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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 FANCA
check button Gene summary
Basic gene informationGene symbolFANCA
Gene nameFanconi anemia, complementation group A
SynonymsFA|FA-H|FA1|FAA|FACA|FAH|FANCH
CytomapUCSC genome browser: 16q24.3
Type of geneprotein-coding
RefGenesNM_000135.2,
NM_001018112.1,NM_001286167.1,
DescriptionFanconi anemia group A proteinFanconi anemia, complementation group HFanconi anemia, type 1
Modification date20141219
dbXrefs MIM : 607139
HGNC : HGNC
Ensembl : ENSG00000187741
HPRD : 06186
Vega : OTTHUMG00000173049
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_FANCA
BioGPS: 2175
PathwayNCI Pathway Interaction Database: FANCA
KEGG: FANCA
REACTOME: FANCA
Pathway Commons: FANCA
ContextiHOP: FANCA
ligand binding site mutation search in PubMed: FANCA
UCL Cancer Institute: FANCA
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)CervixTestis
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)CESCTGCT
Reference showing the relevant tissue of FANCA
Description by TissGene annotationsCancer gene
Fused withOncogene
* 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


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TissGeneExp for FANCA

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
BRCA-0.757202253-2.6641320781.9069298259.05E-269.40E-25
COAD1.095366235-0.4760722261.5714384625.12E-106.03E-09
KICH-2.208624534-3.6421045341.433481.55E-065.68E-06
KIRC-1.512300645-3.6421659232.1298652786.86E-205.38E-19
LIHC-0.340612534-1.3511665341.0105549.49E-064.02E-05
LUAD0.028102708-1.7659300511.7940327591.25E-223.55E-21
THCA-1.625330635-2.870849281.2455186446.18E-072.41E-06
KIRP-0.953261409-3.6156989092.66243751.45E-122.26E-11
STAD0.845419841-1.6901770342.5355968757.39E-082.14E-06
HNSC0.368800583-1.1271482551.4959488371.23E-091.90E-08
LUSC0.538339388-1.5362370832.0745764719.04E-241.68E-22
ESCA1.138862739-1.8453918062.9842545450.0002930.006787833
BLCA0.826972308-2.1175697972.9445421058.79E-060.000175934


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TissGene-miRNA for FANCA

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
UCShsa-miR-503-5pMIMAT00028740.046-0.2756


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TissGeneMut for FANCA
TissGeneSNV for FANCA

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.E542ASTAD1
p.G17CMESO1
p.R163HCOAD1
p.A786VSTAD1
p.L1193RESCA1
p.L864IUCEC1
p.D1359EBLCA1
p.R917*SKCM1
p.R917*UCEC1
p.K143NHNSC1
p.T1161MUCEC1
p.T1161MLGG1
p.A444VSTAD1
p.E1115KLUAD1
p.K1244MKIRP1
p.N1003HUCEC1
p.K143ROV1
p.T256ISKCM1
p.P1222LBLCA1
p.K522RSTAD1
p.L1211IUCEC1
p.P442LSKCM1
p.Q869ELIHC1
p.L1056FLGG1
p.L964FUCEC1
p.R1053CBRCA1
p.L617VPAAD1
p.L964ITHYM1
p.R1011HLUAD1
p.T1328AKIRP1
p.M365ICOAD1
p.Y86NPRAD1
p.Q382HLUAD1
p.P643APRAD1
p.S616YUCEC1
p.L185IUCEC1
p.T949NUCEC1
p.A1446TCOAD1
p.A181VDLBC1
p.E1351KHNSC1
p.R163HESCA1
p.R1136GPRAD1
p.S421NUCEC1
p.P643ASTAD1
p.Q405HLUAD1
p.E1015KBRCA1
p.F476LREAD1
p.R212SSARC1
p.E1310KBLCA1
p.R1204WUCEC1
p.R1084CBRCA1
p.Q326*BLCA1
p.L51MUCEC1
p.G809DBRCA1
p.C422YUCEC1
p.L424PLIHC1
p.A1103DBLCA1
p.A349VBLCA1
p.G809DCOAD1
p.L1075PLUSC1
p.E698KBLCA1
p.R52LBRCA1
p.L530ILGG1
p.R52QBLCA1
p.N527ILUAD1
p.A47VESCA1
p.M1024IBLCA1
p.R1409WCESC1
p.K453NSTAD1
p.D1147VLIHC1
p.V107IMESO1
p.D533NHNSC1
p.R1419CPRAD1
p.H1286NPRAD1
p.T1161MLUSC1
p.E1214QLUSC1
p.S734FLUSC1
p.R1439TBLCA1
p.S892FSKCM1
p.E63QBLCA1
p.L1082FSKCM1
p.N8KKIRP1
p.G1039DUCEC1
p.S75RESCA1
p.M1151ISKCM1
p.F93LHNSC1
p.S947LBLCA1
p.S1277TSTAD1
p.S394CHNSC1
p.S46PREAD1
p.L1401VBLCA1
p.P496SSKCM1
p.R951WCOAD1
p.E1310QCESC1
p.R1084CCOAD1
p.M717ICOAD1
p.L379MESCA1
p.A1097VPAAD1
p.R1186KSKCM1
p.P643RKIRP1
p.S421GLIHC1
p.S1264YBLCA1
p.P759SSKCM1
p.P1192LSTAD1
p.Q226HSTAD1
p.Q940KESCA1
p.A1097TCOAD1
p.Q168EBRCA1
p.R685KKIRC1
p.L477FLUAD1
p.A40ELUSC1
p.V888IUCEC1
p.R52PCESC1
p.P497LSKCM1
p.M731VESCA1
p.F320LLUAD1
p.E630DBLCA1
p.R435CBLCA1
p.P301SSKCM1
p.P401SSKCM1
p.T1161KESCA1
p.Q993*UCEC1
p.A47VCOAD1
p.S700*BLCA1
p.A152TTHYM1
p.A444VUCEC1
p.L875SLGG1
p.P643AKIRP1
p.Q1128KOV1
p.E542*CESC1


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TissGeneCNV for FANCA

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 FANCA

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
Chimerdb3.0ChiTaRsNABF089164PAK1-FANCAchr11:77086787chr16:89833594
Chimerdb3.0ChiTaRsNABF334909FANCA-FANCAchr16:89877785chr16:89877617
Chimerdb3.0ChiTaRsNABF744199SPG7-FANCAchr16:89601959chr16:89835203
Chimerdb3.0FusionScanESCATCGA-IG-A97H-01ACHMP1A-FANCAOut-of-Framechr16:89723989chr16:89851372
Chimerdb3.0FusionScanESCATCGA-L5-A8NI-01AANKRD11-FANCA5'UTR-CDSchr16:89556652chr16:89818630
Chimerdb3.0FusionScanESCATCGA-L5-A8NI-01AANKRD11-FANCA5'UTR-CDSchr16:89556652chr16:89825113
Chimerdb3.0FusionScanESCATCGA-L5-A8NI-01AANKRD11-FANCA5'UTR-CDSchr16:89497663chr16:89818630
TCGAfusionPortalPRADALUADTCGA-78-7161-01AFANCA-CACNA2D45UTR-CDSChr16:89818546Chr12:1955855
TCGAfusionPortalPRADALUADTCGA-97-8176-01AANKRD11-FANCA5UTR-5UTRChr16:89484692Chr16:89818630


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TissGeneNet for FANCA

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)
FANCA, SMARCA4, SRC, CCT3, CDK1, CD79A, TCERG1, PCNA, BLM, FANCL, FANCF, FANCG, NUB1, FANCC, MSH2, SMARCC1, CENPE, HPRT1, LIPG, FANCB, SNX5 (tumor)FANCA, SMARCA4, PLCG1, SRC, CDK1, TCERG1, PCNA, TCP1, BLM, ENO1, FANCL, FANCG, FANCC, FANCE, POLN, MSH2, CENPE, HPRT1, PSMA5, TPT1, FANCB (normal)
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COAD (tumor)COAD (normal)
FANCA, BRCA1, HSP90B1, CDK1, DAXX, PIK3R1, ATR, PCNA, RMI1, BLM, ENO1, FANCG, TOP3A, FANCM, FANCC, STRA13, MSH2, C19orf40, CENPE, LIPG, FANCB (tumor)FANCA, NCK1, SMARCA4, BRCA1, CDK1, TCERG1, PRPF31, RMI1, BLM, ENO1, FANCG, FANCM, FANCC, FANCE, STRA13, MSH2, C17orf70, APITD1, CENPE, TPT1, FANCB (normal)
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HNSC (tumor)HNSC (normal)
FANCA, DNAJB1, SMARCA4, BRCA1, SRC, CDK1, DAXX, PIK3R1, PCNA, NPM1, SMARCD3, ENO1, ATP5B, GNB2, FANCG, CAPN1, FANCE, STRA13, CENPE, TPT1, FANCB (tumor)FANCA, BRCA1, CDK1, KRT1, TCERG1, PCNA, RPA1, RMI1, BLM, FANCL, FANCG, TOP3A, FANCM, FANCC, FANCE, MSH2, C19orf40, APITD1, CENPE, FANCB, DUS4L (normal)
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KICH (tumor)KICH (normal)
FANCA, GRB2, CCT3, CDK1, FYN, PCNA, CRK, TAF10, RMI1, RPL18, SMARCD3, FANCF, ZNF24, FANCC, FANCE, IFIT3, SMARCC1, HPRT1, PSMA5, TPT1, DUS4L (tumor)FANCA, NCK1, BRCA1, PLCG1, CDK1, TCERG1, PCNA, RMI1, BLM, RPL18, ENO1, ATP5B, FANCG, TOP3A, FANCC, FANCE, IFIT3, C19orf40, CENPE, FANCB, DUS4L (normal)
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KIRC (tumor)KIRC (normal)
FANCA, BRCA1, HSP90B1, CDK1, KRT1, TCERG1, PCNA, AZIN1, NAMPT, SPTA1, NPM1, SGK1, BLM, SMARCD3, FANCL, ATP5B, FANCG, APITD1, CENPE, FANCB, SNX5 (tumor)FANCA, BRCA1, GRB2, SRC, CDK1, CD79A, TCERG1, ATR, PCNA, CRK, TAF10, BLM, FANCG, ZNF24, TOP3A, C19orf40, C17orf70, CENPE, MKNK1, PSMA5, FANCB (normal)
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KIRP (tumor)KIRP (normal)
FANCA, IKBKB, CHUK, AZIN1, NAMPT, ERCC4, BLM, SMARCD3, FANCL, GNB2, FANCG, NUB1, CAPN1, FANCC, FANCE, IFIT3, C17orf70, APITD1, LIPG, MX1, SNX5 (tumor)FANCA, BRCA1, PLCG1, SRC, IKBKB, CDK1, TCERG1, CHUK, PCNA, TAF10, BLM, FANCL, ATP5B, ALDOA, FANCG, STRA13, C19orf40, C17orf70, CENPE, FANCB, SNX5 (normal)
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LIHC (tumor)LIHC (normal)
FANCA, DNAJB1, PLCG1, IKBKB, PCNA, AZIN1, NAMPT, CRK, RPA1, SGK1, SMARCD3, FANCL, FANCG, NUB1, CAPN1, MSH2, IFIT3, C19orf40, TPT1, MX1, DUS4L (tumor)FANCA, BRCA1, CDK1, PCNA, CRK, RMI1, BLM, ENO1, FANCG, FANCC, FANCE, POLN, MSH2, IFIT3, C19orf40, APITD1, CENPE, MKNK1, PSMA5, TPT1, FANCB (normal)
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LUAD (tumor)LUAD (normal)
FANCA, GRB2, SRC, CD79A, DAXX, PIK3R1, PRPF31, PCNA, CRK, TAF10, BLM, ENO1, ALDOA, GNB2, FANCG, ZNF24, FANCM, FANCE, C19orf40, C17orf70, MKNK1 (tumor)FANCA, BRCA1, CDK1, TCERG1, PIK3R1, ATR, PCNA, CRK, BLM, SMARCD3, FANCL, FANCG, TOP3A, FANCM, FANCC, MSH2, C19orf40, CENPE, TPT1, FANCB, DUS4L (normal)
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LUSC (tumor)LUSC (normal)
FANCA, BRCA1, GRB2, IKBKB, CDK1, CD79A, ATR, PCNA, NAMPT, CRK, RMI1, BLM, FANCL, FANCG, FANCM, FANCE, POLN, MSH2, C19orf40, CENPE, FANCB (tumor)FANCA, BRCA1, PLCG1, CDK1, TCERG1, ATR, PRPF31, PCNA, CRK, BLM, FANCL, FANCG, TOP3A, FANCM, FANCC, MSH2, C19orf40, C17orf70, CENPE, TPT1, FANCB (normal)
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PRAD (tumor)PRAD (normal)
FANCA, NCK1, BRCA1, GRB2, IKBKB, CDK1, CD79A, TCERG1, ATR, PCNA, BLM, ENO1, HES1, FANCG, CAPN1, TOP3A, FANCC, MSH2, C17orf70, CENPE, FANCB (tumor)FANCA, BRCA1, PLCG1, CDK1, CD79A, TCERG1, PCNA, BLM, ENO1, FANCG, TOP3A, FANCM, FANCC, FANCE, MSH2, C17orf70, CENPE, HPRT1, TPT1, FANCB, DUS4L (normal)
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STAD (tumor)STAD (normal)
FANCA, SRC, CDK1, CD79A, DAXX, PIK3R1, PCNA, SGK1, TAF10, ERCC4, RMI1, BLM, SMARCD3, ENO1, FANCF, GNB2, FANCG, FANCC, C19orf40, MX1, SNX5 (tumor)FANCA, SMARCA4, BRCA1, HSP90B1, CDK1, TCERG1, PCNA, RMI1, BLM, SMARCD3, ENO1, FANCL, FANCG, TOP3A, FANCM, FANCC, FANCE, MSH2, CENPE, PSMA5, FANCB (normal)
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THCA (tumor)THCA (normal)
FANCA, GRB2, CCT3, CDK1, CD79A, KRT1, DAXX, PCNA, TAF10, BLM, ENO1, NUB1, ZNF24, IFIT3, APITD1, CENPE, PSMA5, LIPG, MX1, SNX5, DUS4L (tumor)FANCA, SMARCA4, HSP90B1, CDK1, CD79A, FYN, PCNA, NAMPT, BLM, FANCG, CAPN1, IFIT3, APITD1, CENPE, MKNK1, PSMA5, LIPG, FANCB, MX1, SNX5, DUS4L (normal)
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TissGeneProg for FANCA

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 FANCA
TissGeneDrug for FANCA

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 FANCA

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C3469521FANCONI ANEMIA, COMPLEMENTATION GROUP A (disorder)82BeFree,CLINVAR,MGD,UNIPROT
umls:C0015625Fanconi Anemia81BeFree,CLINVAR,CTD_human,GAD,LHGDN,ORPHANET
umls:C0006142Malignant neoplasm of breast10BeFree,GAD
umls:C0268490Tyrosinemia, Type I9BeFree
umls:C0023467Leukemia, Myelocytic, Acute5BeFree,LHGDN
umls:C0678222Breast Carcinoma5BeFree
umls:C0005684Malignant neoplasm of urinary bladder2BeFree,GAD
umls:C0007137Squamous cell carcinoma2BeFree,LHGDN
umls:C0268483Tyrosinemias2BeFree
umls:C0677886Epithelial ovarian cancer2BeFree,GAD
umls:C0000768Congenital Abnormality1BeFree
umls:C0005695Bladder Neoplasm1CTD_human
umls:C0007847Malignant tumor of cervix1BeFree
umls:C0009402Colorectal Carcinoma1BeFree
umls:C0010606Adenoid Cystic Carcinoma1CTD_human
umls:C0016689Freckles1GWASCAT
umls:C0018939Hematological Disease1BeFree
umls:C0023470Myeloid Leukemia1BeFree
umls:C0023890Liver Cirrhosis1BeFree
umls:C0023895Liver diseases1BeFree
umls:C0024117Chronic Obstructive Airway Disease1GAD
umls:C0025202melanoma1BeFree
umls:C0025517Metabolic Diseases1BeFree
umls:C0028259Nodule1BeFree
umls:C0029925Ovarian Carcinoma1BeFree
umls:C0030297Pancreatic Neoplasm1LHGDN
umls:C0036095Salivary Gland Neoplasms1CTD_human
umls:C0042900Vitiligo1GWASCAT
umls:C0151779Cutaneous Melanoma1BeFree
umls:C0220615Adult Acute Myeloblastic Leukemia1BeFree
umls:C0242379Malignant neoplasm of lung1GAD
umls:C0275814Streptococcal lymphadenitis of swine1BeFree
umls:C0280100Solid tumour1BeFree
umls:C0302592Cervix carcinoma1BeFree
umls:C0596263Carcinogenesis1BeFree
umls:C0598766Leukemogenesis1BeFree
umls:C0699885Carcinoma of bladder1BeFree
umls:C0851140Carcinoma in situ of uterine cervix1GAD
umls:C0919267ovarian neoplasm1LHGDN
umls:C1140680Malignant neoplasm of ovary1BeFree,GAD
umls:C1527249Colorectal Cancer1BeFree
umls:C1623038Cirrhosis1BeFree
umls:C2919093caffeine stimulant related disorder1GAD
umls:C3539878Triple Negative Breast Neoplasms1BeFree