, HSPD1, HSD17B4, GJB3, GNAS, BIRC5, CASP7, EFHD2, NLRP1 (normal)
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HNSC (tumor)HNSC (normal)
CASP9, CASP3, UBC, GMEB1, MAP2K1, BIRC6, LGALS3, APAF1, EP300, ILK, BCL10, NOD1, XIAP, SRF, CAPN2, HSD17B4, GJB3, GNAS, VIM, EFHD2, CARD8 (tumor)CASP9, BIRC3, CASP3, CASP10, LYN, AKT1, ILK, DSP, KRT17, MAPK3, NOD1, CYCS, HSPD1, HSD17B4, GJB3, CASP2, EFHD2, BIRC7, NAIP, CARD8, PTCH1 (normal)
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KICH (tumor)KICH (normal)
CASP9, UBC, BCL2L1, GMEB1, CASP10, MAP2K1, RNF2, ABL1, BCL10, MAPK3, SRF, CYCS, HSD17B4, GNAS, DCC, VIM, CASP7, DIABLO, CASP2, EFHD2, BIRC7 (tumor)CASP9, UBC, BCL2L1, MAPK1, CASP10, MAP2K1, BIRC6, LGALS3, EP300, ABL1, DSP, BCL10, XIAP, SRF, CAPN2, DCC, EFHD2, BIRC8, C20orf166, MSTO1, PTCH1 (normal)
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KIRC (tumor)KIRC (normal)
CASP9, UBC, CASP8, MAP2K1, BIRC6, APAF1, EP300, AKT1, ABL1, MAPK3, XIAP, SRF, MAP2K2, CYCS, CAPN2, GNAS, BIRC5, VIM, DIABLO, CASP2, GZMB (tumor)CASP9, MAPK1, CASP10, BIRC6, AKT1, RNF2, ILK, ABL1, KRT17, RB1, NOD1, XIAP, MAP2K2, PRKCZ, HSPD1, GJB3, GNAS, EFHD2, NLRP1, MSTO1, PTCH1 (normal)
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KIRP (tumor)KIRP (normal)
CASP9, CASP3, UBC, CASP8, MAP2K1, BIRC6, APAF1, AKT1, ABL1, MAPK3, XIAP, SRF, MAP2K2, CYCS, GNAS, DCC, VIM, CASP7, EFHD2, BIRC7, GZMB (tumor)CASP9, BIRC3, UBC, BCL2L1, MAP2K1, BIRC6, LYN, BIRC2, AKT1, KRT17, BCL10, RB1, XIAP, PRKCZ, HSPD1, VIM, CASP7, EFHD2, HIP1, MSTO1, PTCH1 (normal)
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LIHC (tumor)LIHC (normal)
CASP9, BIRC3, CASP3, UBC, BCL2L1, MAPK1, CASP10, BIRC6, LYN, LGALS3, BIRC2, EP300, MAPK3, RB1, XIAP, SRF, CYCS, HSPD1, EFHD2, GZMB, PTCH1 (tumor)CASP9, BCL2L1, GMEB1, MAP2K1, LYN, AKT1, DSP, BCL10, SRF, CYCS, CAPN2, PRKCZ, HSD17B4, GJB3, GNAS, BIRC5, DCC, VIM, CASP2, EFHD2, HIP1 (normal)
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LUAD (tumor)LUAD (normal)
CASP9, CASP8, MAPK1, MAP2K1, LYN, LGALS3, KRT17, MAPK3, RB1, XIAP, MAP2K2, CYCS, HSPD1, DCC, VIM, DIABLO, EFHD2, BIRC7, GZMB, HIP1, MSTO1 (tumor)CASP9, BIRC3, CASP10, LYN, RNF2, KRT17, BCL10, MAPK3, NOD1, XIAP, CYCS, PRKCZ, DCC, VIM, CASP7, DIABLO, CASP2, EFHD2, NLRP1, NAIP, HIP1 (normal)
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LUSC (tumor)LUSC (normal)
CASP9, MAPK1, MAP2K1, LYN, LGALS3, RNF2, DSP, KRT17, MAPK3, RB1, NOD1, XIAP, SRF, GJB3, DCC, VIM, CASP7, EFHD2, NLRP1, NAIP, HIP1 (tumor)CASP9, BIRC3, GMEB1, MAPK1, CASP10, APAF1, BIRC2, RNF2, DSP, KRT17, MAPK3, RB1, CYCS, PRKCZ, HSD17B4, DCC, EFHD2, NLRP1, CARD8, HIP1, PTCH1 (normal)
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PRAD (tumor)PRAD (normal)
CASP9, UBC, MAPK1, LYN, LGALS3, ILK, ABL1, KRT17, BCL10, RB1, SRF, PRKCZ, GJB3, DCC, VIM, DIABLO, EFHD2, BIRC8, HIP1, C20orf166, MSTO1 (tumor)CASP9, CASP8, MAPK1, BIRC6, LYN, LGALS3, APAF1, RNF2, KRT17, RB1, XIAP, MAP2K2, CYCS, PRKCZ, HSPD1, GJB3, BIRC5, DIABLO, EFHD2, HIP1, PTCH1 (normal)
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STAD (tumor)STAD (normal)
CASP9, CASP8, MAPK1, MAP2K1, BIRC6, AKT1, ILK, ABL1, DSP, RB1, SRF, CAPN2, GJB3, GNAS, BIRC5, VIM, DIABLO, CASP2, BIRC7, NLRP1, C20orf166 (tumor)CASP9, UBC, CASP8, GMEB1, LYN, LGALS3, RNF2, DSP, MAPK3, RB1, NOD1, SRF, PRKCZ, HSPD1, GJB3, CASP7, CASP2, EFHD2, GZMB, MSTO1, PTCH1 (normal)
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THCA (tumor)THCA (normal)
CASP9, UBC, CASP8, BCL2L1, MAPK1, BIRC6, LGALS3, RNF2, ILK, DSP, KRT17, RB1, XIAP, SRF, BIRC5, VIM, BIRC7, NLRP1, GZMB, HIP1, MSTO1 (tumor)CASP9, BIRC3, BCL2L1, MAPK1, LYN, RNF2, ILK, DSP, RB1, XIAP, SRF, CAPN2, PRKCZ, HSPD1, DCC, VIM, DIABLO, EFHD2, NAIP, CARD8, HIP1 (normal)
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TissGeneProg for CASP9

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 CASP9
TissGeneDrug for CASP9

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 CASP9

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0242379Malignant neoplasm of lung11BeFree,GAD
umls:C0376358Malignant neoplasm of prostate10BeFree,GAD
umls:C0600139Prostate carcinoma10BeFree
umls:C0025202melanoma9BeFree
umls:C0027819Neuroblastoma9BeFree,LHGDN
umls:C0700095Central neuroblastoma9BeFree
umls:C0684249Carcinoma of lung8BeFree
umls:C0699791Stomach Carcinoma8BeFree
umls:C0024623Malignant neoplasm of stomach7BeFree
umls:C1527249Colorectal Cancer7BeFree,GAD
umls:C0006142Malignant neoplasm of breast6BeFree
umls:C0007131Non-Small Cell Lung Carcinoma6BeFree
umls:C0596263Carcinogenesis6BeFree
umls:C0678222Breast Carcinoma6BeFree
umls:C0009402Colorectal Carcinoma5BeFree
umls:C0024121Lung Neoplasms5BeFree,LHGDN
umls:C0001418Adenocarcinoma4BeFree,GAD,LHGDN
umls:C0005684Malignant neoplasm of urinary bladder4BeFree,GAD
umls:C0017638Glioma4BeFree
umls:C0023434Chronic Lymphocytic Leukemia4BeFree,GAD
umls:C0026764Multiple Myeloma4BeFree,GAD
umls:C0010346Crohn Disease3BeFree,GAD
umls:C0023467Leukemia, Myelocytic, Acute3BeFree
umls:C0024305Lymphoma, Non-Hodgkin3BeFree,GAD
umls:C0033578Prostatic Neoplasms3BeFree,CTD_human,GAD
umls:C0079731B-Cell Lymphomas3BeFree
umls:C0235974Pancreatic carcinoma3BeFree
umls:C0699885Carcinoma of bladder3BeFree
umls:C2239176Liver carcinoma3BeFree,LHGDN
umls:C0007134Renal Cell Carcinoma2BeFree
umls:C0007787Transient Ischemic Attack2CTD_human,RGD
umls:C0007847Malignant tumor of cervix2BeFree
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent2GAD
umls:C0017636Glioblastoma2BeFree,LHGDN
umls:C0019693HIV Infections2BeFree
umls:C0022116Ischemia2BeFree
umls:C0023473Myeloid Leukemia, Chronic2GAD
umls:C0024031Low Back Pain2BeFree
umls:C0024299Lymphoma2BeFree
umls:C0024668Mammary Neoplasms, Experimental2RGD
umls:C0029463Osteosarcoma2BeFree
umls:C0029925Ovarian Carcinoma2BeFree
umls:C0036690Septicemia2BeFree
umls:C0038454Cerebrovascular accident2BeFree
umls:C0079744Diffuse Large B-Cell Lymphoma2BeFree,LHGDN
umls:C0079745Lymphoma, Large-Cell, Follicular2BeFree
umls:C0153690Secondary malignant neoplasm of bone2BeFree
umls:C0221775Lumbar disc disease2BeFree
umls:C0243026Sepsis2BeFree
umls:C0279626Squamous cell carcinoma of esophagus2BeFree
umls:C0302592Cervix carcinoma2BeFree
umls:C0346647Malignant neoplasm of pancreas2BeFree
umls:C0524851Neurodegenerative Disorders2BeFree,LHGDN
umls:C0585442Osteosarcoma of bone2BeFree
umls:C0812413Malignant Pleural Mesothelioma2BeFree
umls:C1140680Malignant neoplasm of ovary2BeFree
umls:C1168401Squamous cell carcinoma of the head and neck2BeFree
umls:C1458155Mammary Neoplasms2BeFree,LHGDN
umls:C2004493Leukemia, B-Cell2BeFree
umls:C3714514Infection2LHGDN
umls:C0002736Amyotrophic Lateral Sclerosis1RGD
umls:C0003130Anoxia1LHGDN
umls:C0003850Arteriosclerosis1BeFree
umls:C0004135Ataxia Telangiectasia1BeFree
umls:C0004153Atherosclerosis1BeFree
umls:C0005699Blast Phase1BeFree
umls:C0007786Brain Ischemia1CTD_human
umls:C0008487Chordoma1BeFree
umls:C0009081Congenital clubfoot1GAD
umls:C0011853Diabetes Mellitus, Experimental1RGD
umls:C0013080Down Syndrome1BeFree
umls:C0013604Edema1CTD_human
umls:C0014072Experimental Autoimmune Encephalomyelitis1RGD
umls:C0014121Bacterial Endocarditis1BeFree
umls:C0018213Graves Disease1BeFree
umls:C0018799Heart Diseases1RGD
umls:C0019196Hepatitis C1BeFree
umls:C0019348Herpes Simplex Infections1BeFree
umls:C0022578Keratoconus1BeFree
umls:C0023452Leukemia, Lymphocytic, Acute, L11BeFree
umls:C0023895Liver diseases1GAD
umls:C0024117Chronic Obstructive Airway Disease1GAD
umls:C0024232Lymphatic Metastasis1GAD
umls:C0024897Mastocytoma1BeFree
umls:C0025149Medulloblastoma1BeFree
umls:C0026769Multiple Sclerosis1BeFree,GAD
umls:C0027055Myocardial Reperfusion Injury1CTD_human
umls:C0027686Pathologic Neovascularization1GAD
umls:C0027765nervous system disorder1CTD_human
umls:C0030297Pancreatic Neoplasm1GAD
umls:C0030567Parkinson Disease1LHGDN
umls:C0031117Peripheral Neuropathy1CTD_human
umls:C0035126Reperfusion Injury1RGD
umls:C0035305Retinal Detachment1CTD_human
umls:C0038356Stomach Neoplasms1GAD
umls:C0040336Tobacco Use Disorder1GAD
umls:C0042341Varicocele1RGD
umls:C0153381Malignant neoplasm of mouth1BeFree
umls:C0162557Liver Failure, Acute1BeFree
umls:C0205851Germ cell tumor1BeFree
umls:C0206698Cholangiocarcinoma1BeFree
umls:C0220641Lip and Oral Cavity Carcinoma1BeFree
umls:C0232197Fibrillation1BeFree
umls:C0238198Gastrointestinal Stromal Tumors1GAD
umls:C02686155,10-Methylenetetrahydrofolate reductase deficiency1BeFree
umls:C0279628Adenocarcinoma Of Esophagus1BeFree,GAD
umls:C0280141Acute Undifferentiated Leukemia1BeFree
umls:C0334664Mast Cell Neoplasm1BeFree
umls:C0349566Squamous cell carcinoma of tongue1BeFree
umls:C0393934Slow channel syndrome1BeFree
umls:C0598766Leukemogenesis1BeFree
umls:C0686619Secondary malignant neoplasm of lymph node1BeFree
umls:C0796126AICARDI-GOUTIERES SYNDROME 11BeFree
umls:C0948089Acute Coronary Syndrome1BeFree
umls:C1096184West Nile viral infection1BeFree
umls:C1261473Sarcoma1BeFree
umls:C1292769Precursor B-cell lymphoblastic leukemia1BeFree
umls:C1378511Undifferentiated leukemia1BeFree
umls:C1541923Infective endocarditis1BeFree
umls:C2242987Benign Mastocytoma1BeFree