 |
| |
| |
| |
| |
| |
| |
|
| TissGeneSummary for HOXD3 |
 Gene summary |
| Basic gene information | Gene symbol | HOXD3 |
| Gene name | homeobox D3 | |
| Synonyms | HOX1D|HOX4|HOX4A|Hox-4.1 | |
| Cytomap | UCSC genome browser: 2q31.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_006898.4, | |
| Description | Hox-4.1, mouse, homolog ofhomeo box D3homeobox protein Hox-4Ahomeobox protein Hox-D3 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 142980 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000128652 | ||
| HPRD : 00863 | ||
| Vega : OTTHUMG00000187566 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_HOXD3 | |
| BioGPS: 3232 | ||
| Pathway | NCI Pathway Interaction Database: HOXD3 | |
| KEGG: HOXD3 | ||
| REACTOME: HOXD3 | ||
| Pathway Commons: HOXD3 | ||
| Context | iHOP: HOXD3 | |
| ligand binding site mutation search in PubMed: HOXD3 | ||
| UCL Cancer Institute: HOXD3 | ||
| 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) | KidneyUterus | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | KIRC,KIRP,KICHUCEC,UCS | |
| Reference showing the relevant tissue of HOXD3 | ||
| 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. |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO term | PubMed ID | GO:0007160 | cell-matrix adhesion | 7742539 | GO:0007160 | cell-matrix adhesion | 7742539 |
| Top |
| TissGeneExp for HOXD3 |
| 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 |
| KIRC | 1.727587117 | 3.70067045 | -1.973083333 | 5.55E-28 | 8.82E-27 |
| KIRP | 0.824466631 | 4.065757256 | -3.241290625 | 6.31E-10 | 6.10E-09 |
| LUSC | -0.94510169 | -2.31245071 | 1.36734902 | 2.62E-05 | 5.75E-05 |
| LIHC | -2.056849494 | -3.767327494 | 1.710478 | 2.34E-11 | 3.44E-10 |
| BRCA | -0.361400968 | 1.247577102 | -1.60897807 | 2.72E-28 | 3.21E-27 |
| KICH | 2.902140506 | 4.157940506 | -1.2558 | 0.000251 | 0.000609256 |
| LUAD | -0.865270115 | -2.06525977 | 1.199989655 | 9.61E-05 | 0.000244668 |
| COAD | -0.71574611 | 0.287646198 | -1.003392308 | 3.21E-05 | 0.00013097 |
| Top |
| TissGene-miRNA for HOXD3 |
| 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 |
| Top |
| TissGeneMut for HOXD3 |
| TissGeneSNV for HOXD3 |
| 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.D252N | SKCM | 2 |
| p.Q159H | UCEC | 1 |
| p.L432M | PRAD | 1 |
| p.A296V | READ | 1 |
| p.H400Y | UCEC | 1 |
| p.P119T | LUAD | 1 |
| p.S130L | SKCM | 1 |
| p.P382L | STAD | 1 |
| p.P427S | LUAD | 1 |
| p.G83X | STAD | 1 |
| p.E185K | HNSC | 1 |
| p.A204V | HNSC | 1 |
| p.N398S | SKCM | 1 |
| p.G42S | LUAD | 1 |
| p.A349T | PAAD | 1 |
| p.R217C | STAD | 1 |
| p.T40N | UCEC | 1 |
| p.G345S | STAD | 1 |
| p.Q169H | UCEC | 1 |
| p.P222Q | HNSC | 1 |
| p.P75T | LUAD | 1 |
| p.Q18R | LUSC | 1 |
| p.D405N | STAD | 1 |
| p.R328C | PRAD | 1 |
| p.P53T | LUSC | 1 |
| p.Q118K | SKCM | 1 |
| p.K187N | LUAD | 1 |
| p.P52S | HNSC | 1 |
| p.K248N | COAD | 1 |
| p.Y218C | BLCA | 1 |
| p.R245W | PRAD | 1 |
| p.G109C | HNSC | 1 |
| p.P124R | BRCA | 1 |
| p.E4K | LUAD | 1 |
| p.Y34D | LUAD | 1 |
| p.E335K | STAD | 1 |
| p.K144* | LUSC | 1 |
| p.R223C | LUAD | 1 |
| p.L376Q | LUSC | 1 |
| p.A204T | UCEC | 1 |
| p.G83* | STAD | 1 |
| p.Y249C | COAD | 1 |
| p.R246H | UCEC | 1 |
| p.P189S | SKCM | 1 |
| p.R246L | LUAD | 1 |
| p.G146R | LUAD | 1 |
| p.R422* | UCEC | 1 |
| p.N175Y | HNSC | 1 |
| p.S58F | SKCM | 1 |
| p.Y389C | SKCM | 1 |
| p.G65C | ESCA | 1 |
| p.P299L | BLCA | 1 |
| Top |
| TissGeneCNV for HOXD3 |
| 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) |
 |
| Top |
| TissGeneFusions for HOXD3 |
| 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 |
| Top |
| TissGeneNet for HOXD3 |
| 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) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| COAD (tumor) | COAD (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| HNSC (tumor) | HNSC (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| KICH (tumor) | KICH (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| KIRC (tumor) | KIRC (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| KIRP (tumor) | KIRP (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| LIHC (tumor) | LIHC (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| LUAD (tumor) | LUAD (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| LUSC (tumor) | LUSC (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| PRAD (tumor) | PRAD (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| STAD (tumor) | STAD (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| THCA (tumor) | THCA (normal) |
| HOXD3, HMGB1, DDB1, ALX4 (tumor) | HOXD3, HMGB1, DDB1, ALX4 (normal) |
 |  |
| Top |
| TissGeneProg for HOXD3 |
| 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. |
 |
| Top |
| TissGeneClin for HOXD3 |
| TissGeneDrug for HOXD3 |
| Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
| DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
| Top |
| TissGeneDisease for HOXD3 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0376358 | Malignant neoplasm of prostate | 6 | BeFree |
| umls:C0600139 | Prostate carcinoma | 5 | BeFree |
| umls:C0242379 | Malignant neoplasm of lung | 3 | BeFree |
| umls:C0684249 | Carcinoma of lung | 3 | BeFree |
| umls:C0009081 | Congenital clubfoot | 1 | GAD |
| umls:C0013261 | Duane Retraction Syndrome | 1 | LHGDN |
| umls:C0023418 | leukemia | 1 | LHGDN |
| umls:C0023440 | Acute Erythroblastic Leukemia | 1 | BeFree |
| umls:C0023487 | Acute Promyelocytic Leukemia | 1 | BeFree |
| umls:C0025202 | melanoma | 1 | BeFree,LHGDN |
| umls:C0026603 | Motion Sickness | 1 | GWASCAT |
| umls:C0027627 | Neoplasm Metastasis | 1 | BeFree |
| umls:C0033578 | Prostatic Neoplasms | 1 | CTD_human |
| umls:C0919267 | ovarian neoplasm | 1 | GAD |
| umls:C1704272 | Benign Prostatic Hyperplasia | 1 | BeFree |
| umls:C2745900 | Promyelocytic leukemia | 1 | BeFree |
Copyright 2016-Present - The University of Texas Health Science Center at Houston (UTHealth) Web File Viewing | How to Report, Fraud, Waste and Abuse | State of Texas | Statewide Search | Texas Homeland Security | Site Policies |