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| TissGeneSummary for CDX1 |
 Gene summary |
| Basic gene information | Gene symbol | CDX1 |
| Gene name | caudal type homeobox 1 | |
| Synonyms | - | |
| Cytomap | UCSC genome browser: 5q32 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001804.2, | |
| Description | caudal type homeo box transcription factor 1caudal type homeobox transcription factor 1caudal-type homeobox protein 1caudal-type homeobox protein CDX1homeobox protein CDX-1 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 600746 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000113722 | ||
| HPRD : 02849 | ||
| Vega : OTTHUMG00000169772 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_CDX1 | |
| BioGPS: 1044 | ||
| Pathway | NCI Pathway Interaction Database: CDX1 | |
| KEGG: CDX1 | ||
| REACTOME: CDX1 | ||
| Pathway Commons: CDX1 | ||
| Context | iHOP: CDX1 | |
| ligand binding site mutation search in PubMed: CDX1 | ||
| UCL Cancer Institute: CDX1 | ||
| 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) | Colon | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | COAD | |
| Reference showing the relevant tissue of CDX1 | ||
| Description by TissGene annotations | Cancer gene | |
| * 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:0045944 | positive regulation of transcription from RNA polymerase II promoter | 15774940 | GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | 15774940 |
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| TissGeneExp for CDX1 |
| 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) |
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| 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) |
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| 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. |
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| 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) |
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| - 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 |
| HNSC | 0.642323569 | -1.342985734 | 1.985309302 | 2.49E-12 | 8.00E-11 |
| LUAD | 0.257534114 | -1.090614162 | 1.348148276 | 1.25E-09 | 6.54E-09 |
| LUSC | 0.847092971 | -0.813581538 | 1.66067451 | 1.53E-08 | 4.72E-08 |
| STAD | 5.273981636 | 2.677628511 | 2.596353125 | 0.0115 | 0.038259615 |
| BLCA | 0.232101537 | -1.104556358 | 1.336657895 | 0.00228 | 0.014243596 |
| ESCA | 4.741500101 | -1.359281717 | 6.100781818 | 0.000415 | 0.008300286 |
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| TissGene-miRNA for CDX1 |
| 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 |
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| TissGeneMut for CDX1 |
| TissGeneSNV for CDX1 |
| 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. |
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| 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) |
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| - nsSNVs sorted by frequency. |
| AAchange | Cancer type | # samples |
| p.P245S | SKCM | 2 |
| p.R166S | KIRC | 1 |
| p.L240M | LUAD | 1 |
| p.R166L | PRAD | 1 |
| p.S11L | SKCM | 1 |
| p.R183W | BLCA | 1 |
| p.P223S | STAD | 1 |
| p.G16S | STAD | 1 |
| p.Q203* | LUAD | 1 |
| p.R183W | UCEC | 1 |
| p.L243M | THYM | 1 |
| p.R210G | KIRC | 1 |
| p.K171N | DLBC | 1 |
| p.E209K | SKCM | 1 |
| p.P226L | KIRC | 1 |
| p.E172X | THYM | 1 |
| p.P226Q | LUAD | 1 |
| p.D230N | SKCM | 1 |
| p.K215* | SKCM | 1 |
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| TissGeneCNV for CDX1 |
| 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 CDX1 |
| 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 |
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| TissGeneNet for CDX1 |
| 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) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
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| COAD (tumor) | COAD (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| HNSC (tumor) | HNSC (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| KICH (tumor) | KICH (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| KIRC (tumor) | KIRC (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| KIRP (tumor) | KIRP (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| LIHC (tumor) | LIHC (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| LUAD (tumor) | LUAD (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| LUSC (tumor) | LUSC (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| PRAD (tumor) | PRAD (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| STAD (tumor) | STAD (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
 |  |
| THCA (tumor) | THCA (normal) |
| CDX1, CEBPA, LEF1, SI, NOX1 (tumor) | CDX1, CEBPA, LEF1, SI, NOX1 (normal) |
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| TissGeneProg for CDX1 |
| 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. |
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| 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. |
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| 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. |
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| 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 CDX1 |
| TissGeneDrug for CDX1 |
| 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 CDX1 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0009402 | Colorectal Carcinoma | 12 | BeFree |
| umls:C0699790 | Colon Carcinoma | 10 | BeFree |
| umls:C0007102 | Malignant tumor of colon | 9 | BeFree,GAD |
| umls:C0699791 | Stomach Carcinoma | 9 | BeFree |
| umls:C0596263 | Carcinogenesis | 8 | BeFree |
| umls:C1527249 | Colorectal Cancer | 8 | BeFree |
| umls:C0024623 | Malignant neoplasm of stomach | 7 | BeFree |
| umls:C0009375 | Colonic Neoplasms | 3 | BeFree,LHGDN |
| umls:C0009404 | Colorectal Neoplasms | 3 | BeFree,LHGDN |
| umls:C0017152 | Gastritis | 3 | BeFree |
| umls:C0001418 | Adenocarcinoma | 2 | BeFree |
| umls:C0032584 | polyps | 2 | BeFree |
| umls:C0178874 | Tumor Progression | 2 | BeFree |
| umls:C0338106 | Adenocarcinoma of colon | 2 | BeFree |
| umls:C0374997 | Helicobacter pylori (H. pylori) infection in conditions classified elsewhere and of unspecified site | 2 | BeFree |
| umls:C0001430 | Adenoma | 1 | BeFree |
| umls:C0002793 | Anaplasia | 1 | BeFree |
| umls:C0004763 | Barrett Esophagus | 1 | LHGDN |
| umls:C0014175 | Endometriosis | 1 | BeFree |
| umls:C0017154 | Gastritis, Atrophic | 1 | LHGDN |
| umls:C0017168 | Gastroesophageal reflux disease | 1 | BeFree |
| umls:C0023467 | Leukemia, Myelocytic, Acute | 1 | BeFree |
| umls:C0025568 | Metaplasia | 1 | LHGDN |
| umls:C0035335 | Retinoblastoma | 1 | BeFree |
| umls:C0085695 | Chronic gastritis | 1 | BeFree |
| umls:C0206623 | Adenosquamous carcinoma | 1 | BeFree |
| umls:C0206637 | Chondrosarcoma, Mesenchymal | 1 | BeFree |
| umls:C0235974 | Pancreatic carcinoma | 1 | BeFree |
| umls:C0346647 | Malignant neoplasm of pancreas | 1 | BeFree |
| umls:C0685938 | Malignant neoplasm of gastrointestinal tract | 1 | BeFree |
| umls:C0750929 | Arnold-Chiari Malformation, Type I | 1 | BeFree |
| umls:C0878500 | Intraepithelial Neoplasia | 1 | BeFree |
| umls:C0940937 | precancerous lesions | 1 | BeFree |
| umls:C1709246 | Non-Neoplastic Disorder | 1 | BeFree |
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