TissGDB
Tissglogo

Home

Download

 Statistics

 Landscape

Help

Contact

Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

bullet point

TissGeneSummary

bullet point

TissGeneExp

bullet point

TissGene-miRNA

bullet point

TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

bullet point

TissGeneNet

bullet point

TissGeneProg

bullet point

TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for PRAME
check button Gene summary
Basic gene informationGene symbolPRAME
Gene namepreferentially expressed antigen in melanoma
SynonymsCT130|MAPE|OIP-4|OIP4
CytomapUCSC genome browser: 22q11.22
Type of geneprotein-coding
RefGenesNM_001291715.1,
NM_001291716.1,NM_001291717.1,NM_001291719.1,NM_006115.4,
NM_206953.2,NM_206954.2,NM_206955.2,NM_206956.2,
DescriptionOpa-interacting protein OIP4cancer/testis antigen 130melanoma antigen preferentially expressed in tumorsopa-interacting protein 4preferentially expressed antigen of melanoma
Modification date20141207
dbXrefs MIM : 606021
HGNC : HGNC
Ensembl : ENSG00000185686
HPRD : 05820
Vega : OTTHUMG00000151172
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PRAME
BioGPS: 23532
PathwayNCI Pathway Interaction Database: PRAME
KEGG: PRAME
REACTOME: PRAME
Pathway Commons: PRAME
ContextiHOP: PRAME
ligand binding site mutation search in PubMed: PRAME
UCL Cancer Institute: PRAME
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)SkinTestis
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)SKCMTGCT
Reference showing the relevant tissue of PRAME
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:0008284positive regulation of cell proliferation16179254
GO:0043066negative regulation of apoptotic process16179254
GO:0045596negative regulation of cell differentiation16179254
GO:0045892negative regulation of transcription, DNA-templated16179254
GO:0048387negative regulation of retinoic acid receptor signaling pathway16179254
GO:0008284positive regulation of cell proliferation16179254
GO:0043066negative regulation of apoptotic process16179254
GO:0045596negative regulation of cell differentiation16179254
GO:0045892negative regulation of transcription, DNA-templated16179254
GO:0048387negative regulation of retinoic acid receptor signaling pathway16179254


Top
TissGeneExp for PRAME

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
LIHC-2.176198646-4.6792426462.5030442.30E-058.93E-05
LUAD-0.665727612-4.6225241633.9567965529.28E-115.52E-10
STAD-1.317705521-4.3905836463.0728781253.46E-064.76E-05
HNSC0.009072749-3.8443807393.8534534883.92E-073.35E-06
BRCA-0.602571804-3.1994744362.5969026324.89E-091.66E-08
LUSC3.282609001-3.839769437.1223784319.99E-211.29E-19
KICH-4.355992646-1.595108646-2.7608843.01E-071.25E-06
BLCA-0.981650751-3.8771086462.8954578950.01040.046632258
ESCA0.64335499-4.2528904644.8962454550.001450.018640462
KIRC0.697317743-0.8910405911.5883583330.0002230.000455139
PRAD-2.752681723-4.5494509541.7967692318.12E-050.000349269
KIRP1.355406979-0.9400930212.29557.66E-050.000270027


Top
TissGene-miRNA for PRAME

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


Top
TissGeneMut for PRAME
TissGeneSNV for PRAME

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.
bullet point


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.W7RBRCA2
p.L411SSKCM1
p.S274FSKCM1
p.R113CSKCM1
p.A217PBLCA1
p.E169KLUAD1
p.S145*BRCA1
p.L266FLUAD1
p.S253FSKCM1
p.D497ELUAD1
p.S419FSKCM1
p.P500LSKCM1
p.D102VLUAD1
p.F308SSKCM1
p.W7RCOAD1
p.P504SSKCM1
p.R159QBRCA1
p.R125QHNSC1
p.S447NBRCA1
p.P54SPCPG1
p.V480AKIRC1
p.Q291LSARC1
p.G311CLUAD1
p.G453VLUSC1
p.M259TLIHC1
p.H91RGBM1
p.R201*STAD1
p.P444SSKCM1
p.W7RHNSC1
p.N139SLIHC1
p.G257SLUSC1
p.R159*UCEC1
p.I196MPAAD1
p.L213MESCA1
p.I196TBLCA1
p.D189NUCEC1
p.R201XSTAD1
p.F182SSTAD1
p.R207HGBM1
p.H65NLUAD1
p.T410NLUAD1
p.P174SSKCM1
p.L426IESCA1
p.H271RREAD1
p.S234ACOAD1
p.S335LGBM1
p.L47MDLBC1
p.L313RHNSC1
p.P23QLUAD1
p.A286TREAD1
p.G453DSKCM1
p.C503RUCEC1
p.R312LTHYM1
p.S425TLUSC1
p.R125WSTAD1
p.S22NSTAD1
p.L502MCOAD1
p.L423FBRCA1
p.L47MCOAD1
p.G103RSKCM1
p.L119RHNSC1
p.E169*LUAD1
p.E374GLUAD1
p.R466MUCEC1
p.Q344*BLCA1
p.K200*LUAD1
p.E282QLUAD1
p.Q315*SKCM1
p.W244*SKCM1
p.R263CSTAD1
p.E51KSKCM1
p.G31ESKCM1
p.Q287PHNSC1
p.L482RLIHC1
p.V439MLUAD1
p.E279KSKCM1
p.R3*LUAD1
p.L426VLUAD1
p.Q153*BLCA1
p.P486SSKCM1
p.S335LSKCM1
p.L45MUCEC1
p.S478CLUSC1
p.R5CUCEC1


Top
TissGeneCNV for PRAME

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


Top
TissGeneFusions for PRAME

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
TCGAfusionPortalPRADASKCMTCGA-BF-A5EQ-01APRAME-ACO2Out-of-frameChr22:22899232Chr22:41903795
TCGAfusionPortalPRADASKCMTCGA-EB-A3Y6-01APRAME-HDLBPNAChr22:22890128Chr2:242202277


Top
TissGeneNet for PRAME

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)
PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, STK19, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, HNRNPC, TCEB1, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (normal)
bullet pointbullet point
COAD (tumor)COAD (normal)
PRAME, CUL2, RFC4, HNRNPC, TCEB1, HNRNPF, BAG2, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (normal)
bullet pointbullet point
HNSC (tumor)HNSC (normal)
PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, HNRNPC, TCEB1, HNRNPF, BAG2, PSMC4, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (normal)
bullet pointbullet point
KICH (tumor)KICH (normal)
PRAME, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, UBE2F (normal)
bullet pointbullet point
KIRC (tumor)KIRC (normal)
PRAME, CUL2, RFC4, HNRNPC, TCEB1, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, TPRKB, STK19, RPS13, UBE2F (normal)
bullet pointbullet point
KIRP (tumor)KIRP (normal)
PRAME, CUL2, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (normal)
bullet pointbullet point
LIHC (tumor)LIHC (normal)
PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, PSMC4, TCEB2, LAGE3, RBX1, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (normal)
bullet pointbullet point
LUAD (tumor)LUAD (normal)
PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, TPRKB, STK19, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, RPS13, UBE2F (normal)
bullet pointbullet point
LUSC (tumor)LUSC (normal)
PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, HNRNPC, RPL10, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (normal)
bullet pointbullet point
PRAD (tumor)PRAD (normal)
PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, STK19, RPS13, UBE2F (normal)
bullet pointbullet point
STAD (tumor)STAD (normal)
PRAME, CUL2, RFC4, HNRNPC, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, HNRNPH1, KDM1A, STK19, RPS13, UBE2F (tumor)PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, LAGE3, RBX1, NEDD8, OSGEP, UBL4A, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13, UBE2F (normal)
bullet pointbullet point
THCA (tumor)THCA (normal)
PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, RPL22, HNRNPH1, KDM1A, TPRKB, STK19, RPS13 (tumor)PRAME, CUL2, RFC4, HNRNPC, TCEB1, RPL10, HNRNPF, BAG2, PSMC4, TCEB2, LAGE3, RBX1, NEDD8, OSGEP, HNRNPM, UBL4A, RPL22, KDM1A, TPRKB, RPS13, UBE2F (normal)
bullet pointbullet point


Top
TissGeneProg for PRAME

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

Top
TissGeneClin for PRAME
TissGeneDrug for PRAME

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


Top
TissGeneDisease for PRAME

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0023467Leukemia, Myelocytic, Acute17BeFree,LHGDN
umls:C0023418leukemia14BeFree,CTD_human,LHGDN
umls:C0242596Neoplasm, Residual11BeFree,LHGDN
umls:C0023473Myeloid Leukemia, Chronic8BeFree,CTD_human
umls:C0025202melanoma7BeFree,CTD_human
umls:C0153594Malignant neoplasm of testis6BeFree
umls:C0085669Acute leukemia5BeFree
umls:C0023434Chronic Lymphocytic Leukemia4BeFree
umls:C0376545Hematologic Neoplasms4BeFree
umls:C0005699Blast Phase3BeFree
umls:C0006142Malignant neoplasm of breast3BeFree
umls:C0023449Acute lymphocytic leukemia3BeFree
umls:C0025149Medulloblastoma3BeFree,CTD_human
umls:C0029463Osteosarcoma3BeFree
umls:C0280100Solid tumour3BeFree
umls:C0585442Osteosarcoma of bone3BeFree
umls:C0678222Breast Carcinoma3BeFree
umls:C1840451MULTICYSTIC RENAL DYSPLASIA, BILATERAL3BeFree
umls:C0001418Adenocarcinoma2BeFree,LHGDN
umls:C0023452Leukemia, Lymphocytic, Acute, L12BeFree
umls:C0024314Lymphoproliferative Disorders2BeFree,LHGDN
umls:C0026764Multiple Myeloma2BeFree,CTD_human
umls:C0027627Neoplasm Metastasis2BeFree
umls:C0079744Diffuse Large B-Cell Lymphoma2BeFree
umls:C0220621pediatric acute myeloblastic leukemia2BeFree
umls:C1279296Chronic leukemia (category)2BeFree
umls:C1961102Precursor Cell Lymphoblastic Leukemia Lymphoma2BeFree,LHGDN
umls:C0007131Non-Small Cell Lung Carcinoma1CTD_human
umls:C0007134Renal Cell Carcinoma1CTD_human
umls:C0018671Head and Neck Neoplasms1CTD_human
umls:C0019829Hodgkin Disease1BeFree
umls:C0023443Hairy Cell Leukemia1BeFree
umls:C0023462Acute Megakaryocytic Leukemias1BeFree
umls:C0023487Acute Promyelocytic Leukemia1BeFree,LHGDN
umls:C0023492Leukemia, T-Cell1BeFree
umls:C0023493Adult T-Cell Lymphoma/Leukemia1BeFree
umls:C0023827liposarcoma1BeFree
umls:C0024299Lymphoma1BeFree
umls:C0025500Mesothelioma1BeFree
umls:C0039496Temporomandibular Joint Dysfunction Syndrome1BeFree
umls:C0039590Testicular Neoplasms1BeFree
umls:C0178874Tumor Progression1BeFree
umls:C0206701Cystadenocarcinoma, Serous1BeFree
umls:C0220615Adult Acute Myeloblastic Leukemia1BeFree
umls:C0334471Round cell liposarcoma1BeFree
umls:C0334634Malignant lymphoma, lymphocytic, intermediate differentiation, diffuse1BeFree
umls:C0345967Malignant mesothelioma1BeFree
umls:C0376544Hematopoietic Neoplasms1BeFree
umls:C1168401Squamous cell carcinoma of the head and neck1BeFree
umls:C1261473Sarcoma1CTD_human
umls:C1292778Chronic myeloproliferative disorder1BeFree
umls:C1335475Primary Carcinoma1BeFree
umls:C1458155Mammary Neoplasms1LHGDN
umls:C1838244TIBIAL MUSCULAR DYSTROPHY, TARDIVE1BeFree
umls:C1861922CAMPOMELIC DYSPLASIA1BeFree