GAS1
gene geneOn this page
Summary
GAS1 (growth arrest specific 1, HGNC:4165) is a protein-coding gene on chromosome 9q21.33, encoding Growth arrest-specific protein 1 (P54826). Specific growth arrest protein involved in growth suppression.
Growth arrest-specific 1 plays a role in growth suppression. GAS1 blocks entry to S phase and prevents cycling of normal and transformed cells. Gas1 is a putative tumor suppressor gene.
Source: NCBI Gene 2619 — RefSeq curated summary.
At a glance
- Gene–disease (curated): holoprosencephaly (Limited, ClinGen)
- GWAS associations: 7
- Clinical variants (ClinVar): 135 total
- Phenotypes (HPO): 115
- MANE Select transcript:
NM_002048
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:4165 |
| Approved symbol | GAS1 |
| Name | growth arrest specific 1 |
| Location | 9q21.33 |
| Locus type | gene with protein product |
| Status | Approved |
| Ensembl gene | ENSG00000180447 |
| Ensembl biotype | protein_coding |
| OMIM | 139185 |
| Entrez | 2619 |
Gene structure
Transcript identifiers
Ensembl transcripts: 1 — 1 protein_coding
ENST00000298743
RefSeq mRNA: 1 — MANE Select: NM_002048
NM_002048
CCDS: CCDS6674
Canonical transcript exons
ENST00000298743 — 1 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001468893 | 86944362 | 86947506 |
Expression profiles
Bgee: expression breadth ubiquitous, 276 present calls, max score 99.94.
FANTOM5 (CAGE): breadth broad, TPM avg 12.2774 / max 665.8413, expressed in 800 samples.
FANTOM5 promoters (3 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 101224 | 11.6673 | 766 |
| 101225 | 0.4926 | 268 |
| 101223 | 0.1175 | 66 |
Top tissues by expression
296 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| germinal epithelium of ovary | UBERON:0001304 | 99.94 | gold quality |
| decidua | UBERON:0002450 | 99.81 | gold quality |
| parietal pleura | UBERON:0002400 | 99.52 | gold quality |
| pericardium | UBERON:0002407 | 99.40 | gold quality |
| synovial joint | UBERON:0002217 | 99.26 | gold quality |
| superficial temporal artery | UBERON:0001614 | 98.99 | gold quality |
| renal glomerulus | UBERON:0000074 | 98.82 | gold quality |
| adult organism | UBERON:0007023 | 98.80 | gold quality |
| mammary duct | UBERON:0001765 | 98.71 | gold quality |
| cauda epididymis | UBERON:0004360 | 98.71 | gold quality |
| metanephric glomerulus | UBERON:0004736 | 98.65 | gold quality |
| skin of hip | UBERON:0001554 | 98.59 | gold quality |
| vena cava | UBERON:0004087 | 98.19 | gold quality |
| epithelium of mammary gland | UBERON:0003244 | 98.13 | gold quality |
| nipple | UBERON:0002030 | 98.01 | gold quality |
| upper arm skin | UBERON:0004263 | 97.79 | gold quality |
| caput epididymis | UBERON:0004358 | 97.47 | gold quality |
| mucosa of paranasal sinus | UBERON:0005030 | 97.37 | gold quality |
| pleura | UBERON:0000977 | 97.24 | gold quality |
| cardiac muscle of right atrium | UBERON:0003379 | 97.20 | gold quality |
| upper leg skin | UBERON:0004262 | 97.18 | gold quality |
| corpus epididymis | UBERON:0004359 | 97.16 | gold quality |
| hair follicle | UBERON:0002073 | 96.91 | gold quality |
| trachea | UBERON:0003126 | 96.81 | gold quality |
| saphenous vein | UBERON:0007318 | 96.78 | gold quality |
| calcaneal tendon | UBERON:0003701 | 96.76 | gold quality |
| urethra | UBERON:0000057 | 96.74 | gold quality |
| choroid plexus epithelium | UBERON:0003911 | 96.70 | gold quality |
| diaphragm | UBERON:0001103 | 96.69 | gold quality |
| myometrium | UBERON:0001296 | 96.63 | gold quality |
Single-cell (SCXA)
Detected in 3 experiment(s), a significant marker in 2.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-MTAB-8530 | yes | 481.48 |
| E-ANND-3 | yes | 23.80 |
| E-MTAB-10290 | no | 257.02 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): DMTF1, MYC, STAT5A, TP53
miRNA regulators (miRDB)
69 targeting GAS1, 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-3163 | 100.00 | 77.23 | 8605 |
| HSA-MIR-6798-5P | 100.00 | 65.77 | 699 |
| HSA-MIR-34A-5P | 99.99 | 71.21 | 1784 |
| HSA-MIR-449A | 99.99 | 71.05 | 1776 |
| HSA-MIR-548C-3P | 99.99 | 74.01 | 7587 |
| HSA-MIR-4282 | 99.99 | 75.36 | 6408 |
| HSA-MIR-33A-5P | 99.99 | 68.62 | 1055 |
| HSA-MIR-33B-5P | 99.99 | 68.58 | 1062 |
| HSA-MIR-499A-5P | 99.98 | 70.79 | 1323 |
| HSA-MIR-34C-5P | 99.97 | 70.45 | 1577 |
| HSA-MIR-449B-5P | 99.97 | 70.26 | 1580 |
| HSA-MIR-3148 | 99.97 | 75.06 | 6478 |
| HSA-MIR-6793-5P | 99.97 | 65.95 | 758 |
| HSA-MIR-493-5P | 99.96 | 72.47 | 2382 |
| HSA-MIR-5688 | 99.96 | 73.23 | 4504 |
| HSA-MIR-495-3P | 99.96 | 72.81 | 4197 |
| HSA-MIR-548AJ-3P | 99.96 | 73.38 | 5345 |
| HSA-MIR-548X-3P | 99.96 | 73.38 | 5345 |
| HSA-MIR-4666A-3P | 99.96 | 71.71 | 3434 |
| HSA-MIR-3910 | 99.95 | 71.13 | 2227 |
| HSA-MIR-548J-3P | 99.94 | 72.61 | 4881 |
| HSA-MIR-548AE-3P | 99.93 | 72.66 | 4867 |
| HSA-MIR-548AH-3P | 99.93 | 72.54 | 4872 |
| HSA-MIR-548AM-3P | 99.93 | 72.54 | 4872 |
| HSA-MIR-548AQ-3P | 99.93 | 72.66 | 4867 |
| HSA-MIR-7-1-3P | 99.91 | 71.53 | 4384 |
| HSA-MIR-7-2-3P | 99.91 | 71.40 | 4394 |
| HSA-MIR-124-3P | 99.89 | 73.74 | 3043 |
| HSA-MIR-506-3P | 99.89 | 73.55 | 3057 |
| HSA-MIR-5582-3P | 99.86 | 72.48 | 4221 |
Literature-anchored findings (GeneRIF, showing 26)
- Gas1 is related to the GDNF alpha receptors and regulates Ret signaling (PMID:16551639)
- This review considers the possible involvement of GAS1 in genetic diseases, stem cell renewal, and cancer growth through its cooperative activity with Hedgehog (HH) growth factor and the HH receptor. (PMID:17726382)
- Gas1 is a molecule involved in cell arrest that can induce apoptosis when over-expressed in different cell lines. (PMID:18394855)
- Gas1 has all the expected properties of a melanoma tumor suppressor: suppression of metastasis in a spontaneous metastasis assay, promotion of apoptosis following dissemination of cells to secondary sites, and down-regulation in human melanoma metastasis. (PMID:18981472)
- Results present evidence demonstrating that Gas1 exerts its effects inhibiting cell growth and inducing apoptosis of glioma cells in the absence of Shh. (PMID:19460624)
- Results suggest that GAS1 might be a target to overcome multidrug resistance and provide a novel approach to identifying candidate genes that suppress chemoresistance of gastric cancers. (PMID:19638344)
- GAS1 is preferentially expressed by human bulge cells, compared to differentiated hair follicle keratinocytes (PMID:20050020)
- GAS1 could be considered a candidate locus for one of the types of human holoprosencephaly. (PMID:20583177)
- Growth arrest-specific gene 1 contributes to predicting metastasis or recurrence in stage II and III colorectal cancer. (PMID:21111449)
- Gas1 is a novel APP-interacting protein involved in the control of APP maturation and processing. (PMID:21357679)
- we demonstrate that sequence variants in GAS1 can impair its physical interaction with SHH, suggesting a decrease in the SHH downstream signaling cascade as a pathogenic mechanism of disease. (PMID:21842183)
- Interference of endoplasmic reticulum to Golgi transport increased immature amyloid beta protein precursor accumulation upon Gas1 expression in lipid raft fractions. (PMID:21971401)
- GAS1 induced the activity of caspase-3 and resulting in apoptosis of the cells. (PMID:22311470)
- Growth arrest-specific gene 1 is downregulated and inhibits tumor growth in gastric cancer. (PMID:22846196)
- GAS1 is a novel endogenous inhibitor of glomerular mesangial cell proliferation. (PMID:23254899)
- This review summarizes the structure of Gas1 and molecular mechanism of action during embryonic development and cellular functions. (PMID:25429664)
- solutions structure and biophysical characterization of the multifaceted signalling effector protein growth arrest specific-1 (PMID:25888394)
- the synergistic effect of Gas1 inhibition and GDNF against glutamate-induced cell injury in human SH-SY5Y neuroblastoma cells, is reported. (PMID:26215053)
- These results demonstrated that miR-184 and the GAS1/Akt pathway may be a potential therapeutic target for intervertebral disc degeneration. (PMID:26805687)
- Studies establish Gas1 as a negative regulator in colorectal cancer. (PMID:27401611)
- WT1 modulates Akt/JNK signaling pathway mediated autophagy by controlling the expression of growth arrest-specific 1 (Gas1). (PMID:27453337)
- Downregulation of GAS1 is associated with clear cell renal cell carcinoma. (PMID:28184927)
- t is relevant to investigate the potential additive effect of the overexpression of GAS1 and PTEN on tumor growth. In particular, we employed secreted forms of both GAS1 (tGAS1) and PTEN (PTEN-LONG, or PTEN-L) and tested their combined effect on glioma cells. (PMID:29941984)
- This study has identified Gas1 as a novel factor and mechanism through which microglia arrest the growth of human brain tumor-initiating cells for anti-tumor property. (PMID:30327548)
- Gas1 Regulates Patterning of the Murine and Human Dentitions through Sonic Hedgehog. (PMID:34796774)
- TCF7L1 regulates colorectal cancer cell migration by repressing GAS1 expression. (PMID:38816533)
Cross-species orthologs
4 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | gas1b | ENSDARG00000067984 |
| danio_rerio | gas1a | ENSDARG00000077298 |
| mus_musculus | Gas1 | ENSMUSG00000052957 |
| rattus_norvegicus | Gas1 | ENSRNOG00000065398 |
Protein
Protein identifiers
Growth arrest-specific protein 1 — P54826 (reviewed: P54826)
All UniProt accessions (1): P54826
UniProt curated annotations — full annotation on UniProt →
Function. Specific growth arrest protein involved in growth suppression. Blocks entry to S phase. Prevents cycling of normal and transformed cells. Binds 20(S)-hydroxycholesterol (20(S)-OHC).
Subcellular location. Cell membrane.
RefSeq proteins (1): NP_002039* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR016017 | GDNF/GAS1 | Domain |
| IPR039596 | GAS1 | Family |
Pfam: PF02351
UniProt features (8 total): signal peptide 1, chain 1, propeptide 1, region of interest 1, compositionally biased region 1, lipid moiety-binding region 1, glycosylation site 1, sequence conflict 1
Structure
Experimental structures (PDB)
1 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 7RHQ | ELECTRON MICROSCOPY | 3.53 |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-P54826-F1 | 71.86 | 0.33 |
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 (1): 318
Glycosylation sites (1): 117
Function
Pathways and Gene Ontology
Reactome pathways
2 pathways
| ID | Pathway |
|---|---|
| R-HSA-5632681 | Ligand-receptor interactions |
| R-HSA-5635838 | Activation of SMO |
MSigDB gene sets: 480 (showing top):
GSE45365_CD8A_DC_VS_CD11B_DC_IFNAR_KO_DN, WAMUNYOKOLI_OVARIAN_CANCER_LMP_DN, MODULE_52, BROWNE_HCMV_INFECTION_6HR_DN, GOBP_NEGATIVE_REGULATION_OF_PROTEOLYSIS, CHIARADONNA_NEOPLASTIC_TRANSFORMATION_KRAS_DN, LUCAS_HNF4A_TARGETS_DN, KEGG_HEDGEHOG_SIGNALING_PATHWAY, PAL_PRMT5_TARGETS_UP, KAAB_HEART_ATRIUM_VS_VENTRICLE_UP, GOBP_GROWTH, DACOSTA_UV_RESPONSE_VIA_ERCC3_UP, GOBP_VESICLE_MEDIATED_TRANSPORT, TOMLINS_PROSTATE_CANCER_DN, SARRIO_EPITHELIAL_MESENCHYMAL_TRANSITION_DN
GO Biological Process (9): regulation of smoothened signaling pathway (GO:0008589), negative regulation of protein processing (GO:0010955), cellular response to vascular endothelial growth factor stimulus (GO:0035924), regulation of apoptotic process (GO:0042981), cell fate commitment (GO:0045165), negative regulation of mitotic cell cycle (GO:0045930), developmental growth (GO:0048589), regulation of ER to Golgi vesicle-mediated transport (GO:0060628), regulation of cell cycle (GO:0051726)
GO Molecular Function (2): oxysterol binding (GO:0008142), protein binding (GO:0005515)
GO Cellular Component (3): plasma membrane (GO:0005886), membrane (GO:0016020), side of membrane (GO:0098552)
Reactome top-level categories
Rollup of top-1 pathways:
| Category | Pathways |
|---|---|
| Hedgehog ‘on’ state | 2 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| membrane | 2 |
| cellular anatomical structure | 2 |
| smoothened signaling pathway | 1 |
| regulation of signal transduction | 1 |
| protein processing | 1 |
| negative regulation of proteolysis | 1 |
| regulation of protein processing | 1 |
| negative regulation of protein maturation | 1 |
| cellular response to growth factor stimulus | 1 |
| apoptotic process | 1 |
| regulation of programmed cell death | 1 |
| cell differentiation | 1 |
| cellular developmental process | 1 |
| mitotic cell cycle | 1 |
| regulation of mitotic cell cycle | 1 |
| negative regulation of cell cycle | 1 |
| developmental process | 1 |
| growth | 1 |
| endoplasmic reticulum to Golgi vesicle-mediated transport | 1 |
| regulation of intracellular transport | 1 |
| regulation of vesicle-mediated transport | 1 |
| cell cycle | 1 |
| regulation of cellular process | 1 |
| sterol binding | 1 |
| binding | 1 |
| cell periphery | 1 |
| leaflet of membrane bilayer | 1 |
Protein interactions and networks
STRING
1098 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| GAS1 | SHH | Q15465 | 992 |
| GAS1 | PTCH1 | Q13635 | 983 |
| GAS1 | CDON | Q4KMG0 | 958 |
| GAS1 | GAS2 | O43903 | 930 |
| GAS1 | BOC | Q9BWV1 | 814 |
| GAS1 | HHIP | Q96QV1 | 737 |
| GAS1 | ZIC2 | O95409 | 727 |
| GAS1 | DHH | O43323 | 697 |
| GAS1 | DISP1 | Q96F81 | 694 |
| GAS1 | IHH | Q14623 | 677 |
| GAS1 | SIX3 | O95343 | 620 |
| GAS1 | RAB23 | Q9ULC3 | 602 |
| GAS1 | SMO | Q99835 | 595 |
| GAS1 | GLI1 | P08151 | 584 |
| GAS1 | GLI2 | P10070 | 582 |
IntAct
8 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| GAS1 | RET | psi-mi:“MI:0407”(direct interaction) | 0.440 |
| GPC1 | SNAP23 | psi-mi:“MI:0915”(physical association) | 0.400 |
| GPC1 | GANAB | psi-mi:“MI:0915”(physical association) | 0.400 |
| CERS2 | VPS37C | psi-mi:“MI:0914”(association) | 0.350 |
| SLURP1 | MANBA | psi-mi:“MI:0914”(association) | 0.350 |
| KRAS | IGKV2D-24 | psi-mi:“MI:0914”(association) | 0.350 |
| KRAS | IGKV2D-29 | psi-mi:“MI:0914”(association) | 0.350 |
BioGRID (15): GAS1 (Two-hybrid), GAS1 (Affinity Capture-RNA), GAS1 (Affinity Capture-MS), GAS1 (Affinity Capture-MS), GAS1 (Affinity Capture-MS), GAS1 (Two-hybrid), GAS1 (Affinity Capture-MS), GAS1 (Proximity Label-MS), PTPRA (Reconstituted Complex), GAS1 (Proximity Label-MS), GAS1 (Proximity Label-MS), GAS1 (Proximity Label-MS), GAS1 (Proximity Label-MS), GAS1 (Proximity Label-MS), GAS1 (Affinity Capture-RNA)
ESM2 similar proteins: A4IIA2, B3F211, O75129, O94907, P01180, P08833, P10769, P12843, P13384, P15473, P16611, P17936, P18065, P19336, P20722, P20959, P21743, P21744, P22692, P24591, P24592, P24593, P24594, P24853, P24854, P34007, P35572, P47876, P47877, P47878, P47879, P47880, P49705, P51693, P54826, Q03157, Q05716, Q05717, Q05718, Q07079
Diamond homologs: P54826, Q01721
SIGNOR signaling
1 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| DMTF1 | “down-regulates quantity by repression” | GAS1 | “transcriptional regulation” |
Disease & clinical
Clinical variants and AI predictions
ClinVar
135 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 93 |
| Likely benign | 31 |
| Benign | 9 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
11 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 9:86947062:A:AC | donor_gain | 0.8600 |
| 9:86947063:C:CC | donor_gain | 0.8600 |
| 9:86946882:T:TA | donor_gain | 0.4000 |
| 9:86947064:T:C | donor_gain | 0.3300 |
| 9:86946974:T:TA | donor_gain | 0.2900 |
| 9:86947145:G:A | donor_gain | 0.2800 |
| 9:86947056:AGG:A | donor_gain | 0.2400 |
| 9:86947058:G:A | donor_gain | 0.2300 |
| 9:86947054:AGAGG:A | donor_gain | 0.2200 |
| 9:86946578:A:AC | donor_gain | 0.2000 |
| 9:86946579:C:CC | donor_gain | 0.2000 |
AlphaMissense
2200 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 9:86946211:C:T | C190Y | 1.000 |
| 9:86946433:A:G | L116P | 1.000 |
| 9:86946633:C:A | W49C | 1.000 |
| 9:86946633:C:G | W49C | 1.000 |
| 9:86946052:C:G | C243S | 0.999 |
| 9:86946053:A:G | C243R | 0.999 |
| 9:86946053:A:T | C243S | 0.999 |
| 9:86946072:C:A | K236N | 0.999 |
| 9:86946072:C:G | K236N | 0.999 |
| 9:86946084:G:C | C232W | 0.999 |
| 9:86946085:C:A | C232F | 0.999 |
| 9:86946085:C:G | C232S | 0.999 |
| 9:86946085:C:T | C232Y | 0.999 |
| 9:86946086:A:G | C232R | 0.999 |
| 9:86946086:A:T | C232S | 0.999 |
| 9:86946104:C:A | G226C | 0.999 |
| 9:86946108:G:C | C224W | 0.999 |
| 9:86946109:C:A | C224F | 0.999 |
| 9:86946109:C:G | C224S | 0.999 |
| 9:86946109:C:T | C224Y | 0.999 |
| 9:86946110:A:G | C224R | 0.999 |
| 9:86946110:A:T | C224S | 0.999 |
| 9:86946114:G:C | C222W | 0.999 |
| 9:86946115:C:A | C222F | 0.999 |
| 9:86946115:C:T | C222Y | 0.999 |
| 9:86946116:A:G | C222R | 0.999 |
| 9:86946171:G:C | C203W | 0.999 |
| 9:86946172:C:G | C203S | 0.999 |
| 9:86946173:A:G | C203R | 0.999 |
| 9:86946173:A:T | C203S | 0.999 |
dbSNP variants (sampled 300 via entrez): RS1000854782 (9:86945757 A>C), RS1000871454 (9:86944777 C>A,T), RS1001746523 (9:86948866 C>T), RS1001770983 (9:86946308 G>GGCCGCCCGCGCC), RS1002275565 (9:86945338 T>C), RS1003168930 (9:86949390 C>T), RS1003410023 (9:86948933 G>A,C), RS1003690604 (9:86944076 G>A), RS1004186486 (9:86947174 C>T), RS1005038688 (9:86948953 T>C), RS1005191877 (9:86946272 G>A,C), RS1005982395 (9:86945250 T>C), RS1006156477 (9:86945525 G>A), RS1007414827 (9:86944187 G>T), RS1007459037 (9:86947093 G>T)
Disease associations
OMIM: gene MIM:139185 | disease phenotypes: MIM:236100
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| holoprosencephaly | Limited | Autosomal dominant |
ClinGen Gene-Disease Validity (1)
Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.
| Disease | Classification | Inheritance |
|---|---|---|
| holoprosencephaly | Limited | AD |
Mondo (2): holoprosencephaly 1 (MONDO:0009349), holoprosencephaly (MONDO:0016296)
Orphanet (1): Holoprosencephaly (Orphanet:2162)
HPO phenotypes
115 total (30 of 115 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000062 | Ambiguous genitalia |
| HP:0000104 | Renal agenesis |
| HP:0000119 | Abnormality of the genitourinary system |
| HP:0000161 | Median cleft upper lip |
| HP:0000175 | Cleft palate |
| HP:0000193 | Bifid uvula |
| HP:0000202 | Orofacial cleft |
| HP:0000218 | High palate |
| HP:0000238 | Hydrocephalus |
| HP:0000252 | Microcephaly |
| HP:0000256 | Macrocephaly |
| HP:0000322 | Short philtrum |
| HP:0000407 | Sensorineural hearing impairment |
| HP:0000446 | Narrow nasal bridge |
| HP:0000453 | Choanal atresia |
| HP:0000457 | Depressed nasal ridge |
| HP:0000463 | Anteverted nares |
| HP:0000478 | Abnormality of the eye |
| HP:0000486 | Strabismus |
| HP:0000601 | Hypotelorism |
| HP:0000612 | Iris coloboma |
| HP:0000708 | Atypical behavior |
| HP:0000716 | Depression |
| HP:0000736 | Short attention span |
| HP:0000737 | Irritability |
| HP:0000739 | Anxiety |
| HP:0000741 | Apathy |
| HP:0000772 | Abnormal rib morphology |
| HP:0000818 | Abnormality of the endocrine system |
| HP:0000821 | Hypothyroidism |
GWAS associations
7 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001208_3 | Insulin resistance/response | 4.000000e-06 |
| GCST004641_26 | Borderline personality disorder | 7.000000e-06 |
| GCST006585_670 | Blood protein levels | 2.000000e-06 |
| GCST006979_358 | Heel bone mineral density | 1.000000e-13 |
| GCST008660_6 | Lung function in never smokers (high FEV1 vs average FEV1) | 3.000000e-07 |
| GCST009723_79 | Vertical cup-disc ratio (adjusted for vertical disc diameter) | 8.000000e-07 |
| GCST009724_18 | Vertical cup-disc ratio (multi-trait analysis) | 9.000000e-10 |
EFO canonical traits (3, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0009270 | heel bone mineral density |
| EFO:0004314 | forced expiratory volume |
| EFO:0006939 | cup-to-disc ratio measurement |
MeSH disease descriptors (1)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D016142 | Holoprosencephaly | C05.660.207.410; C10.500.034.875; C16.131.077.410; C16.131.260.380; C16.131.621.207.410; C16.131.666.034.875; C16.320.180.380 |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
72 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Valproic Acid | decreases expression, increases expression, increases methylation | 5 |
| Cadmium Chloride | decreases expression, increases expression | 4 |
| Acetaminophen | decreases expression | 3 |
| Estradiol | affects cotreatment, decreases expression, increases expression, affects expression | 3 |
| Tobacco Smoke Pollution | decreases expression | 3 |
| mercuric bromide | decreases expression, affects cotreatment | 2 |
| entinostat | decreases expression, affects cotreatment | 2 |
| Arsenic | increases methylation, decreases expression, increases abundance | 2 |
| Benzo(a)pyrene | affects methylation, decreases expression | 2 |
| Formaldehyde | decreases expression, increases expression | 2 |
| Phenylmercuric Acetate | affects cotreatment, decreases expression | 2 |
| Silicon Dioxide | decreases expression | 2 |
| Smoke | decreases expression | 2 |
| Zidovudine | affects cotreatment, decreases expression | 2 |
| p-Chloromercuribenzoic Acid | affects cotreatment, decreases expression | 2 |
| Particulate Matter | affects cotreatment, decreases expression, increases abundance | 2 |
| methyleugenol | decreases expression | 1 |
| methylselenic acid | increases expression | 1 |
| sodium arsenate | decreases expression, increases abundance | 1 |
| 2-butenal | decreases expression | 1 |
| sulforaphane | decreases expression | 1 |
| sodium arsenite | decreases expression | 1 |
| cobaltous chloride | affects cotreatment, decreases expression | 1 |
| tobacco tar | decreases expression, decreases reaction | 1 |
| diallyl disulfide | decreases expression, decreases reaction | 1 |
| lead chloride | decreases expression, affects cotreatment | 1 |
| hydroquinone | decreases expression | 1 |
| 1-nitropyrene | decreases expression | 1 |
| cadmium sulfate | affects cotreatment, decreases expression | 1 |
| beta-methylcholine | affects expression | 1 |
Clinical trials (associated diseases)
4 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00005016 | Not specified | COMPLETED | Study of the Experiences and Needs of Parents Continuing a Pregnancy Following a Prenatal Diagnosis of Holopresencephaly |
| NCT00088426 | Not specified | COMPLETED | Clinical and Genetic Studies on Holoprosencephaly |
| NCT00645645 | Not specified | COMPLETED | A Study of the Genetic Analysis of Brain Disorders |
| NCT04691414 | Not specified | COMPLETED | Retrospective Study Using Next Generation Sequencing (NGS) on Biological Samples to Improve Genetic Counseling for Patients With Previously Explored Craniofacial Midline Defects. |
Related Atlas pages
- Associated diseases: holoprosencephaly
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): holoprosencephaly, holoprosencephaly 1