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| TissGeneSummary for HOXD9 |
 Gene summary |
| Basic gene information | Gene symbol | HOXD9 |
| Gene name | homeobox D9 | |
| Synonyms | HOX4|HOX4C|Hox-4.3|Hox-5.2 | |
| Cytomap | UCSC genome browser: 2q31.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_014213.3, | |
| Description | Hox-4.3, mouse, homolog ofhomeo box D9homeobox protein Hox-4Chomeobox protein Hox-5.2homeobox protein Hox-D9 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 142982 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000128709 | ||
| HPRD : 00865 | ||
| Vega : OTTHUMG00000132516 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_HOXD9 | |
| BioGPS: 3235 | ||
| Pathway | NCI Pathway Interaction Database: HOXD9 | |
| KEGG: HOXD9 | ||
| REACTOME: HOXD9 | ||
| Pathway Commons: HOXD9 | ||
| Context | iHOP: HOXD9 | |
| ligand binding site mutation search in PubMed: HOXD9 | ||
| UCL Cancer Institute: HOXD9 | ||
| 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) | KidneyProstateUterus | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | KIRC,KIRP,KICHPRADUCEC,UCS | |
| Reference showing the relevant tissue of HOXD9 | ||
| Description by TissGene annotations | Risk TissGene in RFS | |
| * 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:0000122 | negative regulation of transcription from RNA polymerase II promoter | 1756725 | GO:0000122 | negative regulation of transcription from RNA polymerase II promoter | 1756725 |
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| TissGeneExp for HOXD9 |
| 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 | 1.273355671 | -0.284121073 | 1.557476744 | 7.64E-09 | 9.55E-08 |
| KIRP | 2.195107415 | 4.24385429 | -2.048746875 | 1.99E-06 | 9.37E-06 |
| BRCA | 1.133476275 | 2.393436801 | -1.259960526 | 5.58E-23 | 4.91E-22 |
| KICH | 2.853512415 | 4.380256415 | -1.526744 | 6.29E-08 | 2.98E-07 |
| LUSC | 0.759410847 | -0.979724448 | 1.739135294 | 1.03E-07 | 2.89E-07 |
| LIHC | 0.025798415 | -3.876699585 | 3.902498 | 4.44E-18 | 2.41E-16 |
| ESCA | 0.757286961 | -1.491549403 | 2.248836364 | 0.00118 | 0.016505157 |
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| TissGene-miRNA for HOXD9 |
| 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-499a-5p | MIMAT0002870 | 0.013 | -0.28 | 78 |
| ACC | hsa-miR-499a-5p | MIMAT0002870 | 0.013 | -0.28 | 78 |
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| TissGeneMut for HOXD9 |
| TissGeneSNV for HOXD9 |
| 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.P265Q | TGCT | 2 |
| p.L270I | UCEC | 1 |
| p.A277V | READ | 1 |
| p.A90S | STAD | 1 |
| p.Y20* | PRAD | 1 |
| p.S80Y | LUAD | 1 |
| p.E32D | LUSC | 1 |
| p.V74M | SKCM | 1 |
| p.S254L | SKCM | 1 |
| p.Q328R | THYM | 1 |
| p.S246R | LUAD | 1 |
| p.P265Q | CHOL | 1 |
| p.Q267X | READ | 1 |
| p.E303Q | CESC | 1 |
| p.D23G | SKCM | 1 |
| p.A35V | COAD | 1 |
| p.R336S | GBM | 1 |
| p.R337S | CHOL | 1 |
| p.H97N | LUAD | 1 |
| p.H281Y | BLCA | 1 |
| p.S239L | SKCM | 1 |
| p.A217T | READ | 1 |
| p.E257Q | LIHC | 1 |
| p.A228V | STAD | 1 |
| p.D23G | STAD | 1 |
| p.N278K | LUAD | 1 |
| p.R289C | UCEC | 1 |
| p.S12T | STAD | 1 |
| p.S72W | LUSC | 1 |
| p.G235V | HNSC | 1 |
| p.S188Y | PRAD | 1 |
| p.T311I | HNSC | 1 |
| p.S239L | TGCT | 1 |
| p.T311A | SKCM | 1 |
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| TissGeneCNV for HOXD9 |
| 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 HOXD9 |
| 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 HOXD9 |
| 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) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| COAD (tumor) | COAD (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| HNSC (tumor) | HNSC (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| KICH (tumor) | KICH (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| KIRC (tumor) | KIRC (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| KIRP (tumor) | KIRP (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| LIHC (tumor) | LIHC (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| LUAD (tumor) | LUAD (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| LUSC (tumor) | LUSC (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| PRAD (tumor) | PRAD (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| STAD (tumor) | STAD (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| THCA (tumor) | THCA (normal) |
| HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (tumor) | HOXD9, HMGB1, COPS6, CAND1, CUL5, CUL2, CUL4B, CUL1, COPS5, DCUN1D1, NEDD8, GORAB, MEIS1, PBX1, HOXD10, PKNOX1, HOXC9, FAIM3, ETV5, BARX1 (normal) |
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| TissGeneProg for HOXD9 |
| 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 HOXD9 |
| TissGeneDrug for HOXD9 |
| 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 HOXD9 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0003873 | Rheumatoid Arthritis | 3 | BeFree,LHGDN |
| umls:C0029408 | Degenerative polyarthritis | 2 | BeFree |
| umls:C0006118 | Brain Neoplasms | 1 | BeFree |
| umls:C0007130 | Mucinous Adenocarcinoma | 1 | CTD_human |
| umls:C0007137 | Squamous cell carcinoma | 1 | LHGDN |
| umls:C0007847 | Malignant tumor of cervix | 1 | BeFree |
| umls:C0009081 | Congenital clubfoot | 1 | GAD |
| umls:C0009404 | Colorectal Neoplasms | 1 | BeFree,CTD_human |
| umls:C0017636 | Glioblastoma | 1 | BeFree |
| umls:C0017638 | Glioma | 1 | BeFree |
| umls:C0025202 | melanoma | 1 | BeFree |
| umls:C0027819 | Neuroblastoma | 1 | BeFree |
| umls:C0206698 | Cholangiocarcinoma | 1 | BeFree |
| umls:C0302592 | Cervix carcinoma | 1 | BeFree |
| umls:C0686619 | Secondary malignant neoplasm of lymph node | 1 | BeFree |
| umls:C0700095 | Central neuroblastoma | 1 | BeFree |
| umls:C0919267 | ovarian neoplasm | 1 | CTD_human |
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