GAS2
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Summary
GAS2 (growth arrest specific 2, HGNC:4167) is a protein-coding gene on chromosome 11p14.3, encoding Growth arrest-specific protein 2 (O43903). Required to maintain microtubule bundles in inner ear supporting cells, affording them with mechanical stiffness to transmit sound energy through the cochlea.
The protein encoded by this gene is a caspase-3 substrate that plays a role in regulating microfilament and cell shape changes during apoptosis. It can also modulate cell susceptibility to p53-dependent apoptosis by inhibiting calpain activity. Alternative splicing results in multiple transcript variants.
Source: NCBI Gene 2620 — RefSeq curated summary.
At a glance
- Gene–disease (curated): hearing loss, autosomal recessive 125 (Moderate, GenCC) — +1 more curated relationship
- GWAS associations: 3
- Clinical variants (ClinVar): 42 total — 1 pathogenic, 1 likely-pathogenic
- Phenotypes (HPO): 7
- MANE Select transcript:
NM_001143830
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:4167 |
| Approved symbol | GAS2 |
| Name | growth arrest specific 2 |
| Location | 11p14.3 |
| Locus type | gene with protein product |
| Status | Approved |
| Ensembl gene | ENSG00000148935 |
| Ensembl biotype | protein_coding |
| OMIM | 602835 |
| Entrez | 2620 |
Gene structure
Transcript identifiers
Ensembl transcripts: 16 — 12 protein_coding, 3 protein_coding_CDS_not_defined, 1 nonsense_mediated_decay
ENST00000278187, ENST00000454584, ENST00000524701, ENST00000526665, ENST00000528582, ENST00000532398, ENST00000533092, ENST00000533363, ENST00000534801, ENST00000630668, ENST00000648096, ENST00000867051, ENST00000867052, ENST00000867053, ENST00000867054, ENST00000941622
RefSeq mRNA: 9 — MANE Select: NM_001143830
NM_001143830, NM_001351224, NM_001391933, NM_001391934, NM_001391935, NM_001391936, NM_001391937, NM_005256, NM_177553
CCDS: CCDS7858
Canonical transcript exons
ENST00000454584 — 8 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001138642 | 22726292 | 22726433 |
| ENSE00001602001 | 22666611 | 22666899 |
| ENSE00002197671 | 22811798 | 22813001 |
| ENSE00003484576 | 22685668 | 22685789 |
| ENSE00003487777 | 22737705 | 22737768 |
| ENSE00003515833 | 22674850 | 22675014 |
| ENSE00003594907 | 22755846 | 22755953 |
| ENSE00003789138 | 22749120 | 22749261 |
Expression profiles
Bgee: expression breadth ubiquitous, 226 present calls, max score 89.08.
FANTOM5 (CAGE): breadth broad, TPM avg 1.6724 / max 113.2547, expressed in 544 samples.
FANTOM5 promoters (21 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 113469 | 0.3660 | 180 |
| 113470 | 0.3586 | 188 |
| 113471 | 0.1986 | 92 |
| 113472 | 0.1118 | 49 |
| 113489 | 0.0982 | 21 |
| 113475 | 0.0823 | 40 |
| 113487 | 0.0597 | 23 |
| 113473 | 0.0535 | 25 |
| 113481 | 0.0512 | 10 |
| 113480 | 0.0501 | 14 |
Top tissues by expression
282 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| trigeminal ganglion | UBERON:0001675 | 89.08 | gold quality |
| liver | UBERON:0002107 | 88.82 | gold quality |
| sural nerve | UBERON:0015488 | 87.92 | gold quality |
| right lobe of liver | UBERON:0001114 | 87.41 | gold quality |
| islet of Langerhans | UBERON:0000006 | 86.78 | gold quality |
| C1 segment of cervical spinal cord | UBERON:0006469 | 83.12 | gold quality |
| pancreas | UBERON:0001264 | 82.98 | gold quality |
| skeletal muscle tissue of rectus abdominis | UBERON:0004511 | 82.87 | gold quality |
| calcaneal tendon | UBERON:0003701 | 82.75 | gold quality |
| primordial germ cell in gonad | CL:0000670 ∩ UBERON:0000991 | 82.70 | gold quality |
| dorsal root ganglion | UBERON:0000044 | 82.35 | gold quality |
| body of pancreas | UBERON:0001150 | 82.34 | gold quality |
| spinal cord | UBERON:0002240 | 82.34 | gold quality |
| male germ line stem cell (sensu Vertebrata) in testis | CL:0000089 ∩ UBERON:0000473 | 82.26 | gold quality |
| hair follicle | UBERON:0002073 | 80.78 | gold quality |
| adrenal tissue | UBERON:0018303 | 77.89 | gold quality |
| apex of heart | UBERON:0002098 | 77.63 | gold quality |
| hindlimb stylopod muscle | UBERON:0004252 | 77.30 | gold quality |
| metanephric glomerulus | UBERON:0004736 | 77.29 | gold quality |
| diaphragm | UBERON:0001103 | 76.93 | silver quality |
| biceps brachii | UBERON:0001507 | 76.79 | silver quality |
| tibial nerve | UBERON:0001323 | 76.34 | gold quality |
| cartilage tissue | UBERON:0002418 | 76.30 | gold quality |
| renal glomerulus | UBERON:0000074 | 76.29 | gold quality |
| heart left ventricle | UBERON:0002084 | 75.93 | gold quality |
| muscle of leg | UBERON:0001383 | 75.78 | gold quality |
| cardiac ventricle | UBERON:0002082 | 75.63 | gold quality |
| skeletal muscle organ | UBERON:0014892 | 75.47 | gold quality |
| muscle organ | UBERON:0001630 | 75.46 | gold quality |
| gastrocnemius | UBERON:0001388 | 75.38 | gold quality |
Single-cell (SCXA)
Detected in 3 experiment(s), a significant marker in 2.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-GEOD-76312 | yes | 6129.37 |
| E-ANND-3 | yes | 9.95 |
| E-MTAB-5061 | no | 3.08 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): ETV6, HDAC3, IRF8, STAT5A
miRNA regulators (miRDB)
71 targeting GAS2, 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-30A-5P | 100.00 | 76.31 | 3233 |
| HSA-MIR-30B-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30C-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30D-5P | 100.00 | 76.32 | 3233 |
| HSA-MIR-30E-5P | 100.00 | 76.32 | 3242 |
| HSA-MIR-5692A | 100.00 | 74.40 | 6850 |
| HSA-MIR-548C-3P | 99.99 | 74.01 | 7587 |
| HSA-MIR-4282 | 99.99 | 75.36 | 6408 |
| HSA-MIR-548P | 99.98 | 72.25 | 3784 |
| HSA-MIR-512-3P | 99.97 | 67.35 | 1049 |
| HSA-MIR-6888-3P | 99.97 | 65.95 | 1170 |
| HSA-MIR-1468-3P | 99.96 | 72.74 | 3797 |
| HSA-MIR-539-5P | 99.93 | 70.30 | 2855 |
| HSA-MIR-335-3P | 99.93 | 73.36 | 4958 |
| HSA-MIR-381-3P | 99.93 | 71.87 | 2854 |
| HSA-MIR-515-5P | 99.92 | 69.82 | 2343 |
| HSA-MIR-519E-5P | 99.92 | 69.62 | 2358 |
| HSA-MIR-300 | 99.92 | 71.76 | 2856 |
| HSA-MIR-145-5P | 99.92 | 71.13 | 1836 |
| HSA-MIR-5195-3P | 99.92 | 70.92 | 1877 |
| HSA-MIR-589-3P | 99.91 | 69.62 | 2088 |
| HSA-MIR-153-5P | 99.89 | 73.86 | 6317 |
| HSA-MIR-30A-3P | 99.87 | 69.74 | 2928 |
| HSA-MIR-30D-3P | 99.87 | 69.92 | 2917 |
| HSA-MIR-30E-3P | 99.87 | 69.68 | 2942 |
| HSA-MIR-629-3P | 99.85 | 67.99 | 1875 |
| HSA-MIR-576-5P | 99.84 | 70.46 | 2582 |
| HSA-MIR-520F-3P | 99.82 | 71.32 | 1216 |
| HSA-MIR-4799-5P | 99.82 | 70.60 | 2663 |
| HSA-MIR-8080 | 99.82 | 67.52 | 1342 |
Literature-anchored findings (GeneRIF, showing 12)
- Gas2DN can increase the activity of calpain and induce degradation of stabilized/mutated beta-catenin (PMID:15817486)
- Studies have identified a Gas2/calpain-dependent mechanism by which ICSBP influences beta-catenin activity in myeloid leukemia. (PMID:20679491)
- GAS2 is up-regulated in chronic myeloid leukemia cells. (PMID:24465953)
- Truncated HBx deregulates cell growth via direct silencing of GAS2 and thereby provides a survival advantage for pre-neoplastic hepatocytes to facilitate cancer development via TP53 signaling. (PMID:25925944)
- Taken together, our results demonstrated the deregulation of GAS2 in both AML and ALL and the requirement of GAS2-Calpain2 axis for the growth of leukemic cells. (PMID:26358320)
- This study found a highly significant correlation between colorectal cancers relapse and growth arrest-specific 2 (GAS2) gene expression. Based on cell models, the overexpressed GAS2 was associated with cellular growth rate, cell cycle regulation, and with chemotherapeutic sensitivity. (PMID:27085973)
- GAS2 protein expression was lower in hepatocellular carcinoma (HCC) than in normal tissues. Overexpression of GAS2 inhibited the proliferation of HCC cells with wide type p53, while knockdown of GAS2 promoted the proliferation of hepatocytes. Results suggest that GAS2 plays a vital role in HCC cell proliferation and apoptosis, possibly by regulating the cell cycle and p53-dependent apoptosis pathway. (PMID:31528096)
- UCHL1 enhances the malignant development of glioma via targeting GAS2. (PMID:32572885)
- Growth arrest-specific 2 protein family: Structure and function. (PMID:33103301)
- Cochlear supporting cells require GAS2 for cytoskeletal architecture and hearing. (PMID:33964205)
- Growth arrest-specific protein 2 (GAS2) interacts with CXCR4 to promote T-cell leukemogenesis partially via c-MYC. (PMID:36054080)
- A novel variant in GAS2 is associated with autosomal dominant nonsyndromic hearing impairment in a Chinese family. (PMID:38956677)
Cross-species orthologs
3 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | gas2a | ENSDARG00000001259 |
| mus_musculus | Gas2 | ENSMUSG00000030498 |
| rattus_norvegicus | Gas2 | ENSRNOG00000016717 |
Paralogs (7): ASPM (ENSG00000066279), MICALL1 (ENSG00000100139), EHBP1 (ENSG00000115504), MICALL2 (ENSG00000164877), EHBP1L1 (ENSG00000173442), GAS2L1 (ENSG00000185340), SMTNL1 (ENSG00000214872)
Protein
Protein identifiers
Growth arrest-specific protein 2 — O43903 (reviewed: O43903)
All UniProt accessions (5): O43903, E9PM28, E9PQ37, E9PQ74, E9PRR5
UniProt curated annotations — full annotation on UniProt →
Function. Required to maintain microtubule bundles in inner ear supporting cells, affording them with mechanical stiffness to transmit sound energy through the cochlea.
Subcellular location. Cytoplasm. Cytoskeleton. Stress fiber. Membrane.
Tissue specificity. Ubiquitously expressed with highest levels in liver, lung, and kidney. Not found in spleen.
Post-translational modifications. Cleaved, during apoptosis, on a specific aspartic residue by caspases. Phosphorylated on serine residues during the G0-G1 transition phase.
Disease relevance. Deafness, autosomal recessive, 125 (DFNB125) [MIM:620877] A form of non-syndromic deafness characterized by congenital sensorineural hearing loss. Sensorineural hearing loss results from damage to the neural receptors of the inner ear, the nerve pathways to the brain, or the area of the brain that receives sound information. The disease is caused by variants affecting the gene represented in this entry.
Similarity. Belongs to the GAS2 family.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| O43903-1 | 1 | yes |
| O43903-2 | 2 |
RefSeq proteins (9): NP_001137302, NP_001338153, NP_001378862, NP_001378863, NP_001378864, NP_001378865, NP_001378866, NP_005247, NP_808221 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR001715 | CH_dom | Domain |
| IPR003108 | GAR_dom | Domain |
| IPR036534 | GAR_dom_sf | Homologous_superfamily |
| IPR036872 | CH_dom_sf | Homologous_superfamily |
Pfam: PF00307, PF02187
UniProt features (10 total): domain 2, modified residue 2, splice variant 2, chain 1, region of interest 1, compositionally biased region 1, site 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-O43903-F1 | 80.86 | 0.59 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Catalytic / active sites (1): 278–279 (cleavage; by a caspase during apoptosis)
Post-translational modifications (2): 183, 187
Function
Pathways and Gene Ontology
Reactome pathways
1 pathways
| ID | Pathway |
|---|---|
| R-HSA-264870 | Caspase-mediated cleavage of cytoskeletal proteins |
MSigDB gene sets: 207 (showing top):
LIANG_HEMATOPOIESIS_STEM_CELL_NUMBER_SMALL_VS_HUGE_UP, BROWNE_HCMV_INFECTION_6HR_DN, GOBP_REGULATION_OF_CELL_MORPHOGENESIS, PAL_PRMT5_TARGETS_UP, GOBP_GROWTH, GAUSSMANN_MLL_AF4_FUSION_TARGETS_E_UP, HNF1_Q6, GOBP_OVARIAN_FOLLICLE_DEVELOPMENT, GOBP_REPRODUCTIVE_SYSTEM_DEVELOPMENT, SHETH_LIVER_CANCER_VS_TXNIP_LOSS_PAM4, GOBP_OVULATION_CYCLE_PROCESS, GOBP_OVULATION, GOBP_ACTIN_FILAMENT_ORGANIZATION, GOBP_REGULATION_OF_CELL_CYCLE, MODULE_480
GO Biological Process (9): initiation of primordial ovarian follicle growth (GO:0001544), antral ovarian follicle growth (GO:0001547), apoptotic process (GO:0006915), regulation of cell shape (GO:0008360), regulation of Notch signaling pathway (GO:0008593), ovulation (GO:0030728), regulation of cell cycle (GO:0051726), actin crosslink formation (GO:0051764), basement membrane organization (GO:0071711)
GO Molecular Function (3): microtubule binding (GO:0008017), actin filament binding (GO:0051015), protein binding (GO:0005515)
GO Cellular Component (6): stress fiber (GO:0001725), cytosol (GO:0005829), actin filament (GO:0005884), membrane (GO:0016020), cytoplasm (GO:0005737), cytoskeleton (GO:0005856)
Reactome top-level categories
Rollup of top-1 pathways:
| Category | Pathways |
|---|---|
| Apoptotic cleavage of cellular proteins | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 3 |
| ovarian follicle development | 2 |
| ovulation cycle process | 2 |
| developmental process involved in reproduction | 1 |
| developmental growth | 1 |
| programmed cell death | 1 |
| apoptotic signaling pathway | 1 |
| execution phase of apoptosis | 1 |
| regulation of cell morphogenesis | 1 |
| regulation of biological quality | 1 |
| Notch signaling pathway | 1 |
| regulation of signal transduction | 1 |
| female gamete generation | 1 |
| multicellular organismal reproductive process | 1 |
| cell cycle | 1 |
| regulation of cellular process | 1 |
| actin filament organization | 1 |
| extracellular matrix organization | 1 |
| tubulin binding | 1 |
| actin binding | 1 |
| protein-containing complex binding | 1 |
| binding | 1 |
| actomyosin | 1 |
| contractile actin filament bundle | 1 |
| cytoplasm | 1 |
| actin cytoskeleton | 1 |
| polymeric cytoskeletal fiber | 1 |
| intracellular anatomical structure | 1 |
| intracellular membraneless organelle | 1 |
Protein interactions and networks
STRING
926 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| GAS2 | GAS1 | P54826 | 930 |
| GAS2 | LUZP2 | Q86TE4 | 910 |
| GAS2 | RASL10A | Q92737 | 787 |
| GAS2 | LIPI | Q6XZB0 | 762 |
| GAS2 | PPL | O60437 | 712 |
| GAS2 | PLEC | Q15149 | 679 |
| GAS2 | SPA17 | Q15506 | 676 |
| GAS2 | EVPL | Q92817 | 664 |
| GAS2 | DSP | P15924 | 597 |
| GAS2 | PMP22 | Q01453 | 594 |
| GAS2 | TMEM108 | Q6UXF1 | 521 |
| GAS2 | MSN | P26038 | 497 |
| GAS2 | DMD | P11532 | 494 |
| GAS2 | RDX | P35241 | 492 |
| GAS2 | DYNC1H1 | Q14204 | 427 |
IntAct
2 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| GAS2 | HNRNPA3 | psi-mi:“MI:0915”(physical association) | 0.400 |
BioGRID (8): GAS2 (Synthetic Lethality), TBC1D21 (Two-hybrid), HNRNPA3 (Proximity Label-MS), GAS2 (Affinity Capture-MS), GAS2 (Affinity Capture-MS), GAS2 (Proximity Label-MS), GAS2 (Affinity Capture-Western), APP (Reconstituted Complex)
ESM2 similar proteins: A0JMA8, A1A535, A2AIV2, A6H8H2, A8E7C5, B7PXE3, D3ZHV2, F1REV3, O14617, O16785, O35711, O43150, O43903, O54774, P11862, P30427, Q14D04, Q5PQS3, Q5RAV3, Q5VZ89, Q61QK6, Q69YN4, Q6S5J6, Q6ZWQ0, Q6ZWR6, Q7SIG6, Q7Z3E5, Q865S1, Q8C1B1, Q8C4Q6, Q8CDA1, Q8NF91, Q8NFA0, Q91V36, Q91ZU6, Q96BJ3, Q99K01, Q9BXL7, Q9EPC1, Q9ERD8
Diamond homologs: A0A1L8H8C0, A0A1L8HFX9, D3ZHV2, D3ZUE1, O43903, O94854, P11862, Q03001, Q3UWW6, Q5SSG4, Q69ZZ9, Q86XJ1, Q8JZP9, Q8NHY3, Q91ZU6, Q99501, Q9QXZ0, Q9UPN3, Q9W3Y4
SIGNOR signaling
3 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| “Caspase 3 complex” | up-regulates | GAS2 | cleavage |
| GAS2 | up-regulates | F-actin_assembly | |
| CASP3 | up-regulates | GAS2 | cleavage |
Disease & clinical
Clinical variants and AI predictions
ClinVar
42 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 1 |
| Likely pathogenic | 1 |
| Uncertain significance | 32 |
| Likely benign | 0 |
| Benign | 1 |
Top pathogenic / likely-pathogenic (2)
| Variant ID | HGVS | Classification |
|---|---|---|
| 3250374 | NM_001143830.3(GAS2):c.723+1G>A | Pathogenic |
| 3383945 | NM_001143830.3(GAS2):c.533C>T (p.Thr178Ile) | Likely pathogenic |
SpliceAI
2037 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 11:22685657:T:A | acceptor_gain | 1.0000 |
| 11:22685663:TTCA:T | acceptor_loss | 1.0000 |
| 11:22685664:TCA:T | acceptor_loss | 1.0000 |
| 11:22685666:A:AG | acceptor_gain | 1.0000 |
| 11:22685666:A:T | acceptor_loss | 1.0000 |
| 11:22685666:AG:A | acceptor_gain | 1.0000 |
| 11:22685666:AGG:A | acceptor_gain | 1.0000 |
| 11:22685667:G:A | acceptor_gain | 1.0000 |
| 11:22685667:G:GC | acceptor_gain | 1.0000 |
| 11:22685667:GGG:G | acceptor_gain | 1.0000 |
| 11:22685667:GGGA:G | acceptor_gain | 1.0000 |
| 11:22685667:GGGAA:G | acceptor_gain | 1.0000 |
| 11:22685788:AGG:A | donor_loss | 1.0000 |
| 11:22685790:G:A | donor_loss | 1.0000 |
| 11:22685791:T:G | donor_loss | 1.0000 |
| 11:22726288:TCAG:T | acceptor_loss | 1.0000 |
| 11:22726289:CA:C | acceptor_loss | 1.0000 |
| 11:22726290:A:AG | acceptor_gain | 1.0000 |
| 11:22726290:AGAAT:A | acceptor_loss | 1.0000 |
| 11:22726291:G:GA | acceptor_loss | 1.0000 |
| 11:22726291:G:GG | acceptor_gain | 1.0000 |
| 11:22726291:GA:G | acceptor_gain | 1.0000 |
| 11:22726431:TGGG:T | donor_loss | 1.0000 |
| 11:22726434:G:GG | donor_gain | 1.0000 |
| 11:22726434:GT:G | donor_loss | 1.0000 |
| 11:22726435:T:G | donor_loss | 1.0000 |
| 11:22737703:A:AG | acceptor_gain | 1.0000 |
| 11:22737704:G:GG | acceptor_gain | 1.0000 |
| 11:22747921:G:GG | donor_gain | 1.0000 |
| 11:22749259:GCA:G | donor_gain | 1.0000 |
AlphaMissense
2046 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 11:22674988:T:C | L40P | 1.000 |
| 11:22685713:G:A | G64D | 1.000 |
| 11:22726343:T:C | F107L | 1.000 |
| 11:22726345:T:A | F107L | 1.000 |
| 11:22726345:T:G | F107L | 1.000 |
| 11:22726350:C:A | A109D | 1.000 |
| 11:22726353:G:C | R110T | 1.000 |
| 11:22726353:G:T | R110I | 1.000 |
| 11:22726354:A:C | R110S | 1.000 |
| 11:22726354:A:T | R110S | 1.000 |
| 11:22726364:G:C | A114P | 1.000 |
| 11:22726371:T:C | F116S | 1.000 |
| 11:22737741:T:C | L149P | 1.000 |
| 11:22755952:G:C | R241T | 1.000 |
| 11:22755952:G:T | R241M | 1.000 |
| 11:22755953:G:C | R241S | 1.000 |
| 11:22755953:G:T | R241S | 1.000 |
| 11:22811823:T:A | V250D | 1.000 |
| 11:22811825:C:A | R251S | 1.000 |
| 11:22811840:T:A | W256R | 1.000 |
| 11:22811840:T:C | W256R | 1.000 |
| 11:22811841:G:C | W256S | 1.000 |
| 11:22811842:G:C | W256C | 1.000 |
| 11:22811842:G:T | W256C | 1.000 |
| 11:22674984:G:C | D39H | 0.999 |
| 11:22674985:A:C | D39A | 0.999 |
| 11:22674985:A:T | D39V | 0.999 |
| 11:22674996:T:A | W43R | 0.999 |
| 11:22674996:T:C | W43R | 0.999 |
| 11:22685712:G:C | G64R | 0.999 |
dbSNP variants (sampled 300 via entrez): RS1000005473 (11:22849978 C>T), RS1000027572 (11:22838232 A>G), RS1000036585 (11:22818814 A>C), RS1000039566 (11:22760327 C>T), RS1000052967 (11:22802223 C>G,T), RS1000053454 (11:22687965 T>C), RS1000068950 (11:22645628 T>G), RS1000077385 (11:22643644 T>C), RS1000086772 (11:22819147 C>A,T), RS1000091347 (11:22714076 A>G), RS1000104718 (11:22801839 A>T), RS1000109389 (11:22756057 G>A,C), RS1000110076 (11:22884456 A>G), RS1000112519 (11:22761784 C>A), RS1000122075 (11:22776064 G>A)
Disease associations
OMIM: gene MIM:602835 | disease phenotypes: MIM:620877
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| hearing loss, autosomal recessive 125 | Moderate | Autosomal recessive |
| hearing loss disorder | Limited | Autosomal dominant |
Mondo (2): hearing loss, autosomal recessive 125 (MONDO:0971152), hearing loss disorder (MONDO:0005365)
Orphanet (0):
HPO phenotypes
7 total (7 of 7 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000007 | Autosomal recessive inheritance |
| HP:0000407 | Sensorineural hearing impairment |
| HP:0000750 | Delayed speech and language development |
| HP:0001751 | Abnormal vestibular function |
| HP:0001999 | Abnormal facial shape |
| HP:0003577 | Congenital onset |
| HP:0011463 | Childhood onset |
GWAS associations
3 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001066_17 | Dialysis-related mortality | 2.000000e-06 |
| GCST009391_1708 | Metabolite levels | 9.000000e-06 |
| GCST010396_227 | Gut microbiota (bacterial taxa, hurdle binary method) | 4.000000e-06 |
EFO canonical traits (2, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0010340 | cholesteryl ester 14:0 measurement |
| EFO:0007874 | gut microbiome measurement |
MeSH disease descriptors (1)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D034381 | Hearing Loss | C09.218.458.341; C10.597.751.418.341; C23.888.592.763.393.341 |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
PharmGKB variants
2 variants.
| Variant | Genes | Level | Score | #Clin annots | Drugs |
|---|---|---|---|---|---|
| rs4442551 | FANCF, GAS2 | 0.00 | 0 | ||
| rs3740615 | FANCF, GAS2 | 0.00 | 0 |
CTD chemical–gene interactions
42 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Valproic Acid | increases expression, affects expression, decreases expression, decreases methylation, affects cotreatment | 8 |
| Aflatoxin B1 | affects expression, decreases expression, decreases methylation | 3 |
| bisphenol A | decreases expression, affects cotreatment, decreases methylation | 2 |
| Acetaminophen | decreases expression | 2 |
| Benzo(a)pyrene | affects methylation, decreases expression | 2 |
| Nickel | decreases expression | 2 |
| Tetrachlorodibenzodioxin | decreases expression | 2 |
| Tretinoin | increases expression | 2 |
| Cyclosporine | decreases expression | 2 |
| dicrotophos | decreases expression | 1 |
| methylmercuric chloride | decreases expression | 1 |
| trichostatin A | increases expression | 1 |
| tris(2-butoxyethyl) phosphate | affects expression | 1 |
| beta-lapachone | decreases expression | 1 |
| arsenite | increases methylation | 1 |
| tris(1,3-dichloro-2-propyl)phosphate | decreases expression | 1 |
| butyraldehyde | decreases expression | 1 |
| perfluorooctanoic acid | decreases expression | 1 |
| 4-aminophenylarsenoxide | decreases reaction, affects binding | 1 |
| cyclic 3’,5’-uridine monophosphate | affects binding | 1 |
| CGP 52608 | affects binding, increases reaction | 1 |
| perfluoro-n-nonanoic acid | decreases expression | 1 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | affects cotreatment, increases expression | 1 |
| trans-10,cis-12-conjugated linoleic acid | decreases expression | 1 |
| dorsomorphin | affects cotreatment, increases expression | 1 |
| Sunitinib | decreases expression | 1 |
| Arsenic Trioxide | affects binding, decreases reaction | 1 |
| Fulvestrant | affects cotreatment, decreases methylation | 1 |
| Caffeine | affects phosphorylation | 1 |
| Carbamazepine | affects expression | 1 |
Clinical trials (associated diseases)
300 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00205881 | PHASE4 | COMPLETED | Bilateral Benefit in Adult Users of the HiRes 90K Bionic Ear System |
| NCT00331539 | PHASE4 | UNKNOWN | Relationship Between Auto NRT and Behavioural T & C Levels With the Nucleus Freedom Cochlear Implant |
| NCT00424307 | PHASE4 | UNKNOWN | Bilateral Cochlear Implant Benefit in Young Children |
| NCT00765635 | PHASE4 | COMPLETED | Chlorobutanol, Potassium Carbonate, and Irrigation in Cerumen Removal |
| NCT03321006 | PHASE4 | COMPLETED | Treating Hearing Loss to Improve Mood and Cognition in Older Adults |
| NCT01499901 | PHASE3 | WITHDRAWN | Comparison of the Bilateral Sequential and Simultaneous Cochlear Implantation in the Deaf Children |
| NCT02561091 | PHASE3 | COMPLETED | AM-111 in the Treatment of Acute Inner Ear Hearing Loss |
| NCT03331627 | PHASE3 | COMPLETED | Safety and Efficacy of STR001-IT and STR001-ER in Patients With SSHL |
| NCT05532657 | PHASE3 | ACTIVE_NOT_RECRUITING | ACHIEVE Brain Health Follow-Up Study |
| NCT00013455 | PHASE2 | COMPLETED | Quantifying Auditory Perceptual Learning Following Hearing Aid Fitting |
| NCT00323427 | PHASE2 | COMPLETED | Clinical Trial of the Living Well With Hearing Loss Workshop |
| NCT00552786 | PHASE2 | COMPLETED | Antioxidation Medication for Noise-induced Hearing Loss |
| NCT00802425 | PHASE2 | COMPLETED | Efficacy of AM-111 in Patients With Acute Sensorineural Hearing Loss |
| NCT01139281 | PHASE2 | COMPLETED | The Protective Effect of Ginkgo Biloba Extract on Cisplatin-induced Ototoxicity in Humans |
| NCT01451853 | PHASE2 | UNKNOWN | SPI-1005 for Prevention and Treatment of Chemotherapy Induced Hearing Loss |
| NCT01588925 | PHASE2 | COMPLETED | Hearing Preservation Using Dexamethasone and Hyaluronic Acid for Cochlear Implantation |
| NCT01773278 | PHASE2 | RECRUITING | Cholesterol and Antioxidant Treatment in Patients With Smith-Lemli-Opitz Syndrome (SLOS) |
| NCT02832128 | PHASE2 | COMPLETED | Evaluating Possible Improvement in Speech and Hearing Tests After 28 Days of Dosing of the Study Drug AUT00063 Compared to Placebo (QuicKfire) |
| NCT04915183 | PHASE2 | RECRUITING | Atorvastatin to Reduce Cisplatin-Induced Hearing Loss Among Individuals With Head and Neck Cancer |
| NCT05258773 | PHASE2 | COMPLETED | Evaluation of the Presence of SENS-401 in the Perilymph |
| NCT06340633 | PHASE2 | RECRUITING | SPI-1005 in Adults Receiving Cochlear Implant |
| NCT00582946 | PHASE1 | COMPLETED | Wide-Bandwidth Open Canal Hearing Aid For Better Multitalker Speech Understanding |
| NCT00584155 | PHASE1 | WITHDRAWN | Protection From Cisplatin Ototoxicity by Lactated Ringers |
| NCT01206829 | PHASE1 | UNKNOWN | Hearing Impairment, Cognitive Therapy and Coping |
| NCT01256229 | PHASE1 | COMPLETED | Outcomes In Children With Developmental Delay And Deafness |
| NCT01343394 | PHASE1 | WITHDRAWN | Safety of Autologous Human Umbilical Cord Blood Mononuclear Fraction to Treat Acquired Hearing Loss in Children |
| NCT01452607 | PHASE1 | COMPLETED | Study to Evaluate the Safety and Pharmacokinetics of SPI-1005 |
| NCT02259595 | PHASE1 | COMPLETED | Study to Determine the Safety, Tolerability, and Pharmacokinetic Profile of HPN-07 and HPN-07 Plus NAC |
| NCT04041440 | PHASE1 | COMPLETED | Speech Recognition Training in Children With Hearing Loss |
| NCT07218913 | PHASE1 | RECRUITING | Testing the Addition of Pedmark to Cisplatin Chemotherapy for Reducing Drug-Induced Ear Damage in Men With Stage II-III Metastatic Testicular Germ Cell Tumors |
| NCT00486577 | PHASE2/PHASE3 | COMPLETED | Chronic Electrical Stimulation of the Auditory Cortex for Intractable Tinnitus |
| NCT00789061 | PHASE2/PHASE3 | UNKNOWN | Applying Proton Pump Inhibitor to Prevent and Treat Acute Fluctuating Hearing Loss in Patients With SLC26A4 Mutation |
| NCT01423409 | PHASE2/PHASE3 | COMPLETED | Multicenter Trial Assessing an Innovative VAS of Pain Among Deaf People |
| NCT05786378 | PHASE2/PHASE3 | UNKNOWN | Assessment of The Efficacy of Intratympanic Platelet Rich Plasma for Treatment of Sensorineural Hearing Loss. |
| NCT01108601 | PHASE1/PHASE2 | UNKNOWN | Transtympanic Ringer’s Lactate for the Prevention of Cisplatin Ototoxicity |
| NCT01621256 | PHASE1/PHASE2 | COMPLETED | Efficacy, Safety, and Tolerability of Ancrod in Patients With Sudden Hearing Loss |
| NCT06370351 | PHASE1/PHASE2 | RECRUITING | A Phase I/II Clinical Trial with SENS-501 in Children Suffering from Severe to Profound Hearing Loss Due to Otoferlin (OTOF) Mutations |
| NCT06545175 | PHASE1/PHASE2 | RECRUITING | Intracochlear Application of VSF1.01 for the Reduction of Cochlear Implant Surgery Related Trauma |
| NCT07304024 | PHASE1/PHASE2 | RECRUITING | A Treatment for a Form of Age-Related Central Auditory Processing Disorder Consisting of Clemastine Fumarate Plus Engineered Sound |
| NCT01109576 | EARLY_PHASE1 | COMPLETED | Workshops for Veterans With Vision and Hearing Loss |
Related Atlas pages
- Associated diseases: hearing loss disorder, hearing loss, autosomal recessive 125
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): hearing loss disorder, hearing loss, autosomal recessive 125