HOXD13
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Summary
HOXD13 (homeobox D13, HGNC:5136) is a protein-coding gene on chromosome 2q31.1, encoding Homeobox protein Hox-D13 (P35453). Sequence-specific transcription factor that binds gene promoters and activates their transcription. It is a selective cancer dependency (DepMap: 13.8% of cell lines) and haploinsufficient (ClinGen: sufficient evidence).
This gene belongs to the homeobox family of genes. The homeobox genes encode a highly conserved family of transcription factors that play an important role in morphogenesis in all multicellular organisms. Mammals possess four similar homeobox gene clusters, HOXA, HOXB, HOXC and HOXD, located on different chromosomes, consisting of 9 to 11 genes arranged in tandem. This gene is one of several homeobox HOXD genes located in a cluster on chromosome 2. Deletions that remove the entire HOXD gene cluster or the 5’ end of this cluster have been associated with severe limb and genital abnormalities. Mutations in this particular gene cause synpolydactyly.
Source: NCBI Gene 3239 — RefSeq curated summary.
At a glance
- Gene–disease (curated): brachydactyly-syndactyly syndrome (Definitive, GenCC) — +5 more curated relationships
- GWAS associations: 1
- Clinical variants (ClinVar): 188 total — 28 pathogenic, 3 likely-pathogenic
- Phenotypes (HPO): 97
- Cancer dependency (DepMap): dependent in 13.8% of screened cell lines
- Dosage sensitivity (ClinGen): haploinsufficiency sufficient evidence, triplosensitivity no evidence
- Transcription factor: yes — 21 downstream targets (CollecTRI)
- MANE Select transcript:
NM_000523
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:5136 |
| Approved symbol | HOXD13 |
| Name | homeobox D13 |
| Location | 2q31.1 |
| Locus type | gene with protein product |
| Status | Approved |
| Ensembl gene | ENSG00000128714 |
| Ensembl biotype | protein_coding |
| OMIM | 142989 |
| Entrez | 3239 |
Gene structure
Transcript identifiers
Ensembl transcripts: 1 — 1 protein_coding
ENST00000392539
RefSeq mRNA: 1 — MANE Select: NM_000523
NM_000523
CCDS: CCDS2264
Canonical transcript exons
ENST00000392539 — 2 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000882905 | 176092721 | 176093671 |
| ENSE00001272192 | 176094480 | 176095944 |
Expression profiles
Bgee: expression breadth broad, 47 present calls, max score 82.98.
FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.4270 / max 42.4460, expressed in 135 samples.
FANTOM5 promoters (3 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 23817 | 0.1844 | 59 |
| 23818 | 0.1503 | 83 |
| 23816 | 0.0923 | 54 |
Top tissues by expression
274 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| urethra | UBERON:0000057 | 82.98 | gold quality |
| vagina | UBERON:0000996 | 82.65 | gold quality |
| muscle layer of sigmoid colon | UBERON:0035805 | 81.57 | gold quality |
| ectocervix | UBERON:0012249 | 81.50 | gold quality |
| calcaneal tendon | UBERON:0003701 | 79.12 | gold quality |
| sigmoid colon | UBERON:0001159 | 77.63 | gold quality |
| seminal vesicle | UBERON:0000998 | 76.66 | gold quality |
| prostate gland | UBERON:0002367 | 75.79 | gold quality |
| endocervix | UBERON:0000458 | 74.27 | gold quality |
| mammalian vulva | UBERON:0000997 | 71.50 | gold quality |
| tendon | UBERON:0000043 | 69.57 | gold quality |
| rectum | UBERON:0001052 | 69.33 | gold quality |
| uterine cervix | UBERON:0000002 | 67.64 | gold quality |
| parotid gland | UBERON:0001831 | 67.10 | gold quality |
| endothelial cell | CL:0000115 | 65.85 | gold quality |
| heart right ventricle | UBERON:0002080 | 65.00 | gold quality |
| nasal cavity epithelium | UBERON:0005384 | 64.80 | gold quality |
| buccal mucosa cell | CL:0002336 | 64.52 | gold quality |
| colonic mucosa | UBERON:0000317 | 60.60 | silver quality |
| mucosa of sigmoid colon | UBERON:0004993 | 60.47 | silver quality |
| lower lobe of lung | UBERON:0008949 | 60.37 | silver quality |
| skeletal muscle tissue of biceps brachii | UBERON:0004502 | 60.26 | gold quality |
| secondary oocyte | CL:0000655 | 59.43 | gold quality |
| vastus lateralis | UBERON:0001379 | 58.99 | gold quality |
| quadriceps femoris | UBERON:0001377 | 58.98 | gold quality |
| skeletal muscle tissue of rectus abdominis | UBERON:0004511 | 58.60 | gold quality |
| pericardium | UBERON:0002407 | 58.24 | gold quality |
| large intestine | UBERON:0000059 | 58.03 | gold quality |
| colon | UBERON:0001155 | 57.83 | gold quality |
| cerebellar vermis | UBERON:0004720 | 57.64 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-MTAB-8060 | yes | 721.04 |
| E-ANND-3 | no | 1.14 |
Regulation
Is transcription factor: yes
Downstream targets (CollecTRI)
21 targets.
| Target | Regulation |
|---|---|
| BARX1 | Repression |
| BMP2 | |
| BMP4 | Activation |
| CASP8AP2 | |
| CYP1A1 | |
| DACH1 | Activation |
| EMX2 | |
| EPHA3 | Repression |
| EPHA4 | Repression |
| EPHA7 | Activation |
| FBN1 | Activation |
| FHL1 | Unknown |
| H1-6 | |
| HAND2 | Activation |
| HOXA13 | |
| HOXD13 | |
| IL6 | |
| NGEF | |
| SALL1 | Repression |
| SALL3 | Repression |
| SFRP1 |
JASPAR motifs
| Motif | Name | Family |
|---|---|---|
| MA0909.1 | HOXD13 | HOX |
| MA0909.2 | HOXD13 | HOX |
JASPAR matrix evidence (PMIDs): PMID:18585359
Upstream regulators (CollecTRI, top): EZH2, FOXC1, GLI3, HOXD13, MYC
miRNA regulators (miRDB)
128 targeting HOXD13, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-513B-5P | 99.99 | 69.96 | 2150 |
| HSA-MIR-548N | 99.98 | 71.94 | 4170 |
| HSA-MIR-568 | 99.98 | 69.86 | 2084 |
| HSA-MIR-520D-5P | 99.98 | 73.34 | 4883 |
| HSA-MIR-524-5P | 99.98 | 73.43 | 4882 |
| HSA-MIR-4715-3P | 99.98 | 66.03 | 670 |
| HSA-MIR-607 | 99.97 | 73.62 | 5593 |
| HSA-MIR-4725-3P | 99.96 | 69.53 | 2520 |
| HSA-MIR-6780B-5P | 99.96 | 69.60 | 2562 |
| HSA-MIR-548AJ-3P | 99.96 | 73.38 | 5345 |
| HSA-MIR-548X-3P | 99.96 | 73.38 | 5345 |
| HSA-MIR-5688 | 99.96 | 73.23 | 4504 |
| HSA-MIR-495-3P | 99.96 | 72.81 | 4197 |
| HSA-MIR-548AA | 99.96 | 70.64 | 3753 |
| HSA-MIR-548AP-3P | 99.96 | 70.64 | 3753 |
| HSA-MIR-548T-3P | 99.96 | 70.64 | 3753 |
| HSA-MIR-570-3P | 99.96 | 72.41 | 4910 |
| HSA-MIR-559 | 99.95 | 72.28 | 3609 |
| HSA-MIR-548AB | 99.95 | 71.31 | 3488 |
| HSA-MIR-548A-5P | 99.94 | 71.27 | 3482 |
| HSA-MIR-548AD-5P | 99.94 | 71.23 | 3502 |
| HSA-MIR-548AE-5P | 99.94 | 71.23 | 3502 |
| HSA-MIR-548AK | 99.94 | 71.24 | 3488 |
| HSA-MIR-548AM-5P | 99.94 | 71.24 | 3488 |
| HSA-MIR-548AP-5P | 99.94 | 71.14 | 3489 |
| HSA-MIR-548AQ-5P | 99.94 | 71.34 | 3426 |
| HSA-MIR-548AR-5P | 99.94 | 71.28 | 3515 |
| HSA-MIR-548AS-5P | 99.94 | 71.22 | 3482 |
| HSA-MIR-548AU-5P | 99.94 | 71.24 | 3488 |
| HSA-MIR-548AY-5P | 99.94 | 71.23 | 3502 |
Functional genomics
ClinGen dosage: haploinsufficiency 3 (sufficient evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
DepMap (CRISPR cell-line fitness): dependent in 13.8% of screened cell lines.
Literature-anchored findings (GeneRIF, showing 40)
- 117-kb microdeletion removing HOXD9-HOXD13 and EVX2 causes synpolydactyly (PMID:11778160)
- Data show that a mutant HOXD13 protein that recognizes only a subset of sites recognized by the wild-type protein causes a novel human limb malformation. (PMID:12620993)
- Missense mutations in this protein are associated with brachydactyly types D and E. (PMID:12649808)
- This is the first report on prenatal diagnosis of Synpolydactyly by detecting the HOXD13 polyalanine expansion in the Han population of the Chinese mainland. (PMID:15696469)
- Results suggest that synpolydactyly in this kindred may be caused by polyalanine expansion in HOXD13. (PMID:15952114)
- Data show that HOXD13 are important susceptible genes of idiopathic congenital talipes equinovarus. (PMID:16331564)
- synergism between NUP98-HOX and wt-Flt3 is the result of the ability of Flt3 to increase proliferation of myeloid progenitors blocked in differentiation by NUP98-HOX fusions, revealing a direct role for wt-Flt3 in the pathobiology of AML. (PMID:16861351)
- There is a link between HOXD13 and two additional limb phenotypes–syndactyly type V and brachydactyly type A4–and demonstrated that a polyalanine contraction in HOXD13, most likely, led to other digital anomalies but not to synpolydactyly. (PMID:17236141)
- findings strongly suggest that specific mutations in HOXD13 gene may cause both hypoplastic synpolydactyly and hypospadias (PMID:17656229)
- Early human development shows spatiotemporal differences of HOXD13 expression in the endodermal and mesodermal structures. (PMID:17853405)
- We showed that SPD1 phenotype segregates with an identical expansion mutation of 21 bp in HOXD13. We show that HOXD13 polyalanine repeat is polymorphic, and the expansion of 2 alanine residues, is without clinical consequences. (PMID:18072967)
- The results shows that HOXD13 gene mutation was not involved in outbreak in idiopathic congenital talipes equinovarus, but changes of HOXD13 and FHL1 gene expression related to the development of talipes equinovarus malformation. (PMID:18244901)
- analysis of HOXD13 in 100 patients with limb malformations; 7 novel mutations in the coding region & 2 novel mutations in the 5’-untranslated region were identified (PMID:18399101)
- transgenic mice expressing NUP98-HOXD13 (NHD13) fusion gene develop myelodysplastic syndrome, and more than half eventually progress to acute leukemia (PMID:18566322)
- Hoxd13 and Fhl1 were expressed in the interdigital tissues of E12.5 rat embryo. Luciferase assay and EMSA identified a novel promoter region of Fhl1 that directly interacts with Hoxd13 (PMID:18758158)
- G220V missense mutation of HOXD13 caused synpolydactyly in a Greek family. (PMID:19060004)
- Detection of the HOXD13 homeoprotein in pancreas-tissue microarrays shows that its negative expression has a significant and adverse effect on the prognosis of patients with pancreatic cancer. (PMID:19488988)
- data show no significant difference in HOXD11, HOXD12 & HOXD13 genotype frequencies between the autism spectrum disorder & healthy controls, but one SNP in promoter region of HOXD11 was observed in only 4 patients with ASD (PMID:19540081)
- results expand the spectrum of HOXD13 mutations;suggest that not only the size of the polyalanine repeat but also other unknown factors might play a role in synpolydactyly (PMID:19686284)
- Geminin, which interacts with HOXD13 as well, blocks HOXD13-mediated assembly of pre-replication complex proteins and inhibits HOXD13-induced DNA replication. (PMID:19703996)
- a duplication mutation, c. 186-212dup, in exon 1 of the HOXD13 gene in the affected individuals in a Chinese family with unusual clinical manifestations of synpolydactyly (PMID:20974300)
- Variable skeletal phenotype in 2q31 deletion patients is a result of hemizygosity for the HOXD genes. (PMID:21068127)
- results show the first nonsense mutation in the HOXD13 gene underlying a severe form of SPD in the homozygous state, and a milder form of SPD with approximately 50% penetrance in the heterozygous state. (PMID:21814222)
- HOXD13 gene mutation was responsible for the synpolydactyly (SPD) phenotype in this family. (PMID:22161087)
- Misexpression of HOXD13(G11A) in the developing chick limb phenocopied the human SPD phenotype (PMID:22373878)
- This finding expands the phenotypic spectrum associated with HOXD13 mutations and advances our understanding of human limb development. (PMID:22374128)
- Correlation between Synpolydactyly and alanine expansion in HOXD13. (PMID:22406499)
- findings show that expression of NUP98-HOXD13 impairs class switch recombination and reduces the antibody-mediated immune response, in addition to its role in leukemia (PMID:22613470)
- Identification of a novel c.659G>C (p.Gly220Ala) mutation outside the HOXD13 homeodomain responsible for synpolydactyly in a Chinese family. (PMID:23948678)
- Data indicate increased levels of reactive oxygen species (ROS) were detected in bone marrow nucleated cells (BMNC) that express CD71 in in NUP98-HOXD13 (NHD13) transgenic mice, a murine model for myelodysplastic syndromes (MDS). (PMID:23958061)
- A genome-wide array-comparative genomic hybridization (aCGH) analysis revealed global chromosomal aberration in MWCNTs-treated clones, predominantly at chromosome 2q31-32, where the potential oncogenes HOXD9 and HOXD13 are located (PMID:23984819)
- Molecular characteristics of a HOXD13 synpolydactyly 1 nonsense mutation in a Chinese family. (PMID:24055421)
- Linkage analysis of the syndactyly type 1 subtype c (SD1-c) phenotype based on two Chinese families with 3/4 fingers syndactyly shows that two missense mutations in codon 306 of HOXD13 underlie SD1-c. (PMID:24789103)
- A 27 bp expansion mutation in exon 1 of HOXD13 was associated with autosomal dominant synpolydactyly in a Chinese family. (PMID:26252089)
- A homozygous HOXD13 missense mutation causes a severe form of synpolydactyly with metacarpal to carpal transformation. (PMID:26581570)
- HOXD13 methylation is a common event in primary breast cancer and is associated with poor survival of breast cancer patients. (PMID:26617782)
- down-regulation of HOXD13 might be a potentially useful prognostic marker for patients with breast cancer. (PMID:26617867)
- a novel mutation causing truncation of HOXD13 protein was successfully identified as being associated with an atypical non-syndromic SPD phenotype in our study. (PMID:27254532)
- Knock down of the dickkopf WNT signaling pathway inhibitor 2 (DKK2) resulted in a significant suppression of HOXD10, HOXD11 and HOXD13 while over-expression of DKK2 and stimulation with factors of the WNT signaling pathway. (PMID:27363011)
- The results suggest that the c.917G>A (p.R306Q) mutation in the HOXD13 gene, may be responsible for syndactyly type Ic in this family. (PMID:28498426)
Cross-species orthologs
2 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| mus_musculus | Hoxd13 | ENSMUSG00000001819 |
| rattus_norvegicus | Hoxd13 | ENSRNOG00000001588 |
Paralogs (42): HOXA11 (ENSG00000005073), HOXC8 (ENSG00000037965), HOXA1 (ENSG00000105991), HOXA2 (ENSG00000105996), HOXA3 (ENSG00000105997), HOXA5 (ENSG00000106004), HOXA6 (ENSG00000106006), HOXA13 (ENSG00000106031), TLX1 (ENSG00000107807), HOXB6 (ENSG00000108511), TLX2 (ENSG00000115297), HOXB8 (ENSG00000120068), HOXB5 (ENSG00000120075), HOXB3 (ENSG00000120093), HOXB1 (ENSG00000120094), HOXA7 (ENSG00000122592), HOXC13 (ENSG00000123364), HOXC11 (ENSG00000123388), HOXC12 (ENSG00000123407), HOXD1 (ENSG00000128645), HOXD3 (ENSG00000128652), HOXD9 (ENSG00000128709), HOXD10 (ENSG00000128710), HOXD11 (ENSG00000128713), PDX1 (ENSG00000139515), HOXB13 (ENSG00000159184), TLX3 (ENSG00000164438), HOXD4 (ENSG00000170166), HOXD12 (ENSG00000170178), HOXB9 (ENSG00000170689), HOXC5 (ENSG00000172789), HOXB2 (ENSG00000173917), HOXD8 (ENSG00000175879), GSX2 (ENSG00000180613), HOXC9 (ENSG00000180806), HOXC10 (ENSG00000180818), HOXB4 (ENSG00000182742), HOXA4 (ENSG00000197576), HOXC6 (ENSG00000197757), HOXC4 (ENSG00000198353)
Protein
Protein identifiers
Homeobox protein Hox-D13 — P35453 (reviewed: P35453)
Alternative names: Homeobox protein Hox-4I
All UniProt accessions (1): P35453
UniProt curated annotations — full annotation on UniProt →
Function. Sequence-specific transcription factor that binds gene promoters and activates their transcription. Part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.
Subcellular location. Nucleus.
Disease relevance. Synpolydactyly 1 (SPD1) [MIM:186000] Limb malformation that shows a characteristic manifestation in both hands and feet. This condition is inherited as an autosomal dominant trait with reduced penetrance. The disease is caused by variants affecting the gene represented in this entry. Brachydactyly D (BDD) [MIM:113200] A form of brachydactyly. Brachydactyly defines a group of inherited malformations characterized by shortening of the digits due to abnormal development of the phalanges and/or the metacarpals. Brachydactyly type D is characterized by short and broad terminal phalanges of the thumbs and big toes. The disease is caused by variants affecting the gene represented in this entry. Syndactyly 5 (SDTY5) [MIM:186300] A form of syndactyly, a congenital anomaly of the hand or foot marked by persistence of the webbing between adjacent digits that are more or less completely attached. The characteristic finding in SDTY5 is the presence of an associated metacarpal and metatarsal fusion. The metacarpals and metatarsals most commonly fused are the 4th and 5th or the 3rd and 4th. Soft tissue syndactyly usually affects the 3rd and 4th fingers and the 2nd and 3rd toes. The disease is caused by variants affecting the gene represented in this entry. Brachydactyly-syndactyly syndrome (BDSD) [MIM:610713] A disease characterized by generalized shortening of the hands and feet, broad and short distal phalanges of the thumbs, and cutaneous syndactyly of toes 2 and 3. The limb phenotypes observed in this syndrome overlap those of brachydactyly types A4, D, E and syndactyly type 1. The disease is caused by variants affecting the gene represented in this entry. Brachydactyly E1 (BDE1) [MIM:113300] A form of brachydactyly. Brachydactyly defines a group of inherited malformations characterized by shortening of the digits due to abnormal development of the phalanges and/or the metacarpals. Brachydactyly type E is characterized by shortening of the fingers mainly in the metacarpals and metatarsals. Wide variability in the number of digits affected occurs from person to person, even in the same family. Some individuals are moderately short of stature. Brachydactyly type E1 is characterized by shortening limited to fourth metacarpals and/or metatarsals. The disease is caused by variants affecting the gene represented in this entry. VACTERL association (VACTERL) [MIM:192350] VACTERL is an acronym for vertebral anomalies, anal atresia, congenital cardiac disease, tracheoesophageal fistula, renal anomalies, radial dysplasia, and other limb defects. The gene represented in this entry may be involved in disease pathogenesis. Brachydactyly-syndactyly-oligodactyly syndrome (BDSDO) [MIM:610713] A syndrome characterized by a complex brachydactyly-syndactyly-oligodactyly phenotype. Limb anomalies include reduced number of digits that are severely shortened, camptodactyly, syndactyly, absence of terminal phalanges of the thumbs, and absence of nails of the thumbs and toes. The disease is caused by variants affecting the gene represented in this entry.
Polymorphism. The poly-Ala region is polymorphic (11 to 15 residues) in the normal population and is expanded to about 22-29 residues in SPD1 and syndactyly type 5 patients.
Similarity. Belongs to the Abd-B homeobox family.
RefSeq proteins (1): NP_000514* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR001356 | HD | Domain |
| IPR009057 | Homeodomain-like_sf | Homologous_superfamily |
| IPR017970 | Homeobox_CS | Conserved_site |
| IPR022067 | HoxA13_N | Domain |
| IPR051003 | AP_axis_regulatory_Homeobox | Family |
Pfam: PF00046, PF12284
UniProt features (17 total): sequence variant 12, region of interest 2, chain 1, DNA-binding region 1, compositionally biased region 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-P35453-F1 | 57.18 | 0.19 |
Function
Pathways and Gene Ontology
Reactome pathways
0 pathways
MSigDB gene sets: 453 (showing top):
GSE18804_BRAIN_VS_COLON_TUMORAL_MACROPHAGE_DN, GSE45365_NK_CELL_VS_CD8A_DC_DN, GSE45365_NK_CELL_VS_CD11B_DC_UP, GOBP_MORPHOGENESIS_OF_AN_EPITHELIUM, GOBP_EPITHELIUM_DEVELOPMENT, BENPORATH_ES_WITH_H3K27ME3, GOBP_GLAND_MORPHOGENESIS, GOBP_REGULATION_OF_MORPHOGENESIS_OF_A_BRANCHING_STRUCTURE, GOBP_SKELETAL_SYSTEM_DEVELOPMENT, GOBP_PROSTATE_GLAND_MORPHOGENESIS, GOBP_EMBRYONIC_DIGIT_MORPHOGENESIS, GOBP_MALE_GENITALIA_DEVELOPMENT, GOBP_BRANCH_ELONGATION_OF_AN_EPITHELIUM, GOBP_GROWTH, GAUSSMANN_MLL_AF4_FUSION_TARGETS_A_DN
GO Biological Process (20): skeletal system development (GO:0001501), regulation of DNA-templated transcription (GO:0006355), regulation of transcription by RNA polymerase II (GO:0006357), transcription by RNA polymerase II (GO:0006366), anterior/posterior pattern specification (GO:0009952), male genitalia development (GO:0030539), response to testosterone (GO:0033574), regulation of cell population proliferation (GO:0042127), embryonic digit morphogenesis (GO:0042733), positive regulation of transcription by RNA polymerase II (GO:0045944), embryonic hindgut morphogenesis (GO:0048619), prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis (GO:0060527), morphogenesis of an epithelial fold (GO:0060571), branch elongation of an epithelium (GO:0060602), regulation of branching involved in prostate gland morphogenesis (GO:0060687), pattern specification process (GO:0007389), gland morphogenesis (GO:0022612), embryonic limb morphogenesis (GO:0030326), prostate gland development (GO:0030850), limb morphogenesis (GO:0035108)
GO Molecular Function (8): RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978), DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981), DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228), DNA binding (GO:0003677), chromatin binding (GO:0003682), DNA-binding transcription factor activity (GO:0003700), sequence-specific double-stranded DNA binding (GO:1990837), cis-regulatory region sequence-specific DNA binding (GO:0000987)
GO Cellular Component (3): chromatin (GO:0000785), nucleoplasm (GO:0005654), nucleus (GO:0005634)
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| RNA polymerase II transcription regulatory region sequence-specific DNA binding | 3 |
| DNA-templated transcription | 2 |
| regulation of DNA-templated transcription | 2 |
| transcription by RNA polymerase II | 2 |
| embryonic morphogenesis | 2 |
| regulation of transcription by RNA polymerase II | 2 |
| branching involved in prostate gland morphogenesis | 2 |
| gland development | 2 |
| transcription cis-regulatory region binding | 2 |
| cellular anatomical structure | 2 |
| system development | 1 |
| regulation of gene expression | 1 |
| regulation of RNA biosynthetic process | 1 |
| regionalization | 1 |
| male sex differentiation | 1 |
| genitalia development | 1 |
| reproductive system development | 1 |
| response to lipid | 1 |
| response to ketone | 1 |
| cell population proliferation | 1 |
| regulation of cellular process | 1 |
| embryonic limb morphogenesis | 1 |
| positive regulation of DNA-templated transcription | 1 |
| hindgut morphogenesis | 1 |
| prostate glandular acinus morphogenesis | 1 |
| morphogenesis of an epithelium | 1 |
| axis elongation | 1 |
| morphogenesis of a branching epithelium | 1 |
| regulation of morphogenesis of a branching structure | 1 |
| regulation of morphogenesis of an epithelium | 1 |
| regulation of reproductive process | 1 |
| multicellular organism development | 1 |
| multicellular organismal process | 1 |
| animal organ morphogenesis | 1 |
| limb morphogenesis | 1 |
| embryonic appendage morphogenesis | 1 |
| urogenital system development | 1 |
| reproductive structure development | 1 |
| appendage morphogenesis | 1 |
| limb development | 1 |
Protein interactions and networks
STRING
1294 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| HOXD13 | SHH | Q15465 | 869 |
| HOXD13 | SPDL1 | Q96EA4 | 868 |
| HOXD13 | NUP98 | P52948 | 829 |
| HOXD13 | CD274 | Q9NZQ7 | 726 |
| HOXD13 | PDCD1LG2 | Q9BQ51 | 702 |
| HOXD13 | PRRX1 | P54821 | 674 |
| HOXD13 | FBLN1 | P23142 | 663 |
| HOXD13 | PHF23 | Q9BUL5 | 641 |
| HOXD13 | SHOX2 | O60902 | 633 |
| HOXD13 | GLI3 | P10071 | 627 |
| HOXD13 | DDX10 | Q13206 | 621 |
| HOXD13 | PRSS53 | Q2L4Q9 | 605 |
| HOXD13 | HOXD10 | P28358 | 600 |
| HOXD13 | ZP2 | Q05996 | 599 |
| HOXD13 | HOXD11 | P31277 | 593 |
IntAct
53 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| TNFSF14 | TMEM11 | psi-mi:“MI:0914”(association) | 0.670 |
| JUN | NFATC1 | psi-mi:“MI:0914”(association) | 0.610 |
| IL13RA2 | METTL15 | psi-mi:“MI:0914”(association) | 0.530 |
| SLC2A12 | METTL15 | psi-mi:“MI:0914”(association) | 0.530 |
| PLAUR | XRCC3 | psi-mi:“MI:0914”(association) | 0.530 |
| GPR55 | LGALS3 | psi-mi:“MI:0914”(association) | 0.530 |
| DGCR2 | HOXD13 | psi-mi:“MI:0914”(association) | 0.530 |
| HOXD13 | EEF1D | psi-mi:“MI:0914”(association) | 0.530 |
| CREB1 | NFIX | psi-mi:“MI:0914”(association) | 0.350 |
| FOS | NFIX | psi-mi:“MI:0914”(association) | 0.350 |
| FOXA1 | NFIC | psi-mi:“MI:0914”(association) | 0.350 |
| FOXA2 | FOXN2 | psi-mi:“MI:0914”(association) | 0.350 |
| FOXA3 | DDX39A | psi-mi:“MI:0914”(association) | 0.350 |
| FOXB1 | DDX39A | psi-mi:“MI:0914”(association) | 0.350 |
| FOXC1 | NFIX | psi-mi:“MI:0914”(association) | 0.350 |
| FOXC2 | ZNF536 | psi-mi:“MI:0914”(association) | 0.350 |
| FOXE1 | DDX39A | psi-mi:“MI:0914”(association) | 0.350 |
| FOXF1 | HOXB9 | psi-mi:“MI:0914”(association) | 0.350 |
| FOXI2 | DDX39A | psi-mi:“MI:0914”(association) | 0.350 |
| FOXJ2 | TCERG1 | psi-mi:“MI:0914”(association) | 0.350 |
| FOXN1 | FOXN1 | psi-mi:“MI:0914”(association) | 0.350 |
| FOXQ1 | DDX39A | psi-mi:“MI:0914”(association) | 0.350 |
| RBPJ | SAMD1 | psi-mi:“MI:0914”(association) | 0.350 |
| JUN | psi-mi:“MI:0914”(association) | 0.350 | |
| PB1 | ESYT2 | psi-mi:“MI:0914”(association) | 0.350 |
| F9 | DDX11L8 | psi-mi:“MI:0914”(association) | 0.350 |
| RPS16 | MCRIP1 | psi-mi:“MI:0914”(association) | 0.350 |
| IQCN | TARS3 | psi-mi:“MI:0914”(association) | 0.350 |
BioGRID (85): HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS), HOXD13 (Affinity Capture-MS)
ESM2 similar proteins: A1A5R1, A2YXQ1, A4F5G6, A6NFN3, A6QPR6, E3WDQ9, O42366, O43251, O65034, O80416, P24344, P35453, P46609, P55316, P56260, P70217, Q00939, Q02962, Q0VD23, Q14671, Q17QD3, Q1A1A1, Q1A1A2, Q1A1A3, Q1A1A4, Q1A1A5, Q1A1A6, Q1KKX5, Q27002, Q2VB19, Q5NVN8, Q5R5X3, Q60987, Q642J5, Q66JB7, Q66KI6, Q6YHU8, Q6ZBH6, Q6ZK57, Q7TN99
Diamond homologs: A1YFT7, A2D5V0, A2D635, A2T6F8, A2T7D1, A2T7H7, G5EFY5, O14627, O42502, O42506, O43248, P02835, P09013, P09067, P09079, P09087, P09631, P09633, P10038, P10179, P17482, P17919, P20615, P23812, P24061, P24341, P24342, P24343, P24344, P28358, P28359, P31257, P31260, P31263, P31268, P31269, P31271, P31272, P31274, P31275
SIGNOR signaling
2 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| HOXD13 | “up-regulates quantity by expression” | EPHA7 | “transcriptional regulation” |
| HOXD13 | “up-regulates activity” | MEIS1 | binding |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 74 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| somitogenesis | 6 | 33.0× | 4e-06 |
| anatomical structure morphogenesis | 9 | 18.4× | 4e-07 |
| Notch signaling pathway | 6 | 12.5× | 7e-04 |
| chromatin organization | 6 | 8.8× | 4e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
188 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 28 |
| Likely pathogenic | 3 |
| Uncertain significance | 106 |
| Likely benign | 18 |
| Benign | 17 |
Top pathogenic / likely-pathogenic (30)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1332838 | NM_000523.4(HOXD13):c.708del (p.Asn236fs) | Pathogenic |
| 1451293 | NM_000523.4(HOXD13):c.186_212dup (p.Ala63_Ala71dup) | Pathogenic |
| 1452333 | NM_000523.4(HOXD13):c.542_552del (p.Asn181fs) | Pathogenic |
| 1453451 | NM_000523.4(HOXD13):c.314_315del (p.Lys105fs) | Pathogenic |
| 14867 | NM_000523.4(HOXD13):c.323_336del (p.Pro108fs) | Pathogenic |
| 14868 | NM_000523.4(HOXD13):c.834del (p.Lys279fs) | Pathogenic |
| 14869 | NM_000523.4(HOXD13):c.964A>C (p.Ile322Leu) | Pathogenic |
| 14871 | NM_000523.4(HOXD13):c.782-2del | Pathogenic |
| 14873 | NM_000523.4(HOXD13):c.209_210insGGCTGCGGCGGCGGCAGCGGC (p.Ala65_Ala71dup) | Pathogenic |
| 14874 | NM_000523.4(HOXD13):c.974A>G (p.Gln325Arg) | Pathogenic |
| 14875 | NM_000523.4(HOXD13):c.183_203del (p.Ala65_Ala71del) | Pathogenic |
| 14876 | NM_000523.4(HOXD13):c.683G>T (p.Gly228Val) | Pathogenic |
| 1919465 | NM_000523.4(HOXD13):c.183_203dup (p.Ala71_Ser72insAlaAlaAlaAlaAlaAlaAla) | Pathogenic |
| 225650 | NM_000523.4(HOXD13):c.742C>T (p.Gln248Ter) | Pathogenic |
| 225652 | NM_000523.4(HOXD13):c.917G>A (p.Arg306Gln) | Pathogenic |
| 225653 | NM_000523.4(HOXD13):c.781+1G>A | Pathogenic |
| 225654 | NM_000523.4(HOXD13):c.683G>C (p.Gly228Ala) | Pathogenic |
| 225655 | NM_000523.4(HOXD13):c.973C>A (p.Gln325Lys) | Pathogenic |
| 225656 | NM_000523.4(HOXD13):c.916C>G (p.Arg306Gly) | Pathogenic |
| 2502140 | NM_000523.4(HOXD13):c.684dup (p.Tyr229fs) | Pathogenic |
| 3252671 | NM_000523.4(HOXD13):c.206_207insAGCGGCGGCTGCGGCGGCGGCAGC (p.Ala71_Ser72insAlaAlaAlaAlaAlaAlaAlaAla) | Pathogenic |
| 3256389 | NM_000523.4(HOXD13):c.212_213insTGCCGCCGCCGCAGCCGCCGCTGCCGC (p.Ala71_Ser72insAlaAlaAlaAlaAlaAlaAlaAlaAla) | Pathogenic |
| 3346356 | NM_000523.4(HOXD13):c.858del (p.Gln287fs) | Pathogenic |
| 3382450 | NM_000523.4(HOXD13):c.673del (p.Ser225fs) | Pathogenic |
| 3728565 | NM_000523.4(HOXD13):c.663_664del (p.Glu221fs) | Pathogenic |
| 4271933 | NM_000523.4(HOXD13):c.461C>A (p.Ser154Ter) | Pathogenic |
| 689765 | NM_000523.4(HOXD13):c.744_747del (p.Gln248fs) | Pathogenic |
| 916250 | NM_000523.4(HOXD13):c.212_213insGGCGGCTGCGGCGGCGGCAGCGGCAGC (p.Ala63_Ala71dup) | Pathogenic |
| 1324539 | NM_000523.4(HOXD13):c.203_204insA (p.Ala69fs) | Likely pathogenic |
| 2499278 | NM_000523.4(HOXD13):c.938C>G (p.Thr313Arg) | Likely pathogenic |
SpliceAI
179 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 2:176094477:CAG:C | acceptor_loss | 1.0000 |
| 2:176094478:AGG:A | acceptor_gain | 1.0000 |
| 2:176094479:GGG:G | acceptor_gain | 1.0000 |
| 2:176093667:TCCAG:T | donor_loss | 0.9900 |
| 2:176093668:CCAG:C | donor_loss | 0.9900 |
| 2:176093669:CAGGT:C | donor_loss | 0.9900 |
| 2:176093670:AGGTA:A | donor_loss | 0.9900 |
| 2:176093671:GG:G | donor_loss | 0.9900 |
| 2:176093672:GT:G | donor_loss | 0.9900 |
| 2:176093673:T:A | donor_loss | 0.9900 |
| 2:176094468:T:TA | acceptor_gain | 0.9900 |
| 2:176094475:A:AG | acceptor_gain | 0.9900 |
| 2:176094475:ATCAG:A | acceptor_gain | 0.9900 |
| 2:176094476:T:G | acceptor_gain | 0.9900 |
| 2:176094478:A:AG | acceptor_gain | 0.9900 |
| 2:176094478:AG:A | acceptor_gain | 0.9900 |
| 2:176094478:AGGG:A | acceptor_gain | 0.9900 |
| 2:176094479:G:GG | acceptor_gain | 0.9900 |
| 2:176094479:GG:G | acceptor_gain | 0.9900 |
| 2:176094479:GGGG:G | acceptor_gain | 0.9900 |
| 2:176093455:G:GT | donor_gain | 0.9800 |
| 2:176094472:T:A | acceptor_gain | 0.9800 |
| 2:176093576:ACC:A | donor_gain | 0.9700 |
| 2:176094472:T:TA | acceptor_loss | 0.9700 |
| 2:176094476:TCAGG:T | acceptor_gain | 0.9700 |
| 2:176094477:CA:C | acceptor_gain | 0.9700 |
| 2:176094478:A:C | acceptor_gain | 0.9700 |
| 2:176094479:GGGGA:G | acceptor_gain | 0.9700 |
| 2:176094474:TATCA:T | acceptor_gain | 0.9600 |
| 2:176094479:G:T | acceptor_gain | 0.9600 |
AlphaMissense
2191 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 2:176094528:G:T | R277M | 1.000 |
| 2:176094529:G:C | R277S | 1.000 |
| 2:176094529:G:T | R277S | 1.000 |
| 2:176094530:A:G | K278E | 1.000 |
| 2:176094532:G:C | K278N | 1.000 |
| 2:176094532:G:T | K278N | 1.000 |
| 2:176094537:G:C | R280T | 1.000 |
| 2:176094538:A:C | R280S | 1.000 |
| 2:176094538:A:T | R280S | 1.000 |
| 2:176094543:C:A | P282H | 1.000 |
| 2:176094545:T:A | Y283N | 1.000 |
| 2:176094545:T:C | Y283H | 1.000 |
| 2:176094545:T:G | Y283D | 1.000 |
| 2:176094546:A:G | Y283C | 1.000 |
| 2:176094549:C:T | T284I | 1.000 |
| 2:176094558:A:G | Q287R | 1.000 |
| 2:176094559:G:C | Q287H | 1.000 |
| 2:176094559:G:T | Q287H | 1.000 |
| 2:176094561:T:A | L288H | 1.000 |
| 2:176094561:T:C | L288P | 1.000 |
| 2:176094570:T:A | L291Q | 1.000 |
| 2:176094570:T:C | L291P | 1.000 |
| 2:176094570:T:G | L291R | 1.000 |
| 2:176094573:A:T | E292V | 1.000 |
| 2:176094574:G:C | E292D | 1.000 |
| 2:176094574:G:T | E292D | 1.000 |
| 2:176094581:T:C | Y295H | 1.000 |
| 2:176094581:T:G | Y295D | 1.000 |
| 2:176094582:A:C | Y295S | 1.000 |
| 2:176094582:A:G | Y295C | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000616285 (2:176091021 C>T), RS1000890848 (2:176091280 G>A), RS1000944462 (2:176095478 T>G), RS1000977286 (2:176095710 T>A), RS1000986290 (2:176086701 G>A), RS1001133189 (2:176089709 G>A,C), RS1001164454 (2:176091985 T>C), RS1001216914 (2:176092288 G>A), RS1001303211 (2:176089178 C>CT), RS1001368765 (2:176086070 T>A), RS1001502598 (2:176089221 T>C,G), RS1003168782 (2:176089153 A>G), RS1003221054 (2:176089545 G>A), RS1003284229 (2:176095995 G>A), RS1003422511 (2:176095630 G>A,C,T)
Disease associations
OMIM: gene MIM:142989 | disease phenotypes: MIM:610713, MIM:113200, MIM:113300, MIM:186000, MIM:186300, MIM:192350, MIM:603596
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| brachydactyly-syndactyly syndrome | Definitive | Autosomal dominant |
| synpolydactyly type 1 | Strong | Autosomal dominant |
| syndactyly type 5 | Strong | Autosomal dominant |
| brachydactyly type D | Strong | Autosomal dominant |
| brachydactyly type E1 | Strong | Autosomal dominant |
| brachydactyly type E | Supportive | Autosomal dominant |
Mondo (15): brachydactyly-syndactyly syndrome (MONDO:0012544), brachydactyly type D (MONDO:0007222), brachydactyly type E1 (MONDO:0007223), synpolydactyly type 1 (MONDO:0008513), syndactyly type 5 (MONDO:0008516), brachydactyly type E (MONDO:0019677), VACTERL/vater association (MONDO:0008642), brachydactyly-syndactyly-oligodactyly syndrome (MONDO:0800344), skeletal dysplasia (MONDO:0018230), intellectual disability (MONDO:0001071), oligospermia (MONDO:0001913), male infertility (MONDO:0005372), syndactyly (MONDO:0021002), polydactyly (MONDO:0021003), synpolydactyly (MONDO:0021651)
Orphanet (9): Brachydactyly-syndactyly, Zhao type (Orphanet:93409), Synpolydactyly type 1 (Orphanet:295195), Brachydactyly type E (Orphanet:93387), Syndactyly type 5 (Orphanet:93406), VACTERL/VATER association (Orphanet:887), Primary bone dysplasia (Orphanet:364526), Syndactyly type 2 (Orphanet:93403), NON RARE IN EUROPE: Brachydactyly type D (Orphanet:93385), NON RARE IN EUROPE: Unexplained intellectual disability (Orphanet:319658)
HPO phenotypes
97 total (30 of 97 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000003 | Multicystic kidney dysplasia |
| HP:0000006 | Autosomal dominant inheritance |
| HP:0000008 | Abnormal morphology of female internal genitalia |
| HP:0000028 | Cryptorchidism |
| HP:0000047 | Hypospadias |
| HP:0000048 | Bifid scrotum |
| HP:0000062 | Ambiguous genitalia |
| HP:0000086 | Ectopic kidney |
| HP:0000104 | Renal agenesis |
| HP:0000126 | Hydronephrosis |
| HP:0000175 | Cleft palate |
| HP:0000239 | Large fontanelles |
| HP:0000256 | Macrocephaly |
| HP:0000311 | Round face |
| HP:0000358 | Posteriorly rotated ears |
| HP:0000772 | Abnormal rib morphology |
| HP:0000776 | Congenital diaphragmatic hernia |
| HP:0000795 | Abnormality of the urethra |
| HP:0000894 | Short clavicles |
| HP:0001032 | Absent distal interphalangeal creases |
| HP:0001048 | Cavernous hemangioma |
| HP:0001156 | Brachydactyly |
| HP:0001159 | Syndactyly |
| HP:0001177 | Preaxial hand polydactyly |
| HP:0001195 | Single umbilical artery |
| HP:0001382 | Joint hypermobility |
| HP:0001440 | Metatarsal synostosis |
| HP:0001501 | 6 metacarpals |
| HP:0001511 | Intrauterine growth retardation |
| HP:0001539 | Omphalocele |
GWAS associations
1 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST006661_148 | Male-pattern baldness | 3.000000e-18 |
MeSH disease descriptors (10)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D007248 | Infertility, Male | C12.100.500.430; C12.100.750.700; C12.200.294.430 |
| D008607 | Intellectual Disability | C10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539 |
| D009845 | Oligospermia | C12.100.500.430.508; C12.100.750.700.508; C12.200.294.430.508 |
| D017689 | Polydactyly | C05.660.585.600; C16.131.621.585.600 |
| D013576 | Syndactyly | C05.116.099.370.894.819; C05.660.585.800; C05.660.906.819; C16.131.621.585.800; C16.131.621.906.819 |
| C562420 | Brachydactyly, Type D (supp.) | |
| C566194 | Brachydactyly, Type E (supp.) | |
| C565193 | Brachydactyly-Syndactyly Syndrome (supp.) | |
| C538153 | Syndactyly, type 2 (supp.) | |
| C538155 | Syndactyly, type v (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
10 total (human), top 10 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| (+)-JQ1 compound | decreases expression | 2 |
| Valproic Acid | increases expression, increases methylation | 2 |
| sodium arsenite | increases expression | 1 |
| CGP 52608 | affects binding, increases reaction | 1 |
| Resveratrol | affects cotreatment, decreases expression | 1 |
| Benzo(a)pyrene | increases methylation, affects methylation | 1 |
| Plant Extracts | affects cotreatment, decreases expression | 1 |
| Vitallium | increases expression | 1 |
| Aflatoxin B1 | decreases methylation | 1 |
| Okadaic Acid | decreases expression | 1 |
Cellosaurus cell lines
3 cell lines: 3 embryonic stem cell
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_A3B1 | SEES3-1V human HOXD13, clone1 | Embryonic stem cell | Male |
| CVCL_A3B2 | SEES3-1V human HOXD13, clone2 | Embryonic stem cell | Male |
| CVCL_A3B3 | SEES3-1V human HOXD13, clone3 | Embryonic stem cell | Male |
Clinical trials (associated diseases)
299 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT05657860 | PHASE4 | COMPLETED | Guanfacine Extended Release for the Reduction of Aggression and Self-injurious Behavior Associated With Prader-Willi Syndrome |
| NCT05744479 | PHASE4 | RECRUITING | Metformin for Antipsychotic-induced Weight Gain in Adults With Intellectual Disability |
| NCT06107829 | PHASE4 | WITHDRAWN | Valbenazine Treatment of Tardive Dyskinesia in Adults With Intellectual/Developmental Disabilities |
| NCT06997198 | PHASE4 | NOT_YET_RECRUITING | Deutetrabenazine Treatment for Tardive Dyskinesia in Intellectual/Developmental Disabilities |
| NCT02307994 | PHASE4 | UNKNOWN | Clinical Research on Effectiveness and Safety of Treatment of Severe Oligospermia or Azoospermia With uFSH |
| NCT05320536 | PHASE4 | UNKNOWN | A Clinical Study of Gulingji Capsule in the Treatment of Idiopathic Oligospermia, Asthenia, and Teratozoospermia |
| NCT06260007 | PHASE4 | RECRUITING | Efficacy and Safety Study of Products Based on Tribulus Terrestris, L. in Men With Oligospermia |
| NCT02202382 | PHASE4 | COMPLETED | Effects of Korean Red Ginseng on Male Infertility |
| NCT02204826 | PHASE4 | COMPLETED | Effects of Korean Red Ginseng on Semen Parameters in Male Infertility Patients: a Randomized, Placebo-controlled, Double-blind Clinical Study |
| NCT03802864 | PHASE4 | COMPLETED | Post-operative Pain Control of Testicular Sperm Extraction Using Liposomal Bupivacaine |
| NCT06100432 | PHASE4 | ACTIVE_NOT_RECRUITING | Effect of Eurycoma Longifolia (DLBS5055) and Multivitamins (Vitamin C+Vitamin E+ β-carotene) for Infertile Males |
| NCT07523022 | PHASE4 | ENROLLING_BY_INVITATION | Comparison of the Effect of Gonadotropin and Clomiphene Citrate Treatment on Sperm Parameters and the Outcome of Assisted Reproductive Procedures in Subfertile Men Based on the APHRODITE Groups |
| NCT02270736 | PHASE3 | COMPLETED | Clinical Study to Investigate the Efficacy and Safety of NT 201 Compared to Placebo in the Treatment of Chronic Troublesome Drooling Associated With Neurological Disorders and/or Intellectual Disability |
| NCT00440180 | PHASE3 | TERMINATED | Aromatase Inhibitors in the Treatment of Male Infertility |
| NCT00975117 | PHASE3 | COMPLETED | Spermotrend in the Treatment of Male Infertility |
| NCT01407432 | PHASE3 | COMPLETED | Impact of Folates in the Care of the Male Infertility |
| NCT01895816 | PHASE3 | COMPLETED | Herbal Tonic Fertile Supplement(ZO2C5) |
| NCT02605070 | PHASE3 | TERMINATED | Pilot Study on the Effects of FSH Treatment on the Epigenetic Characteristics of Spermatozoa in Infertile Patients With Severe Oligozoospermia |
| NCT07402759 | PHASE3 | ACTIVE_NOT_RECRUITING | Impact of tdrd9 Gene Mutations in the Therapeutic Response to L-carnitine in Oligoasthenozoospermic Men |
| NCT02304302 | PHASE2 | COMPLETED | Down Syndrome Memantine Follow-up Study |
| NCT03862950 | PHASE2 | COMPLETED | A Trial of Metformin in Individuals With Fragile X Syndrome (Met) |
| NCT04529226 | PHASE2 | UNKNOWN | Study to Compare Clozapine vs Treatment as Usual in People With Intellectual Disability & Treatment-resistant Psychosis |
| NCT04821856 | PHASE2 | COMPLETED | Evaluation of the Effectiveness of Cannabidiol in Treating Severe Behavioural Problems in Children and Adolescents With Intellectual Disability |
| NCT01409837 | PHASE2 | COMPLETED | The Effect and Safety of Lisinopril in Non-hypertensive Men With Infertility From Low Sperm Count |
| NCT02234206 | PHASE2 | COMPLETED | A Clinical Trial to Study the Safety and Efficacy of Chandrakanthi Choornam in Patients With Low Sperm Count |
| NCT07481370 | PHASE2 | ENROLLING_BY_INVITATION | Isotretinoin vs hCG for Male Infertility Due to Low or Absent Sperm |
| NCT01880086 | PHASE2 | COMPLETED | Clomiphene Citrate for the Treatment of Low Testosterone Associated With Chronic Opioid Pain Medication Administration |
| NCT02061384 | PHASE2 | COMPLETED | RA-2 13-cis Retinoic Acid (Isotretinoin) |
| NCT02421887 | PHASE2 | COMPLETED | Males, Antioxidants, and Infertility Trial |
| NCT05200663 | PHASE2 | UNKNOWN | Efficacy Comparison of Tamoxifen and Tamoxifen With Antioxidants on Semen Quality of Male With Idiopathic Infertility |
| NCT05290558 | PHASE2 | ACTIVE_NOT_RECRUITING | The Therapeutic Effects of Bu Shen Yi Jing Pill on Semen Quality in Sub Fertile Males: a Randomized Controlled Trial |
| NCT06091969 | PHASE2 | NOT_YET_RECRUITING | Supplementation for Male Subfertility |
| NCT05273320 | PHASE1 | COMPLETED | Clinical Trial of Nabilone for Aggression in Adults With Intellectual and Developmental Disabilities |
| NCT05301361 | PHASE1 | ENROLLING_BY_INVITATION | Sensitivity of the NIH Toolbox to Stimulant Treatment in Intellectual Disabilities |
| NCT06016764 | PHASE1 | COMPLETED | Use of MRI and cTBS for Catatonia in Autism |
| NCT06586827 | PHASE1 | COMPLETED | Impact of Competency-Based Training and Technical Assistance Employment Outcomes of Individuals With ID/DD |
| NCT07531940 | PHASE1 | NOT_YET_RECRUITING | Escalating Doses of Memantine in Down Syndrome (MEDS-123) |
| NCT05158114 | PHASE1 | WITHDRAWN | Safety of Cultured Allogeneic Adult Umbilical Cord Derived Mesenchymal Stem Cells for Testicular Injury and Oligospermia |
| NCT01595308 | PHASE1 | COMPLETED | A Pilot Study to Evaluate the Effect of Pomegranate Juice on Semen Parameters in Healthy Male Volunteers |
| NCT02122211 | PHASE1 | COMPLETED | Choline Dehydrogenase and Sperm Function: Effects of Betaine |
Related Atlas pages
- Associated diseases: synpolydactyly type 1, brachydactyly-syndactyly syndrome, brachydactyly type E, syndactyly type 5, brachydactyly type D, brachydactyly type E1
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): brachydactyly type D, brachydactyly type E, brachydactyly type E1, brachydactyly-syndactyly syndrome, brachydactyly-syndactyly-oligodactyly syndrome, oligospermia, polydactyly, skeletal dysplasia, syndactyly, syndactyly type 5, synpolydactyly, synpolydactyly type 1, VACTERL/vater association