TissGeneSummary for PDCD4 |
Gene summary |
Basic gene information | Gene symbol | PDCD4 |
Gene name | programmed cell death 4 (neoplastic transformation inhibitor) | |
Synonyms | H731 | |
Cytomap | UCSC genome browser: 10q24 | |
Type of gene | protein-coding | |
RefGenes | NM_001199492.1, NM_014456.4,NM_145341.3, | |
Description | neoplastic transformation inhibitor proteinnuclear antigen H731programmed cell death protein 4protein 197/15a | |
Modification date | 20141222 | |
dbXrefs | MIM : 608610 | |
HGNC : HGNC | ||
Ensembl : ENSG00000150593 | ||
HPRD : 10549 | ||
Vega : OTTHUMG00000019048 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PDCD4 | |
BioGPS: 27250 | ||
Pathway | NCI Pathway Interaction Database: PDCD4 | |
KEGG: PDCD4 | ||
REACTOME: PDCD4 | ||
Pathway Commons: PDCD4 | ||
Context | iHOP: PDCD4 | |
ligand binding site mutation search in PubMed: PDCD4 | ||
UCL Cancer Institute: PDCD4 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | PancreasThymus | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | PAADTHYM | |
Reference showing the relevant tissue of PDCD4 | ||
Description by TissGene annotations | Cancer gene TissgsLTS Fused withOncogene Fused withTSGene |
* 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. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID | GO:0007569 | cell aging | 12054647 | GO:0045892 | negative regulation of transcription, DNA-templated | 16357133 | GO:0007569 | cell aging | 12054647 | GO:0045892 | negative regulation of transcription, DNA-templated | 16357133 |
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TissGeneExp for PDCD4 |
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 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 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. |
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) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
COAD | -0.182215759 | 1.565895779 | -1.748111538 | 1.31E-14 | 6.11E-13 |
HNSC | -0.22132363 | 1.203932184 | -1.425255814 | 5.43E-13 | 2.26E-11 |
ESCA | -0.672973102 | 0.810399625 | -1.483372727 | 0.00036 | 0.007698462 |
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TissGene-miRNA for PDCD4 |
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 type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
ACC | hsa-miR-373-3p | MIMAT0000726 | 0.022 | -0.26 | 78 |
ACC | hsa-miR-373-3p | MIMAT0000726 | 0.022 | -0.26 | 78 |
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TissGeneMut for PDCD4 |
TissGeneSNV for PDCD4 |
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. |
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) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.Q290H | UCEC | 1 |
p.E458G | UCEC | 1 |
p.K58E | STAD | 1 |
p.P255H | STAD | 1 |
p.G251V | ESCA | 1 |
p.D285Y | UCS | 1 |
p.P402S | SKCM | 1 |
p.K114N | BLCA | 1 |
p.P130S | SKCM | 1 |
p.K37N | UCEC | 1 |
p.E41K | READ | 1 |
p.R110S | LUAD | 1 |
p.Y354F | LUAD | 1 |
p.R245S | HNSC | 1 |
p.T277A | PAAD | 1 |
p.E432V | LUAD | 1 |
p.K242E | STAD | 1 |
p.D296E | CESC | 1 |
p.R92Q | COAD | 1 |
p.A57T | STAD | 1 |
p.R256S | HNSC | 1 |
p.S56L | BLCA | 1 |
p.D68Y | LUAD | 1 |
p.E458K | UCEC | 1 |
p.K103N | BLCA | 1 |
p.E421V | LUAD | 1 |
p.E335* | SARC | 1 |
p.D296Y | UCS | 1 |
p.R463C | ESCA | 1 |
p.L88M | LGG | 1 |
p.E184K | BLCA | 1 |
p.E137D | BLCA | 1 |
p.G262V | ESCA | 1 |
p.E199D | LGG | 1 |
p.T266A | PAAD | 1 |
p.K155N | COAD | 1 |
p.H349N | BLCA | 1 |
p.R452C | ESCA | 1 |
p.D235Y | READ | 1 |
p.D276G | THCA | 1 |
p.P409L | LUAD | 1 |
p.P13S | SKCM | 1 |
p.R310H | BRCA | 1 |
p.R99S | LUAD | 1 |
p.D445Y | READ | 1 |
p.H167R | COAD | 1 |
p.P102S | COAD | 1 |
p.R69Q | UCEC | 1 |
p.I34V | BLCA | 1 |
p.R92Q | BLCA | 1 |
p.V202M | STAD | 1 |
p.L19F | PAAD | 1 |
p.I45V | BLCA | 1 |
p.N40D | SKCM | 1 |
p.D10G | SKCM | 1 |
p.G119A | CESC | 1 |
p.G15D | LGG | 1 |
p.E337* | UCEC | 1 |
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TissGeneCNV for PDCD4 |
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) |
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TissGeneFusions for PDCD4 |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
Chimerdb3.0 | ChiTaRs | NA | BI912454 | PDCD4-LOC338799 | chr10:112631778 | chr12:122233173 | |
Chimerdb3.0 | ChiTaRs | NA | BG926120 | PDCD4-GAPDH | chr10:112641287 | chr12:6646488 | |
Chimerdb3.0 | ChiTaRs | NA | BE179153 | PDCD4-PMS2P5 | chr10:112647502 | chr7:74321683 | |
Chimerdb3.0 | ChiTaRs | NA | DA689020 | PDCD4-CHD1L | chr10:112635830 | chr1:146747014 | |
Chimerdb3.0 | ChiTaRs | NA | BE076082 | PDCD4-UBE2N | chr10:112658270 | chr12:93802766 | |
Chimerdb3.0 | ChiTaRs | NA | AW367527 | PDCD4-CHRM3 | chr10:112658603 | chr1:239756964 | |
Chimerdb3.0 | ChiTaRs | NA | AA742923 | PDCD4-PDCD4 | chr10:112658418 | chr10:112658082 |
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TissGeneNet for PDCD4 |
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 PDCD4 |
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. |
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. |
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. |
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. |
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TissGeneClin for PDCD4 |
TissGeneDrug for PDCD4 |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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TissGeneDisease for PDCD4 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0027627 | Neoplasm Metastasis | 18 | BeFree |
umls:C0596263 | Carcinogenesis | 14 | BeFree |
umls:C0178874 | Tumor Progression | 10 | BeFree |
umls:C0006142 | Malignant neoplasm of breast | 9 | BeFree |
umls:C0024623 | Malignant neoplasm of stomach | 9 | BeFree |
umls:C0678222 | Breast Carcinoma | 9 | BeFree |
umls:C0699791 | Stomach Carcinoma | 9 | BeFree |
umls:C0017636 | Glioblastoma | 8 | BeFree |
umls:C2239176 | Liver carcinoma | 8 | BeFree |
umls:C0009402 | Colorectal Carcinoma | 7 | BeFree |
umls:C1527249 | Colorectal Cancer | 7 | BeFree |
umls:C0029925 | Ovarian Carcinoma | 6 | BeFree |
umls:C1140680 | Malignant neoplasm of ovary | 6 | BeFree |
umls:C0242379 | Malignant neoplasm of lung | 5 | BeFree |
umls:C0376358 | Malignant neoplasm of prostate | 5 | BeFree |
umls:C0600139 | Prostate carcinoma | 5 | BeFree |
umls:C0684249 | Carcinoma of lung | 5 | BeFree |
umls:C0007137 | Squamous cell carcinoma | 4 | BeFree,LHGDN |
umls:C0017638 | Glioma | 4 | BeFree |
umls:C0699790 | Colon Carcinoma | 4 | BeFree |
umls:C0206698 | Cholangiocarcinoma | 3 | BeFree |
umls:C0677886 | Epithelial ovarian cancer | 3 | BeFree |
umls:C1458155 | Mammary Neoplasms | 3 | BeFree,LHGDN |
umls:C0001418 | Adenocarcinoma | 2 | BeFree |
umls:C0007102 | Malignant tumor of colon | 2 | BeFree |
umls:C0007124 | Noninfiltrating Intraductal Carcinoma | 2 | BeFree |
umls:C0007131 | Non-Small Cell Lung Carcinoma | 2 | BeFree |
umls:C0007134 | Renal Cell Carcinoma | 2 | BeFree |
umls:C0023467 | Leukemia, Myelocytic, Acute | 2 | BeFree |
umls:C0024121 | Lung Neoplasms | 2 | BeFree,LHGDN |
umls:C0206709 | Cystadenoma, Serous | 2 | BeFree |
umls:C0238462 | Medullary carcinoma of thyroid | 2 | BeFree |
umls:C0279626 | Squamous cell carcinoma of esophagus | 2 | BeFree |
umls:C0338106 | Adenocarcinoma of colon | 2 | BeFree |
umls:C0878500 | Intraepithelial Neoplasia | 2 | BeFree |
umls:C1168401 | Squamous cell carcinoma of the head and neck | 2 | BeFree |
umls:C1335302 | Pancreatic Ductal Adenocarcinoma | 2 | BeFree |
umls:C1621958 | Glioblastoma Multiforme | 2 | BeFree |
umls:C2931822 | Nasopharyngeal carcinoma | 2 | BeFree |
umls:C0001430 | Adenoma | 1 | BeFree |
umls:C0004096 | Asthma | 1 | BeFree |
umls:C0004565 | Melanoma, B16 | 1 | BeFree |
umls:C0004626 | Pneumonia, Bacterial | 1 | BeFree |
umls:C0004943 | Behcet Syndrome | 1 | BeFree |
umls:C0007133 | Carcinoma, Papillary | 1 | BeFree |
umls:C0009319 | Colitis | 1 | BeFree |
umls:C0009375 | Colonic Neoplasms | 1 | BeFree |
umls:C0009404 | Colorectal Neoplasms | 1 | LHGDN |
umls:C0014132 | Endocrine Gland Neoplasms | 1 | BeFree |
umls:C0020542 | Pulmonary Hypertension | 1 | BeFree |
umls:C0023267 | Fibroid Tumor | 1 | BeFree |
umls:C0023269 | leiomyosarcoma | 1 | BeFree |
umls:C0023418 | leukemia | 1 | BeFree |
umls:C0023434 | Chronic Lymphocytic Leukemia | 1 | BeFree |
umls:C0023487 | Acute Promyelocytic Leukemia | 1 | BeFree |
umls:C0023903 | Liver neoplasms | 1 | BeFree |
umls:C0024131 | Lupus Vulgaris | 1 | BeFree |
umls:C0024138 | Lupus Erythematosus, Discoid | 1 | BeFree |
umls:C0024141 | Lupus Erythematosus, Systemic | 1 | BeFree |
umls:C0025149 | Medulloblastoma | 1 | BeFree |
umls:C0026764 | Multiple Myeloma | 1 | BeFree |
umls:C0027626 | Neoplasm Invasiveness | 1 | CTD_human |
umls:C0027830 | neurofibroma | 1 | BeFree |
umls:C0032584 | polyps | 1 | BeFree |
umls:C0038013 | Ankylosing spondylitis | 1 | BeFree |
umls:C0040136 | Thyroid Neoplasm | 1 | BeFree |
umls:C0042133 | Uterine Fibroids | 1 | BeFree |
umls:C0079731 | B-Cell Lymphomas | 1 | BeFree |
umls:C0151546 | Oral Cavity Carcinoma | 1 | BeFree |
umls:C0152018 | Esophageal carcinoma | 1 | BeFree |
umls:C0153633 | Malignant neoplasm of brain | 1 | BeFree |
umls:C0205647 | Follicular adenoma | 1 | BeFree |
umls:C0206701 | Cystadenocarcinoma, Serous | 1 | BeFree,LHGDN |
umls:C0220641 | Lip and Oral Cavity Carcinoma | 1 | BeFree |
umls:C0239946 | Fibrosis, Liver | 1 | BeFree |
umls:C0264408 | Childhood asthma | 1 | BeFree |
umls:C0279000 | Liver and Intrahepatic Biliary Tract Carcinoma | 1 | BeFree |
umls:C0333307 | Superficial ulcer | 1 | BeFree |
umls:C0333983 | Hyperplastic Polyp | 1 | BeFree |
umls:C0345904 | Malignant neoplasm of liver | 1 | BeFree |
umls:C0409974 | Lupus Erythematosus | 1 | BeFree |
umls:C0740457 | Malignant neoplasm of kidney | 1 | BeFree |
umls:C0751690 | Malignant Peripheral Nerve Sheath Tumor | 1 | BeFree |
umls:C1333620 | Flat Ductal Epithelial Atypia of the Breast | 1 | BeFree |
umls:C1334274 | Invasive Carcinoma | 1 | BeFree |
umls:C1335177 | Ovarian Serous Adenocarcinoma | 1 | BeFree |
umls:C1378703 | Renal carcinoma | 1 | BeFree |
umls:C1449563 | Cardiomyopathy, Familial Idiopathic | 1 | BeFree |
umls:C1516170 | Cancer Cell Growth | 1 | BeFree |
umls:C1519689 | Tumor Promotion | 1 | BeFree |
umls:C1520166 | Xenograft Model | 1 | BeFree |
umls:C1709447 | Paget Disease of the Breast without Invasive Carcinoma | 1 | BeFree |
umls:C1961099 | Precursor T-Cell Lymphoblastic Leukemia-Lymphoma | 1 | BeFree |