FAM50A
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Also known as DXS9928EXAP5HXC-269F
Summary
FAM50A (family with sequence similarity 50 member A, HGNC:18786) is a protein-coding gene on chromosome Xq28, encoding Protein FAM50A (Q14320). Probably involved in the regulation of pre-mRNA splicing. It is a selective cancer dependency (DepMap: 49.3% of cell lines).
This gene belongs to the FAM50 family. The encoded protein is highly conserved in length and sequence across different species. It is a basic protein containing a nuclear localization signal, and may function as a DNA-binding protein or a transcriptional factor.
Source: NCBI Gene 9130 — RefSeq curated summary.
At a glance
- Gene–disease (curated): Armfield syndrome (Strong, GenCC)
- Clinical variants (ClinVar): 130 total — 4 likely-pathogenic
- Phenotypes (HPO): 15
- Cancer dependency (DepMap): dependent in 49.3% of screened cell lines
- MANE Select transcript:
NM_004699
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:18786 |
| Approved symbol | FAM50A |
| Name | family with sequence similarity 50 member A |
| Location | Xq28 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | DXS9928E, XAP5, HXC-26, 9F |
| Ensembl gene | ENSG00000071859 |
| Ensembl biotype | protein_coding |
| OMIM | 300453 |
| Entrez | 9130 |
Gene structure
Transcript identifiers
Ensembl transcripts: 15 — 10 protein_coding, 5 retained_intron
ENST00000158526, ENST00000393600, ENST00000464419, ENST00000478509, ENST00000481619, ENST00000490480, ENST00000494278, ENST00000854482, ENST00000854483, ENST00000854484, ENST00000854485, ENST00000920316, ENST00000920317, ENST00000944939, ENST00000944940
RefSeq mRNA: 1 — MANE Select: NM_004699
NM_004699
CCDS: CCDS14751
Canonical transcript exons
ENST00000393600 — 13 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000678496 | 154449681 | 154449735 |
| ENSE00000678501 | 154449883 | 154449931 |
| ENSE00001951259 | 154444141 | 154444346 |
| ENSE00003480769 | 154450424 | 154450654 |
| ENSE00003508146 | 154450209 | 154450319 |
| ENSE00003518728 | 154448690 | 154448756 |
| ENSE00003529974 | 154449221 | 154449297 |
| ENSE00003627480 | 154448484 | 154448560 |
| ENSE00003649100 | 154446415 | 154446560 |
| ENSE00003663197 | 154445812 | 154445911 |
| ENSE00003666604 | 154445633 | 154445717 |
| ENSE00003687691 | 154448893 | 154448954 |
| ENSE00003786634 | 154450029 | 154450099 |
Expression profiles
Bgee: expression breadth ubiquitous, 283 present calls, max score 98.69.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 57.9445 / max 253.9891, expressed in 1823 samples.
FANTOM5 promoters (2 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 198186 | 53.6351 | 1822 |
| 198187 | 4.3094 | 1463 |
Top tissues by expression
292 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| sural nerve | UBERON:0015488 | 98.69 | gold quality |
| adenohypophysis | UBERON:0002196 | 98.04 | gold quality |
| stromal cell of endometrium | CL:0002255 | 97.90 | gold quality |
| pituitary gland | UBERON:0000007 | 97.38 | gold quality |
| tendon of biceps brachii | UBERON:0008188 | 97.32 | gold quality |
| C1 segment of cervical spinal cord | UBERON:0006469 | 97.22 | gold quality |
| right lobe of thyroid gland | UBERON:0001119 | 97.21 | gold quality |
| left lobe of thyroid gland | UBERON:0001120 | 97.15 | gold quality |
| apex of heart | UBERON:0002098 | 97.14 | gold quality |
| right hemisphere of cerebellum | UBERON:0014890 | 97.13 | gold quality |
| lower esophagus muscularis layer | UBERON:0035833 | 97.12 | gold quality |
| esophagogastric junction muscularis propria | UBERON:0035841 | 97.12 | gold quality |
| lower esophagus | UBERON:0013473 | 97.11 | gold quality |
| muscle layer of sigmoid colon | UBERON:0035805 | 97.09 | gold quality |
| cerebellar hemisphere | UBERON:0002245 | 97.04 | gold quality |
| left coronary artery | UBERON:0001626 | 97.02 | gold quality |
| mucosa of stomach | UBERON:0001199 | 96.97 | gold quality |
| cerebellar cortex | UBERON:0002129 | 96.96 | gold quality |
| ascending aorta | UBERON:0001496 | 96.93 | gold quality |
| thoracic aorta | UBERON:0001515 | 96.89 | gold quality |
| left adrenal gland cortex | UBERON:0035825 | 96.75 | gold quality |
| granulocyte | CL:0000094 | 96.71 | gold quality |
| coronary artery | UBERON:0001621 | 96.71 | gold quality |
| tibial nerve | UBERON:0001323 | 96.66 | gold quality |
| omental fat pad | UBERON:0010414 | 96.66 | gold quality |
| upper lobe of left lung | UBERON:0008952 | 96.62 | gold quality |
| peritoneum | UBERON:0002358 | 96.61 | gold quality |
| right adrenal gland | UBERON:0001233 | 96.60 | gold quality |
| aorta | UBERON:0000947 | 96.57 | gold quality |
| left adrenal gland | UBERON:0001234 | 96.57 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | yes | 7.91 |
| E-MTAB-6524 | no | 104.24 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
8 targeting FAM50A, 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-4267 | 99.96 | 66.53 | 2368 |
| HSA-MIR-6124 | 99.87 | 69.78 | 3551 |
| HSA-MIR-1207-5P | 99.49 | 69.11 | 2983 |
| HSA-MIR-6722-3P | 99.45 | 67.62 | 1919 |
| HSA-MIR-6507-5P | 99.36 | 70.46 | 2524 |
| HSA-MIR-4763-3P | 99.10 | 67.83 | 2649 |
| HSA-MIR-1909-3P | 99.03 | 66.56 | 1662 |
| HSA-MIR-4274 | 98.59 | 66.10 | 630 |
Functional genomics
DepMap (CRISPR cell-line fitness): dependent in 49.3% of screened cell lines.
Literature-anchored findings (GeneRIF, showing 3)
- Mutations in FAM50A suggest that Armfield XLID syndrome is a spliceosomopathy. (PMID:32703943)
- Proto-Oncogene FAM50A Can Regulate the Immune Microenvironment and Development of Hepatocellular Carcinoma In Vitro and In Vivo. (PMID:36834630)
- Upregulation of FAM50A promotes cancer development. (PMID:37393403)
Cross-species orthologs
5 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | fam50a | ENSDARG00000024895 |
| mus_musculus | Fam50a | ENSMUSG00000001962 |
| rattus_norvegicus | Fam50a | ENSRNOG00000058439 |
| drosophila_melanogaster | CG12259 | FBGN0039557 |
| caenorhabditis_elegans | WBGENE00008143 |
Paralogs (1): FAM50B (ENSG00000145945)
Protein
Protein identifiers
Protein FAM50A — Q14320 (reviewed: Q14320)
Alternative names: Protein HXC-26, Protein XAP-5
All UniProt accessions (2): Q14320, B0S8I6
UniProt curated annotations — full annotation on UniProt →
Function. Probably involved in the regulation of pre-mRNA splicing.
Subunit / interactions. Interacts with EFTUD2, a component of the spliceosome U5 complex. Interacts with DDX41, a component of the spliceosome C complex.
Subcellular location. Nucleus.
Tissue specificity. Widely expressed in fetal and adult tissues. Mostly abundant in fetal brain, liver and kidney; in the adult, high levels were also observed in heart, skeletal muscle, spleen, thymus, prostate and small intestine. Expressed in fetal cerebellum and hypothalamus. Low expression is observed in fetal temporal lobe.
Disease relevance. Intellectual developmental disorder, X-linked, syndromic, Armfield type (MRXSA) [MIM:300261] An X-linked recessive disorder characterized by global developmental delay with impaired intellectual development, walking difficulties and poor or absent speech. Affected individuals display a distinctive phenotype characterized by postnatal growth retardation, variable head circumference with a prominent forehead and dysmorphic facial features, ocular abnormalities, and seizures. The disease is caused by variants affecting the gene represented in this entry.
Similarity. Belongs to the FAM50 family.
RefSeq proteins (1): NP_004690* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR007005 | XAP5 | Family |
| IPR048337 | FAM50A/XAP5_C | Domain |
Pfam: PF04921
UniProt features (18 total): sequence variant 7, sequence conflict 2, region of interest 2, compositionally biased region 2, initiator methionine 1, chain 1, short sequence motif 1, modified residue 1, cross-link 1
Structure
Experimental structures (PDB)
2 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 8C6J | ELECTRON MICROSCOPY | 2.8 |
| 9FMD | ELECTRON MICROSCOPY | 3.3 |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q14320-F1 | 76.31 | 0.28 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Post-translational modifications (2): 2, 100
Function
Pathways and Gene Ontology
Reactome pathways
1 pathways
| ID | Pathway |
|---|---|
| R-HSA-72163 | mRNA Splicing - Major Pathway |
MSigDB gene sets: 156 (showing top):
ENK_UV_RESPONSE_KERATINOCYTE_UP, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_UP, GOBP_MALE_GAMETE_GENERATION, CAGCTG_AP4_Q5, IRF7_01, BLALOCK_ALZHEIMERS_DISEASE_UP, REACTOME_PROCESSING_OF_CAPPED_INTRON_CONTAINING_PRE_MRNA, E4F1_Q6, GOBP_RNA_SPLICING, OCT1_07, PYEON_CANCER_HEAD_AND_NECK_VS_CERVICAL_UP, LIAO_METASTASIS, ONDER_CDH1_TARGETS_2_UP, REACTOME_MRNA_SPLICING
GO Biological Process (5): chromatin organization (GO:0006325), mRNA processing (GO:0006397), spermatogenesis (GO:0007283), RNA splicing (GO:0008380), regulation of RNA splicing (GO:0043484)
GO Molecular Function (2): RNA binding (GO:0003723), protein binding (GO:0005515)
GO Cellular Component (2): nucleus (GO:0005634), nucleoplasm (GO:0005654)
Reactome top-level categories
Rollup of top-1 pathways:
| Category | Pathways |
|---|---|
| mRNA Splicing | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| RNA processing | 2 |
| cellular component organization | 1 |
| mRNA metabolic process | 1 |
| developmental process involved in reproduction | 1 |
| male gamete generation | 1 |
| RNA splicing | 1 |
| regulation of gene expression | 1 |
| regulation of primary metabolic process | 1 |
| nucleic acid binding | 1 |
| binding | 1 |
| intracellular membrane-bounded organelle | 1 |
| nuclear lumen | 1 |
| cellular anatomical structure | 1 |
Protein interactions and networks
STRING
672 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| FAM50A | RPP25L | Q8N5L8 | 532 |
| FAM50A | RPP25 | Q9BUL9 | 431 |
| FAM50A | THOC2 | Q8NI27 | 387 |
| FAM50A | BRMS1 | Q9HCU9 | 382 |
| FAM50A | CNOT2 | Q9NZN8 | 380 |
| FAM50A | FAM50B | Q9Y247 | 363 |
| FAM50A | EPRS1 | P07814 | 350 |
| FAM50A | MARS1 | P56192 | 337 |
| FAM50A | RPF2 | Q9H7B2 | 333 |
| FAM50A | DHX34 | Q14147 | 323 |
| FAM50A | UAP1L1 | Q3KQV9 | 319 |
| FAM50A | MRAP2 | Q96G30 | 318 |
| FAM50A | LIMS3 | P0CW19 | 312 |
| FAM50A | EFTUD2 | Q15029 | 310 |
| FAM50A | SF3B4 | Q15427 | 309 |
IntAct
32 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| MED4 | MED19 | psi-mi:“MI:0914”(association) | 0.900 |
| MED20 | MED19 | psi-mi:“MI:0914”(association) | 0.840 |
| PRPF19 | PLRG1 | psi-mi:“MI:0914”(association) | 0.770 |
| IFNA13 | IFNA14 | psi-mi:“MI:0914”(association) | 0.530 |
| DDX21 | MED19 | psi-mi:“MI:2364”(proximity) | 0.480 |
| FAM50A | psi-mi:“MI:0407”(direct interaction) | 0.440 | |
| H3C1 | SMCHD1 | psi-mi:“MI:2364”(proximity) | 0.410 |
| FAM50A | DNTTIP2 | psi-mi:“MI:0915”(physical association) | 0.400 |
| Snw1 | AKR7A2 | psi-mi:“MI:0914”(association) | 0.350 |
| LRRK2 | psi-mi:“MI:0914”(association) | 0.350 | |
| ARPC2 | psi-mi:“MI:0914”(association) | 0.350 | |
| C9orf78 | SNRNP200 | psi-mi:“MI:0914”(association) | 0.350 |
| CAPZB | ENAH | psi-mi:“MI:0914”(association) | 0.350 |
| EIF5 | EIF3CL | psi-mi:“MI:0914”(association) | 0.350 |
| FAM50A | SNRNP200 | psi-mi:“MI:0914”(association) | 0.350 |
| MBNL1 | SAP30 | psi-mi:“MI:0914”(association) | 0.350 |
| RNF40 | HNRNPR | psi-mi:“MI:0914”(association) | 0.350 |
| SPG21 | VAMP7 | psi-mi:“MI:0914”(association) | 0.350 |
| USP22 | ARPC2 | psi-mi:“MI:0914”(association) | 0.350 |
| FAM50A | C10orf62 | psi-mi:“MI:0914”(association) | 0.350 |
| ZBTB2 | SHTN1 | psi-mi:“MI:0914”(association) | 0.350 |
| ATP5PB | SH3PXD2B | psi-mi:“MI:0914”(association) | 0.350 |
| MRPL38 | METTL15 | psi-mi:“MI:0914”(association) | 0.350 |
| CABCOCO1 | NARS1 | psi-mi:“MI:0914”(association) | 0.350 |
| MEIS2 | LRPAP1 | psi-mi:“MI:0914”(association) | 0.350 |
| SLC35F4 | SHTN1 | psi-mi:“MI:0914”(association) | 0.350 |
| GPKOW | ESYT2 | psi-mi:“MI:2364”(proximity) | 0.270 |
| SUPV3L1 | BLTP3B | psi-mi:“MI:2364”(proximity) | 0.270 |
| NPM1 | SBNO1 | psi-mi:“MI:2364”(proximity) | 0.270 |
BioGRID (132): FAM50A (Affinity Capture-RNA), FAM50A (Affinity Capture-RNA), FAM50A (Co-fractionation), FAM50A (Affinity Capture-MS), FAM50A (Affinity Capture-MS), FAM50A (Proximity Label-MS), FAM50A (Affinity Capture-MS), FAM50A (Affinity Capture-MS), FAM50A (Positive Genetic), FAM50A (Negative Genetic), FAM50A (Positive Genetic), FAM50A (Positive Genetic), FAM50A (Negative Genetic), FAM50A (Negative Genetic), FAM50A (Positive Genetic)
ESM2 similar proteins: A6ZVE9, A8WXX7, A9UL78, B3LTX4, B5VKI1, B8BDW1, C7GWJ7, O16207, O74517, O80653, O94693, P28004, P40470, P53277, P53317, Q09882, Q10580, Q14320, Q16U25, Q18691, Q21278, Q28BK4, Q28IC1, Q299F9, Q2VPH1, Q3UHX2, Q4KLV7, Q4R846, Q568K9, Q5F1R6, Q62785, Q69JZ7, Q6CLA4, Q6CLJ7, Q6FIT9, Q6FSQ0, Q7LKZ5, Q7PYQ5, Q8GWI5, Q8H110
Diamond homologs: A8WXX7, B8BDW1, Q14320, Q16U25, Q18691, Q28BK4, Q299F9, Q2VPH1, Q4KLV7, Q4R846, Q54S94, Q568K9, Q69JZ7, Q7LKZ5, Q7PYQ5, Q8H110, Q9VAY7, Q9WTJ8, Q9WV03, Q9Y247
SIGNOR signaling
0 interactions.
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 47 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.
Reactome pathways:
| Pathway | Partners | Fold | FDR |
|---|---|---|---|
| mRNA Splicing - Major Pathway | 6 | 10.2× | 4e-03 |
| Dengue Virus-Host Interactions | 6 | 8.6× | 5e-03 |
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| mRNA splicing, via spliceosome | 6 | 12.8× | 2e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
130 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 4 |
| Uncertain significance | 47 |
| Likely benign | 14 |
| Benign | 1 |
Top pathogenic / likely-pathogenic (4)
| Variant ID | HGVS | Classification |
|---|---|---|
| 2404128 | NM_004699.4(FAM50A):c.760G>A (p.Glu254Lys) | Likely pathogenic |
| 872936 | NM_004699.4(FAM50A):c.764A>G (p.Asp255Gly) | Likely pathogenic |
| 872937 | NM_004699.4(FAM50A):c.763G>A (p.Asp255Asn) | Likely pathogenic |
| 872938 | NM_004699.4(FAM50A):c.761A>G (p.Glu254Gly) | Likely pathogenic |
SpliceAI
1940 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| X:154444344:G:GT | donor_gain | 1.0000 |
| X:154445628:CGCAG:C | acceptor_loss | 1.0000 |
| X:154445629:GCAGG:G | acceptor_loss | 1.0000 |
| X:154445630:CA:C | acceptor_loss | 1.0000 |
| X:154445631:A:AG | acceptor_gain | 1.0000 |
| X:154445631:AG:A | acceptor_gain | 1.0000 |
| X:154445632:G:GA | acceptor_gain | 1.0000 |
| X:154445632:GG:G | acceptor_gain | 1.0000 |
| X:154445632:GGA:G | acceptor_gain | 1.0000 |
| X:154445632:GGAGA:G | acceptor_gain | 1.0000 |
| X:154445709:GCACC:G | donor_gain | 1.0000 |
| X:154445713:CGTGG:C | donor_loss | 1.0000 |
| X:154445714:GTGG:G | donor_gain | 1.0000 |
| X:154445716:GG:G | donor_gain | 1.0000 |
| X:154445717:GG:G | donor_gain | 1.0000 |
| X:154445718:G:GG | donor_gain | 1.0000 |
| X:154445718:GTGA:G | donor_loss | 1.0000 |
| X:154445807:CAAA:C | acceptor_loss | 1.0000 |
| X:154445810:A:AC | acceptor_loss | 1.0000 |
| X:154445885:G:GT | donor_gain | 1.0000 |
| X:154445901:G:GT | donor_gain | 1.0000 |
| X:154445912:G:GG | donor_gain | 1.0000 |
| X:154445941:G:GT | donor_gain | 1.0000 |
| X:154445944:GCTA:G | donor_gain | 1.0000 |
| X:154445945:C:G | donor_gain | 1.0000 |
| X:154445948:G:GG | donor_gain | 1.0000 |
| X:154446405:A:AG | acceptor_gain | 1.0000 |
| X:154446406:C:G | acceptor_gain | 1.0000 |
| X:154446412:TA:T | acceptor_loss | 1.0000 |
| X:154446413:A:AG | acceptor_gain | 1.0000 |
AlphaMissense
2286 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| X:154444245:T:C | Y4H | 1.000 |
| X:154444251:G:C | G6R | 1.000 |
| X:154444251:G:T | G6C | 1.000 |
| X:154444252:G:A | G6D | 1.000 |
| X:154444272:C:A | R13S | 1.000 |
| X:154444272:C:T | R13C | 1.000 |
| X:154444276:C:A | A14D | 1.000 |
| X:154444285:T:C | L17P | 1.000 |
| X:154444297:G:C | R21P | 1.000 |
| X:154445666:T:A | F49I | 1.000 |
| X:154445666:T:C | F49L | 1.000 |
| X:154445666:T:G | F49V | 1.000 |
| X:154445667:T:C | F49S | 1.000 |
| X:154445667:T:G | F49C | 1.000 |
| X:154445668:C:A | F49L | 1.000 |
| X:154445668:C:G | F49L | 1.000 |
| X:154445684:G:C | A55P | 1.000 |
| X:154445693:G:C | A58P | 1.000 |
| X:154445700:T:A | L60H | 1.000 |
| X:154445700:T:C | L60P | 1.000 |
| X:154445717:G:C | G66R | 1.000 |
| X:154445717:G:T | G66C | 1.000 |
| X:154445812:G:A | G66D | 1.000 |
| X:154445815:T:A | L67H | 1.000 |
| X:154445815:T:C | L67P | 1.000 |
| X:154445824:T:C | L70P | 1.000 |
| X:154445833:T:C | M73T | 1.000 |
| X:154445834:G:A | M73I | 1.000 |
| X:154445834:G:C | M73I | 1.000 |
| X:154445834:G:T | M73I | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000080652 (X:154445971 G>A,T), RS1000267906 (X:154446267 G>A), RS1001543955 (X:154444648 C>A,G), RS1002151814 (X:154443837 T>G), RS1003344448 (X:154450494 C>T), RS1003618092 (X:154449879 C>G), RS1004059788 (X:154442946 A>G), RS1005096951 (X:154444963 C>T), RS1005476007 (X:154444671 C>T), RS1006319925 (X:154448640 G>A), RS1006600232 (X:154445524 A>G), RS1006980032 (X:154445080 C>T), RS1008024962 (X:154447108 G>A), RS1008053761 (X:154443720 C>G,T), RS1008215310 (X:154451058 G>A)
Disease associations
OMIM: gene MIM:300453 | disease phenotypes: MIM:300261, MIM:300100
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| Armfield syndrome | Strong | X-linked |
Mondo (3): Armfield syndrome (MONDO:0010284), adrenoleukodystrophy (MONDO:0018544), intellectual disability (MONDO:0001071)
Orphanet (3): X-linked intellectual disability, Armfield type (Orphanet:85276), X-linked adrenoleukodystrophy (Orphanet:43), NON RARE IN EUROPE: Unexplained intellectual disability (Orphanet:319658)
HPO phenotypes
15 total (15 of 15 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000175 | Cleft palate |
| HP:0000272 | Malar flattening |
| HP:0000486 | Strabismus |
| HP:0000501 | Glaucoma |
| HP:0000518 | Cataract |
| HP:0001249 | Intellectual disability |
| HP:0001250 | Seizure |
| HP:0001417 | X-linked inheritance |
| HP:0001419 | X-linked recessive inheritance |
| HP:0001773 | Short foot |
| HP:0004322 | Short stature |
| HP:0005922 | Abnormal hand morphology |
| HP:0011220 | Prominent forehead |
| HP:0011800 | Midface retrusion |
| HP:0200055 | Small hand |
GWAS associations
0 associations (top):
MeSH disease descriptors (3)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D000326 | Adrenoleukodystrophy | C10.228.140.163.100.084; C10.228.140.163.100.362.250; C10.228.140.695.625.250; C10.314.400.250; C10.597.606.360.455.124; C16.320.322.500.124; C16.320.400.525.124; C16.320.565.189.084; C16.320.565.189.362.250; C16.320.565.663.100; C18.452.132.100.084; C18.452.132.100.362.250; C18.452.648.189.084; C18.452.648.189.362.250; C18.452.648.663.100; C19.053.500.270 |
| D008607 | Intellectual Disability | C10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539 |
| C564551 | Armfield X-Linked Mental Retardation Syndrome (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
34 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Benzo(a)pyrene | affects methylation, increases expression | 4 |
| Valproic Acid | affects cotreatment, increases expression, increases methylation | 3 |
| Cyclosporine | increases expression | 3 |
| TAK-243 | increases sumoylation | 1 |
| triphenyl phosphate | affects expression | 1 |
| bisphenol A | affects expression | 1 |
| quercitrin | increases expression | 1 |
| sodium arsenite | increases expression | 1 |
| potassium chromate(VI) | decreases expression | 1 |
| di-n-butylphosphoric acid | affects expression | 1 |
| 2-palmitoylglycerol | increases expression | 1 |
| K 7174 | increases expression | 1 |
| ICG 001 | increases expression | 1 |
| abrine | increases expression | 1 |
| bromovanin | decreases expression | 1 |
| Sunitinib | increases expression | 1 |
| Acetaminophen | increases expression | 1 |
| Air Pollutants | decreases expression, increases abundance | 1 |
| Doxorubicin | increases expression | 1 |
| Ethyl Methanesulfonate | increases expression | 1 |
| Formaldehyde | increases expression | 1 |
| Hydralazine | affects cotreatment, increases expression | 1 |
| Ivermectin | decreases expression | 1 |
| Manganese | decreases expression | 1 |
| Methyl Methanesulfonate | increases expression | 1 |
| Quercetin | increases expression | 1 |
| Ribonucleotides | affects binding | 1 |
| Selenium | increases expression | 1 |
| Smoke | decreases expression | 1 |
| Tetrachlorodibenzodioxin | increases expression | 1 |
Clinical trials (associated diseases)
245 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT05003648 | PHASE4 | ACTIVE_NOT_RECRUITING | Treating Leg Symptoms in Women With X-linked Adrenoleukodystrophy |
| 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 |
| NCT00007020 | PHASE3 | COMPLETED | Compassionate Treatment of Patients With Inborn Errors of Bile Acid Metabolism With Cholic Acid |
| NCT00545597 | PHASE3 | TERMINATED | A Phase III Trial of Lorenzo’s Oil in Adrenomyeloneuropathy |
| 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 |
| NCT00004418 | PHASE2 | TERMINATED | Effect of Glycerol Trierucate on Clinical Course of Adrenoleukodystrophy |
| NCT00383448 | PHASE2 | COMPLETED | HSCT for High Risk Inherited Inborn Errors |
| NCT01043640 | PHASE2 | COMPLETED | Allogeneic Bone Marrow Transplant for Inherited Metabolic Disorders |
| NCT03864523 | PHASE2 | COMPLETED | Effect of Pioglitazone Administered to Patients With Adrenomyeloneuropathy |
| NCT05200104 | PHASE2 | WITHDRAWN | Study to Assess PXL065 in Subjects With Adrenomyeloneuropathy (AMN) Form of X-linked Adrenoleukodystrophy (X-ALD or ALD) |
| 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 |
| NCT01586455 | PHASE1 | COMPLETED | Human Placental-Derived Stem Cell Transplantation |
| NCT01787578 | PHASE1 | WITHDRAWN | Safety and Pharmacodynamic Study of Sobetirome in X-Linked Adrenoleukodystrophy (X-ALD) |
| NCT02254863 | PHASE1 | RECRUITING | UCB Transplant of Inherited Metabolic Diseases With Administration of Intrathecal UCB Derived Oligodendrocyte-Like Cells |
| NCT02595489 | PHASE1 | COMPLETED | A Pilot Study of Vitamin D in Boys With X-linked Adrenoleukodystrophy |
| 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) |
| NCT00176904 | PHASE2/PHASE3 | COMPLETED | Stem Cell Transplant for Inborn Errors of Metabolism |
| NCT02961803 | PHASE2/PHASE3 | COMPLETED | MD1003-AMN MD1003 in Adrenomyeloneuropathy |
| NCT03231878 | PHASE2/PHASE3 | COMPLETED | A Clinical Study to Evaluate the Efficacy and Safety of MIN-102 (IMP) in Male AMN Patients. |
| NCT04303416 | PHASE2/PHASE3 | COMPLETED | Plasma Exchange With Albumin in AMN Patients |
| NCT01372228 | PHASE1/PHASE2 | TERMINATED | Phase I/II Pilot Study of Mixed Chimerism to Treat Inherited Metabolic Disorders |
| NCT02559830 | PHASE1/PHASE2 | UNKNOWN | Autologous Hematopoietic Stem Cell Gene Therapy for Metachromatic Leukodystrophy and Adrenoleukodystrophy |
| NCT03196765 | PHASE1/PHASE2 | WITHDRAWN | Safety, Pharmacokinetics and Pharmacodynamics of NV1205 in Pediatric Male Subjects With Adrenoleukodystrophy |
| NCT03513328 | PHASE1/PHASE2 | COMPLETED | Conditioning Regimen for Allogeneic Hematopoietic Stem-Cell Transplantation |
| NCT05394064 | PHASE1/PHASE2 | TERMINATED | A Study to Evaluate Administration of SBT101 Gene Therapy in Adult Patients With Adrenomyeloneuropathy (AMN) |
| NCT00004442 | Not specified | TERMINATED | Study of Bile Acids in Patients With Peroxisomal Disorders |
| NCT00004450 | Not specified | COMPLETED | Randomized Study of Beta Interferon and Thalidomide in Patients With Adrenoleukodystrophy |
| NCT00005900 | Not specified | UNKNOWN | Study of Pulmonary Complications in Pediatric Patients With Storage Disorders Undergoing Allogeneic Hematopoietic Stem Cell Transplantation |
| NCT00278044 | Not specified | UNKNOWN | Clinical Study and Gene Mutation Analysis of Adrenoleukodystrophy in Taiwanese Children |
| NCT01165060 | Not specified | COMPLETED | The Effect of Bezafibrate on the Level of Very Long Chain Fatty Acids (VLCFA) in X-linked Adrenoleukodystrophy (X-ALD) |
Related Atlas pages
- Associated diseases: Armfield syndrome
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): adrenoleukodystrophy, Armfield syndrome