Delirium
diseaseOn this page
Also known as OBS syndrome
Summary
Delirium (MONDO:0045057) is a disease with 45 cohort genes (31 GWAS associations across 11 studies) and 854 clinical trials. The dominant Reactome pathway is Chylomicron remodeling (4 cohort genes). Top therapeutic interventions include haloperidol, dexmedetomidine, and rivastigmine.
At a glance
- Cohort genes: 45
- GWAS associations: 31
- Clinical trials: 854
Clinical features
No curated clinical features (Orphanet) for this disease.
Identifiers
Disease identifiers
| Field | Value |
|---|---|
| Canonical name | delirium |
| Mondo ID | MONDO:0045057 |
| EFO | EFO:0009267 |
| MeSH | D003693 |
| ICD-11 | 897917531 |
| NCIT | C2981 |
| SNOMED CT | 2776000 |
| UMLS | C0011206 |
| MedGen | 41445 |
| Is cancer (heuristic) | no |
Also known as: OBS syndrome
Data availability: 31 GWAS associations (11 studies).
Disease family
An umbrella term covering 1 Mondo subtype.
Classification path: disease › human disease › disease by developmental or physiological process › psychiatric disorder › cognitive disorder › delirium
Related subtypes (5): amnestic disorder, dementia, alexia, psychotic disorder, subjective cognitive decline
Subtypes (1): subacute delirium
Genetics & variants
GWAS landscape
31 GWAS associations across 11 studies. Top hits map to 2 distinct genes (as reported by GWAS).
Top associations by p-value
| rsID | p-value | Gene | Risk allele | Odds ratio |
|---|---|---|---|---|
| rs429358 | 8e-24 | APOE | T | 0.22 |
| rs889945293 | 2e-11 | LINC01500 | A | 2.31 |
| chr2:103117777 | 1e-08 | T | 4.26 | |
| chr2:195210106 | 1e-07 | C | 3.92 | |
| chr7:112660783 | 1e-07 | G | 3.23 | |
| chr6:136207021 | 1e-07 | T | 4.25 | |
| chr19:5331297 | 2e-07 | ? | ||
| chr10:132654411 | 5e-07 | A | 1.98 | |
| chr20:58629940 | 5e-07 | A | 2.78 | |
| chr21:46223727 | 8e-07 | C | 2.87 | |
| chr15:27902427 | 8e-07 | T | 2.6 | |
| chr10:9361099 | 8e-07 | T | 1.55 | |
| chr9:27486453 | 9e-07 | G | 1.64 | |
| chr3:144544936 | 1e-06 | C | 1.85 | |
| chr8:125540043 | 1e-06 | G | 2.99 | |
| chr22:30558994 | 1e-06 | A | 2.68 | |
| chr2:64791014 | 1e-06 | G | 7.56 | |
| chr20:56336051 | 1e-06 | C | 2.1 | |
| chr9:80076247 | 1e-06 | A | 1.43 | |
| chr11:116579473 | 3e-06 | T | 2.89 | |
| chr11:94271846 | 3e-06 | T | 2.29 | |
| chr12:82288694 | 3e-06 | T | 2.78 | |
| chr10:117894879 | 3e-06 | T | 2.16 | |
| chr6:151635146 | 3e-06 | G | 2.16 | |
| chr5:121652214 | 3e-06 | T | 2.78 | |
| chr1:225773031 | 4e-06 | G | 3.19 | |
| chr6:153879321 | 4e-06 | G | 2.66 | |
| chr11:116988389 | 5e-06 | A | 3.4 | |
| chr17:56369857 | 5e-06 | A | 2.75 | |
| chr7:43366306 | 5e-06 | A | 2.57 |
Top studies (by case count)
| Study | Lead author | Year | Cases | Controls | Title |
|---|---|---|---|---|---|
| GCST90473243 | UK Biobank Whole-Genome Sequencing Consortium | 2025 | 8,461 | 449,979 | Whole-genome sequencing of 490,640 UK Biobank participants. |
| GCST90476503 | Verma A | 2024 | 5,690 | 438,267 | Diversity and scale: Genetic architecture of 2068 traits in the VA Million Veteran Program. |
| GCST90480735 | Verma A | 2024 | 1,406 | 118,362 | Diversity and scale: Genetic architecture of 2068 traits in the VA Million Veteran Program. |
| GCST90481680 | Verma A | 2024 | 1,406 | 118,362 | Diversity and scale: Genetic architecture of 2068 traits in the VA Million Veteran Program. |
| GCST90079785 | Backman JD | 2021 | 1,083 | 386,847 | Exome sequencing and analysis of 454,787 UK Biobank participants. |
| GCST90083771 | Backman JD | 2021 | 1,083 | 386,847 | Exome sequencing and analysis of 454,787 UK Biobank participants. |
| GCST90651982 | Liu TY | 2025 | 969 | 225,176 | Diversity and longitudinal records: Genetic architecture of disease associations and polygenic risk in the Taiwanese Han population. |
| GCST90435839 | Zhou W | 2018 | 654 | 402,383 | Efficiently controlling for case-control imbalance and sample relatedness in large-scale genetic association studies. |
| GCST90481679 | Verma A | 2024 | 609 | 58,407 | Diversity and scale: Genetic architecture of 2068 traits in the VA Million Veteran Program. |
| GCST005851 | McCoy TH Jr. | 2018 | 421 | 5,614 | Genome-wide association identifies a novel locus for delirium risk. |
Variant details and genetic-evidence tiers
Tier distribution (top 50 variants)
| Tier | Variants |
|---|---|
| Tier 1: coding | 1 |
| Tier 2: splice/UTR | 0 |
| Tier 3: regulatory | 0 |
| Tier 4: intronic/intergenic | 29 |
MAF distribution
| Bucket | Variants |
|---|---|
| common (>=0.05) | 4 |
| low_freq (0.01-0.05) | 18 |
| rare (<0.01) | 7 |
| unknown | 1 |
Functional consequences
| Consequence | Count |
|---|---|
| unknown | 28 |
| missense_variant | 1 |
| intron_variant | 1 |
Top variants
| rsID | Chr | Pos | Alleles | MAF | Consequence | Gene | p-value | Tier |
|---|---|---|---|---|---|---|---|---|
| rs429358 | 19 | 44908684 | T>C | 0.152 | missense_variant | APOE | 8e-24 | Tier 1: coding |
| rs889945293 | 14 | 58726286 | A>G | 0.001 | intron_variant | LINC01500 | 2e-11 | Tier 4: intronic/intergenic |
| chr2:103117777 | 0.01 | 1e-08 | Tier 4: intronic/intergenic | |||||
| chr2:195210106 | 0.009 | 1e-07 | Tier 4: intronic/intergenic | |||||
| chr7:112660783 | 0.011 | 1e-07 | Tier 4: intronic/intergenic | |||||
| chr6:136207021 | 0.008 | 1e-07 | Tier 4: intronic/intergenic | |||||
| chr19:5331297 | 2e-07 | Tier 4: intronic/intergenic | ||||||
| chr10:132654411 | 0.045 | 5e-07 | Tier 4: intronic/intergenic | |||||
| chr20:58629940 | 0.017 | 5e-07 | Tier 4: intronic/intergenic | |||||
| chr21:46223727 | 0.009 | 8e-07 | Tier 4: intronic/intergenic | |||||
| chr15:27902427 | 0.017 | 8e-07 | Tier 4: intronic/intergenic | |||||
| chr10:9361099 | 0.173 | 8e-07 | Tier 4: intronic/intergenic | |||||
| chr9:27486453 | 0.109 | 9e-07 | Tier 4: intronic/intergenic | |||||
| chr3:144544936 | 0.049 | 1e-06 | Tier 4: intronic/intergenic | |||||
| chr8:125540043 | 0.016 | 1e-06 | Tier 4: intronic/intergenic | |||||
| chr22:30558994 | 0.014 | 1e-06 | Tier 4: intronic/intergenic | |||||
| chr2:64791014 | 0.005 | 1e-06 | Tier 4: intronic/intergenic | |||||
| chr20:56336051 | 0.031 | 1e-06 | Tier 4: intronic/intergenic | |||||
| chr9:80076247 | 0.345 | 1e-06 | Tier 4: intronic/intergenic | |||||
| chr11:116579473 | 0.011 | 3e-06 | Tier 4: intronic/intergenic | |||||
| chr11:94271846 | 0.024 | 3e-06 | Tier 4: intronic/intergenic | |||||
| chr12:82288694 | 0.01 | 3e-06 | Tier 4: intronic/intergenic | |||||
| chr10:117894879 | 0.025 | 3e-06 | Tier 4: intronic/intergenic | |||||
| chr6:151635146 | 0.025 | 3e-06 | Tier 4: intronic/intergenic | |||||
| chr5:121652214 | 0.013 | 3e-06 | Tier 4: intronic/intergenic | |||||
| chr1:225773031 | 0.009 | 4e-06 | Tier 4: intronic/intergenic | |||||
| chr6:153879321 | 0.01 | 4e-06 | Tier 4: intronic/intergenic | |||||
| chr11:116988389 | 0.01 | 5e-06 | Tier 4: intronic/intergenic | |||||
| chr17:56369857 | 0.012 | 5e-06 | Tier 4: intronic/intergenic | |||||
| chr7:43366306 | 0.016 | 5e-06 | Tier 4: intronic/intergenic |
Genes & proteins
Mendelian disease overlap and somatic drivers
GenCC: 0 · Orphanet: 18 · OMIM-shared: 0 · Dual-evidence (GWAS+Mendelian): 0
Orphanet rare-disease linkage (cohort genes)
| Gene | Orphanet ID | Rare disease |
|---|---|---|
| APOA5 | Orphanet:530849 | Familial apolipoprotein A5 deficiency |
| CCM2 | Orphanet:221061 | Familial cerebral cavernous malformation |
| C9orf72 | Orphanet:100069 | Semantic dementia |
| C9orf72 | Orphanet:100070 | Progressive non-fluent aphasia |
| C9orf72 | Orphanet:275864 | Behavioral variant of frontotemporal dementia |
| C9orf72 | Orphanet:275872 | Frontotemporal dementia with motor neuron disease |
| C9orf72 | Orphanet:401901 | Huntington disease-like syndrome due to C9ORF72 expansions |
| C9orf72 | Orphanet:803 | Amyotrophic lateral sclerosis |
| GFRA1 | Orphanet:1848 | Renal agenesis, bilateral |
| GNA14 | Orphanet:1063 | Tufted angioma |
| GNA14 | Orphanet:2122 | Kaposiform hemangioendothelioma |
| GNA14 | Orphanet:675359 | Anastomosing haemangioma |
| APOA1 | Orphanet:425 | Apolipoprotein A-I deficiency |
| APOA1 | Orphanet:93560 | AApoAI amyloidosis |
| APOC3 | Orphanet:181428 | Familial Hyperalphalipoproteinemia |
| LBR | Orphanet:1426 | Greenberg dysplasia |
| LBR | Orphanet:448267 | Regressive spondylometaphyseal dysplasia |
| LBR | Orphanet:779 | Reynolds syndrome |
Cohort genes → proteins
45 cohort genes, 41 distinct canonical proteins.
Evidence partition
| Subset | Genes |
|---|---|
| gwas_only | 45 |
Cohort genes (full)
| Symbol | HGNC | Ensembl | UniProt | Name | Evidence |
|---|---|---|---|---|---|
| SF3A1 | HGNC:10765 | ENSG00000099995 | Q15459 | Splicing factor 3A subunit 1 | gwas |
| SLC9A2 | HGNC:11072 | ENSG00000115616 | Q9UBY0 | Sodium/hydrogen exchanger 2 | gwas |
| SLC9A4 | HGNC:11077 | ENSG00000180251 | Q6AI14 | Sodium/hydrogen exchanger 4 | gwas |
| SUMO3 | HGNC:11124 | ENSG00000184900 | P55854 | Small ubiquitin-related modifier 3 | gwas |
| SNCAIP | HGNC:11139 | ENSG00000064692 | Q9Y6H5 | Synphilin-1 | gwas |
| SYCP2 | HGNC:11490 | ENSG00000196074 | Q9BX26 | Synaptonemal complex protein 2 | gwas |
| ZPR1 | HGNC:13051 | ENSG00000109917 | O75312 | Zinc finger protein ZPR1 | gwas |
| PTTG1IP | HGNC:13524 | ENSG00000183255 | P53801 | Pituitary tumor-transforming gene 1 protein-interacting protein | gwas |
| CDH26 | HGNC:15902 | ENSG00000124215 | Q8IXH8 | Cadherin-like protein 26 | gwas |
| FAM217B | HGNC:16170 | ENSG00000196227 | Q9NTX9 | Protein FAM217B | gwas |
| APOA5 | HGNC:17288 | ENSG00000110243 | Q6Q788 | Apolipoprotein A-V | gwas |
| ENAH | HGNC:18271 | ENSG00000154380 | Q8N8S7 | Protein enabled homolog | gwas |
| CCM2 | HGNC:21708 | ENSG00000136280 | Q9BSQ5 | Cerebral cavernous malformations 2 protein | gwas |
| IFNK | HGNC:21714 | ENSG00000147896 | Q9P0W0 | Interferon kappa | gwas |
| HECW1 | HGNC:22195 | ENSG00000002746 | Q76N89 | E3 ubiquitin-protein ligase HECW1 | gwas |
| TBC1D10A | HGNC:23609 | ENSG00000099992 | Q9BXI6 | TBC1 domain family member 10A | gwas |
| MOB3B | HGNC:23825 | ENSG00000120162 | Q86TA1 | MOB kinase activator 3B | gwas |
| TATDN1 | HGNC:24220 | ENSG00000147687 | Q6P1N9 | Deoxyribonuclease TATDN1 | gwas |
| AFTPH | HGNC:25951 | ENSG00000119844 | Q6ULP2 | Aftiphilin | gwas |
| SAMTOR | HGNC:26475 | ENSG00000164603 | Q1RMZ1 | S-adenosylmethionine sensor upstream of mTORC1 | gwas |
| MIR646HG | HGNC:27659 | ENSG00000228340 | MIR646 host gene | gwas | |
| BUD13 | HGNC:28199 | ENSG00000137656 | Q9BRD0 | BUD13 homolog | gwas |
| C9orf72 | HGNC:28337 | ENSG00000147894 | Q96LT7 | Guanine nucleotide exchange factor C9orf72 | gwas |
| HORMAD2 | HGNC:28383 | ENSG00000176635 | Q8N7B1 | HORMA domain-containing protein 2 | gwas |
| SIK3 | HGNC:29165 | ENSG00000160584 | Q9Y2K2 | Serine/threonine-protein kinase SIK3 | gwas |
| DNAH14 | HGNC:2945 | ENSG00000185842 | Q0VDD8 | Dynein axonemal heavy chain 14 | gwas |
| CASTOR1 | HGNC:34423 | ENSG00000239282 | Q8WTX7 | Cytosolic arginine sensor for mTORC1 subunit 1 | gwas |
| AKAP12 | HGNC:370 | ENSG00000131016 | Q02952 | A-kinase anchor protein 12 | gwas |
| MIR4772 | HGNC:41741 | ENSG00000264764 | microRNA 4772 | gwas | |
| MIR4434 | HGNC:41832 | ENSG00000283204 | microRNA 4434 | gwas | |
| GFRA1 | HGNC:4243 | ENSG00000151892 | P56159 | GDNF family receptor alpha-1 | gwas |
| GNA14 | HGNC:4382 | ENSG00000156049 | O95837 | Guanine nucleotide-binding protein subunit alpha-14 | gwas |
| MIR6818 | HGNC:49940 | ENSG00000275818 | microRNA 6818 | gwas | |
| IL18R1 | HGNC:5988 | ENSG00000115604 | Q13478 | Interleukin-18 receptor 1 | gwas |
| IL18RAP | HGNC:5989 | ENSG00000115607 | O95256 | Interleukin-18 receptor accessory protein | gwas |
| IL1RL1 | HGNC:5998 | ENSG00000115602 | Q01638 | Interleukin-1 receptor-like 1 | gwas |
| APOA1 | HGNC:600 | ENSG00000118137 | P02647 | Apolipoprotein A-I | gwas |
| APOA4 | HGNC:602 | ENSG00000110244 | P06727 | Apolipoprotein A-IV | gwas |
| APOC3 | HGNC:610 | ENSG00000110245 | P02656 | Apolipoprotein C-III | gwas |
| LBR | HGNC:6518 | ENSG00000143815 | Q14739 | Delta(14)-sterol reductase LBR | gwas |
| LIF | HGNC:6596 | ENSG00000128342 | P15018 | Leukemia inhibitory factor | gwas |
| MTMR3 | HGNC:7451 | ENSG00000100330 | Q13615 | Phosphatidylinositol-3,5-bisphosphate 3-phosphatase MTMR3 | gwas |
| PDE7B | HGNC:8792 | ENSG00000171408 | Q9NP56 | 3’,5’-cyclic-AMP phosphodiesterase 7B | gwas |
| PPFIA2 | HGNC:9246 | ENSG00000139220 | O75334 | Liprin-alpha-2 | gwas |
| PPP1R3D | HGNC:9294 | ENSG00000132825 | O95685 | Protein phosphatase 1 regulatory subunit 3D | gwas |
Cohort function summary
Lead sentence per gene, UniProt-curated.
| Symbol | Protein name | Function (lead sentence) |
|---|---|---|
| SF3A1 | Splicing factor 3A subunit 1 | Component of the 17S U2 SnRNP complex of the spliceosome, a large ribonucleoprotein complex that removes introns from transcribed pre-mRNAs. |
| SLC9A2 | Sodium/hydrogen exchanger 2 | Plasma membrane Na(+)/H(+) antiporter. |
| SLC9A4 | Sodium/hydrogen exchanger 4 | Electroneutral antiporter that exchanges sodium for protons or ammonium ions at the basolateral membrane of epithelia to regulate cell volume and intracellular pH upon hypertonic conditions. |
| SUMO3 | Small ubiquitin-related modifier 3 | Ubiquitin-like protein which can be covalently attached to target lysines either as a monomer or as a lysine-linked polymer. |
| SNCAIP | Synphilin-1 | Isoform 2 inhibits the ubiquitin ligase activity of SIAH1 and inhibits proteasomal degradation of target proteins. |
| SYCP2 | Synaptonemal complex protein 2 | Major component of the axial/lateral elements of synaptonemal complexes (SCS) during meiotic prophase. |
| ZPR1 | Zinc finger protein ZPR1 | Acts as a signaling molecule that communicates proliferative growth signals from the cytoplasm to the nucleus. |
| PTTG1IP | Pituitary tumor-transforming gene 1 protein-interacting protein | May facilitate PTTG1 nuclear translocation. |
| CDH26 | Cadherin-like protein 26 | Cadherins are calcium-dependent cell adhesion proteins. |
| APOA5 | Apolipoprotein A-V | Minor apolipoprotein mainly associated with HDL and to a lesser extent with VLDL. |
| ENAH | Protein enabled homolog | Ena/VASP proteins are actin-associated proteins involved in a range of processes dependent on cytoskeleton remodeling and cell polarity such as axon guidance and lamellipodial and filopodial dynamics in migrating cells. |
| CCM2 | Cerebral cavernous malformations 2 protein | Component of the CCM signaling pathway which is a crucial regulator of heart and vessel formation and integrity. |
| IFNK | Interferon kappa | May play a role in the regulation of immune cell function. |
| HECW1 | E3 ubiquitin-protein ligase HECW1 | E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent degradation of DVL1. |
| TBC1D10A | TBC1 domain family member 10A | GTPase-activating protein (GAP) specific for RAB27A and RAB35. |
| MOB3B | MOB kinase activator 3B | Modulates LATS1 expression in the Hippo signaling pathway which plays a pivotal role in organ size control and tumor suppression by restricting proliferation and promoting apoptosis. |
| TATDN1 | Deoxyribonuclease TATDN1 | Exhibits 3’-5’ exonuclease and apurinic/apyrimidinic (AP) endonuclease activities (in vitro). |
| AFTPH | Aftiphilin | Component of clathrin-coated vesicles. |
| SAMTOR | S-adenosylmethionine sensor upstream of mTORC1 | S-adenosyl-L-methionine-binding protein that acts as an inhibitor of mTORC1 signaling via interaction with the GATOR1 and KICSTOR complexes. |
| BUD13 | BUD13 homolog | Involved in pre-mRNA splicing as component of the activated spliceosome. |
| C9orf72 | Guanine nucleotide exchange factor C9orf72 | Acts as a guanine-nucleotide releasing factor (GEF) for Rab GTPases by promoting the conversion of inactive RAB-GDP to the active form RAB-GTP. |
| HORMAD2 | HORMA domain-containing protein 2 | Essential for synapsis surveillance during meiotic prophase via the recruitment of ATR activity. |
| SIK3 | Serine/threonine-protein kinase SIK3 | Positive regulator of mTOR signaling that functions by triggering the degradation of DEPTOR, an mTOR inhibitor. |
| DNAH14 | Dynein axonemal heavy chain 14 | Force generating protein of respiratory cilia. |
| CASTOR1 | Cytosolic arginine sensor for mTORC1 subunit 1 | Functions as an intracellular arginine sensor within the amino acid-sensing branch of the TORC1 signaling pathway. |
| AKAP12 | A-kinase anchor protein 12 | Anchoring protein that mediates the subcellular compartmentation of protein kinase A (PKA) and protein kinase C (PKC). |
| GFRA1 | GDNF family receptor alpha-1 | Coreceptor for GDNF, a neurotrophic factor that enhances survival and morphological differentiation of dopaminergic neurons and increases their high-affinity dopamine uptake. |
| GNA14 | Guanine nucleotide-binding protein subunit alpha-14 | Guanine nucleotide-binding proteins (G proteins) are involved as modulators or transducers in various transmembrane signaling systems. |
| IL18R1 | Interleukin-18 receptor 1 | Within the IL18 receptor complex, responsible for the binding of the pro-inflammatory cytokine IL18, but not IL1A nor IL1B. |
| IL18RAP | Interleukin-18 receptor accessory protein | Within the IL18 receptor complex, does not mediate IL18-binding, but involved in IL18-dependent signal transduction, leading to NF-kappa-B and JNK activation. |
| IL1RL1 | Interleukin-1 receptor-like 1 | Receptor for interleukin-33 (IL-33) which plays crucial roles in innate and adaptive immunity, contributing to tissue homeostasis and responses to environmental stresses together with coreceptor IL1RAP. |
| APOA1 | Apolipoprotein A-I | Participates in the reverse transport of cholesterol from tissues to the liver for excretion by promoting cholesterol efflux from tissues and by acting as a cofactor for the lecithin cholesterol acyltransferase (LCAT). |
| APOA4 | Apolipoprotein A-IV | May have a role in chylomicrons and VLDL secretion and catabolism. |
| APOC3 | Apolipoprotein C-III | Component of triglyceride-rich very low density lipoproteins (VLDL) and high density lipoproteins (HDL) in plasma. |
| LBR | Delta(14)-sterol reductase LBR | Catalyzes the reduction of the C14-unsaturated bond of lanosterol, as part of the metabolic pathway leading to cholesterol biosynthesis. |
| LIF | Leukemia inhibitory factor | LIF has the capacity to induce terminal differentiation in leukemic cells. |
| MTMR3 | Phosphatidylinositol-3,5-bisphosphate 3-phosphatase MTMR3 | Lipid phosphatase that specifically dephosphorylates the D-3 position of phosphatidylinositol 3-phosphate and phosphatidylinositol 3,5-bisphosphate, generating phosphatidylinositol and phosphatidylinositol 5-phosphate. |
| PDE7B | 3’,5’-cyclic-AMP phosphodiesterase 7B | Hydrolyzes the second messenger cAMP, which is a key regulator of many important physiological processes. |
| PPFIA2 | Liprin-alpha-2 | Alters PTPRF cellular localization and induces PTPRF clustering. |
| PPP1R3D | Protein phosphatase 1 regulatory subunit 3D | Seems to act as a glycogen-targeting subunit for PP1. |
Protein-family classification
Druggable: 7 · Difficult: 4 · Unknown: 34 · Druggable fraction: 0.16
Family distribution
Cohort families vs a genome-wide background (hypergeometric, BH-FDR; fold = observed/expected). Counts kept; sorted by enrichment, so the catch-all Other/Unknown bucket no longer leads.
| Family | Genes | Fold | FDR |
|---|---|---|---|
| Other/Unknown | 34 | 1.4× | 0.035 |
| Antibody/Immunoglobulin | 3 | 1.9× | 0.698 |
| Phosphatase | 1 | 1.9× | 0.851 |
| Kinase | 2 | 1.2× | 0.851 |
| Scaffold/PPI | 2 | 0.8× | 0.980 |
| Transcription factor | 2 | 0.4× | 0.980 |
| Enzyme (other) | 1 | 0.3× | 0.980 |
Per-gene assignment
| Symbol | Family | Druggable? | EC | InterPro (top 3) |
|---|---|---|---|---|
| SF3A1 | Other/Unknown | no | Surp, Ubiquitin-like_dom, SF3A1_dom | |
| SLC9A2 | Other/Unknown | no | NHE-2/4, NaH_exchanger, Cation/H_exchanger_TM | |
| SLC9A4 | Other/Unknown | no | NHE-2/4, NaH_exchanger, Cation/H_exchanger_TM | |
| SUMO3 | Other/Unknown | no | Ubiquitin-like_dom, Rad60/SUMO-like_dom, Ubiquitin-like_domsf | |
| SNCAIP | Scaffold/PPI | no | Ankyrin_rpt, SNCAIP_SNCA-bd, Ankyrin_rpt-contain_sf | |
| SYCP2 | Other/Unknown | no | SYCP2-like, SYCP2_SLD, SYCP2_ARLD | |
| ZPR1 | Transcription factor | no | Znf_ZPR1, ZPR1, ZPR1_A/B_dom | |
| PTTG1IP | Other/Unknown | no | PSI, PTTG1IP | |
| CDH26 | Other/Unknown | no | Cadherin-like_dom, Cadherin-like_sf, Cadherin_CS | |
| FAM217B | Other/Unknown | no | FAM217 | |
| APOA5 | Other/Unknown | no | ApoA_E, Apolipoprotein_A1/A4/E | |
| ENAH | Other/Unknown | no | WH1/EVH1_dom, PH-like_dom_sf, VASP_tetra | |
| CCM2 | Other/Unknown | no | PTB/PI_dom, PH-like_dom_sf, Malcavernin | |
| IFNK | Other/Unknown | no | Interferon_alpha/beta/delta, 4_helix_cytokine-like_core | |
| HECW1 | Scaffold/PPI | no | 2.3.2.26 | C2_dom, HECT_dom, WW_dom |
| TBC1D10A | Other/Unknown | no | Rab-GAP-TBC_dom, Rab-GAP_TBC_sf, Rab_GAP_TBC_domain | |
| MOB3B | Kinase | yes | MOB_kinase_act_fam, MOB_kinase_act_sf | |
| TATDN1 | Other/Unknown | no | TatD-like, DNase_TatD-rel_CS, Metal_Hydrolase | |
| AFTPH | Other/Unknown | no | Clathrin-bd, Aftin-like | |
| SAMTOR | Other/Unknown | no | Bmt2/SAMTOR, SAM-dependent_MTases_sf | |
| MIR646HG | Other/Unknown | no | ||
| BUD13 | Other/Unknown | no | Bud13, CWC26_splicing_factor | |
| C9orf72 | Other/Unknown | no | C9orf72 | |
| HORMAD2 | Other/Unknown | no | HORMA_dom, HORMA_dom_sf, HORMA_MeioticProgression | |
| SIK3 | Kinase | yes | Prot_kinase_dom, Ser/Thr_kinase_AS, Kinase-like_dom_sf | |
| DNAH14 | Other/Unknown | no | Dhc_D4, Dynein_HC_stalk, DHC | |
| CASTOR1 | Other/Unknown | no | CASTOR_fam, CASTOR_ACT_dom, CASTOR1_N | |
| AKAP12 | Other/Unknown | no | AKAP_WSK, RII-bd_1, AKAP12 | |
| MIR4772 | Other/Unknown | no | ||
| MIR4434 | Other/Unknown | no | ||
| GFRA1 | Other/Unknown | no | GDNF_rcpt, GDNF_rcpt_A1, GDNF/GAS1 | |
| GNA14 | Other/Unknown | no | Gprotein_alpha_Q, Gprotein_alpha_su, GproteinA_insert | |
| MIR6818 | Other/Unknown | no | ||
| IL18R1 | Antibody/Immunoglobulin | yes | TIR_dom, Ig_sub, IL-1_rcpt_I/II-typ | |
| IL18RAP | Antibody/Immunoglobulin | yes | TIR_dom, Ig_sub, Ig-like_dom | |
| IL1RL1 | Antibody/Immunoglobulin | yes | TIR_dom, Ig_sub2, Ig_sub | |
| APOA1 | Other/Unknown | no | ApoA_E, Apolipoprotein_A1/A4/E | |
| APOA4 | Other/Unknown | no | ApoA_E, Apolipoprotein_A1/A4/E | |
| APOC3 | Other/Unknown | no | Apo-CIII, Apo_CIII_sf | |
| LBR | Enzyme (other) | yes | 1.3.1.70 | ERG24_DHCR-like, Tudor, Sterol_reductase_CS |
| LIF | Other/Unknown | no | Leukemia_IF/oncostatin, Leukemia_IF, 4_helix_cytokine-like_core | |
| MTMR3 | Phosphatase | yes | 3.1.3.95 | Znf_FYVE, Tyr_Pase_cat, Myotubularin-like_Pase_dom |
| PDE7B | Transcription factor | no | 3.1.4.53 | PDEase_catalytic_dom, HD/PDEase_dom, PDEase |
| PPFIA2 | Other/Unknown | no | SAM, SAM/pointed_sf, Liprin | |
| PPP1R3D | Other/Unknown | no | CBM21_dom, Pase-1_reg-su_3B/C/D_met, CBM21_dom_sf |
Expression context
Cohort genes with no expression data: 0.
39 cohort genes are a single-cell marker in ≥1 SCXA experiment.
Breadth distribution (Bgee present_calls)
| Bucket | Genes |
|---|---|
| narrow (1-5 tissues) | 1 |
| moderate (6-20) | 0 |
| broad (>20) | 44 |
| unknown | 0 |
Top tissues across cohort
| Tissue | Cohort genes |
|---|---|
| oocyte | 6 |
| secondary oocyte | 5 |
| blood | 5 |
| endothelial cell | 4 |
| right testis | 4 |
| bone marrow | 4 |
| sperm | 3 |
| male germ line stem cell (sensu Vertebrata) in testis | 3 |
| left testis | 3 |
| cortical plate | 3 |
| liver | 3 |
| right lobe of liver | 3 |
| calcaneal tendon | 3 |
| lateral globus pallidus | 3 |
| jejunal mucosa | 3 |
| male germ cell | 2 |
| tibia | 2 |
| ganglionic eminence | 2 |
| germinal epithelium of ovary | 2 |
| ventricular zone | 2 |
Per-gene tissue summary (top 30)
| Symbol | Bgee breadth | FANTOM5 breadth | SCXA | Top tissues |
|---|---|---|---|---|
| SF3A1 | 300 | ubiquitous | marker | sperm, male germ cell, sural nerve |
| SLC9A2 | 144 | broad | marker | rectum, male germ line stem cell (sensu Vertebrata) in testis, mucosa of transverse colon |
| SLC9A4 | 67 | tissue_specific | marker | male germ line stem cell (sensu Vertebrata) in testis, stomach, body of stomach |
| SUMO3 | 294 | ubiquitous | marker | endothelial cell, tibia, parietal pleura |
| SNCAIP | 240 | broad | marker | ventricular zone, ganglionic eminence, germinal epithelium of ovary |
| SYCP2 | 192 | broad | marker | right testis, oocyte, left testis |
| ZPR1 | 267 | ubiquitous | marker | cortical plate, ganglionic eminence, right testis |
| PTTG1IP | 295 | ubiquitous | marker | visceral pleura, tibia, pleura |
| CDH26 | 180 | tissue_specific | marker | bronchial epithelial cell, bronchus, lower esophagus mucosa |
| FAM217B | 247 | ubiquitous | marker | endothelial cell, middle temporal gyrus, postcentral gyrus |
| APOA5 | 45 | tissue_specific | yes | right lobe of liver, liver, skeletal muscle tissue of rectus abdominis |
| ENAH | 292 | ubiquitous | marker | saphenous vein, blood vessel layer, colonic epithelium |
| CCM2 | 243 | ubiquitous | marker | putamen, nucleus accumbens, anterior cingulate cortex |
| IFNK | 43 | tissue_specific | yes | male germ line stem cell (sensu Vertebrata) in testis, cartilage tissue, calcaneal tendon |
| HECW1 | 172 | broad | marker | Brodmann (1909) area 23, middle temporal gyrus, endothelial cell |
| TBC1D10A | 229 | ubiquitous | marker | nasal cavity epithelium, upper arm skin, skin of leg |
| MOB3B | 260 | ubiquitous | marker | inferior vagus X ganglion, ventricular zone, lateral globus pallidus |
| TATDN1 | 134 | ubiquitous | marker | body of pancreas, calcaneal tendon, gastrocnemius |
| AFTPH | 292 | ubiquitous | marker | renal medulla, male germ cell, sperm |
| SAMTOR | 240 | ubiquitous | yes | secondary oocyte, cortical plate, oocyte |
| MIR646HG | 183 | broad | marker | buccal mucosa cell, thymus, sperm |
| BUD13 | 246 | ubiquitous | marker | secondary oocyte, oocyte, tendon of biceps brachii |
| C9orf72 | 250 | ubiquitous | marker | monocyte, leukocyte, mucosa of paranasal sinus |
| HORMAD2 | 66 | tissue_specific | marker | right testis, left testis, testis |
| SIK3 | 290 | ubiquitous | marker | lateral globus pallidus, corpus callosum, lateral nuclear group of thalamus |
| DNAH14 | 172 | ubiquitous | marker | left testis, right testis, adrenal tissue |
| CASTOR1 | 134 | ubiquitous | marker | lower esophagus mucosa, esophagus mucosa, vagina |
| AKAP12 | 287 | ubiquitous | marker | pons, lateral nuclear group of thalamus, dorsal root ganglion |
| MIR4772 | 71 | yes | bone marrow, vermiform appendix, blood | |
| MIR4434 | 77 | yes | monocyte, bone marrow, granulocyte |
Protein interactions among cohort
Intra-cohort edges: 20.
Hub genes (top 10 by interactor count)
| Symbol | Interactor count |
|---|---|
| SF3A1 | 4,038 |
| APOA1 | 3,608 |
| C9orf72 | 3,126 |
| LBR | 2,789 |
| ZPR1 | 2,581 |
| LIF | 2,339 |
| BUD13 | 2,107 |
| APOA5 | 1,919 |
| APOC3 | 1,895 |
| AKAP12 | 1,810 |
Intra-cohort edges
| A | B | Sources |
|---|---|---|
| APOA1 | APOA4 | string_interaction |
| APOA1 | APOC3 | intact, string_interaction |
| APOA4 | APOC3 | string_interaction |
| APOA5 | APOC3 | string_interaction |
| APOA5 | BUD13 | string_interaction |
| APOA5 | SIK3 | string_interaction |
| APOA5 | ZPR1 | string_interaction |
| BUD13 | SIK3 | string_interaction |
| BUD13 | ZPR1 | string_interaction |
| C9orf72 | MOB3B | string_interaction |
| CASTOR1 | SAMTOR | string_interaction |
| FAM217B | PPP1R3D | string_interaction |
| FAM217B | SYCP2 | string_interaction |
| HORMAD2 | MTMR3 | string_interaction |
| HORMAD2 | SYCP2 | biogrid_interaction, string_interaction |
| IFNK | MOB3B | string_interaction |
| IL18R1 | IL18RAP | string_interaction |
| IL18R1 | SLC9A4 | string_interaction |
| IL1RL1 | SLC9A4 | string_interaction |
| PPP1R3D | SYCP2 | string_interaction |
Structural data
PDB: 22 · AlphaFold-only: 19 · No structure: 4
Cohort genes with PDB structures (top 30)
| Symbol | UniProt | PDB entries |
|---|---|---|
| SF3A1 | Q15459 | 51 |
| APOA1 | P02647 | 31 |
| ENAH | Q8N8S7 | 27 |
| BUD13 | Q9BRD0 | 11 |
| CASTOR1 | Q8WTX7 | 10 |
| SUMO3 | P55854 | 8 |
| CCM2 | Q9BSQ5 | 8 |
| PPFIA2 | O75334 | 7 |
| SIK3 | Q9Y2K2 | 5 |
| LIF | P15018 | 5 |
| C9orf72 | Q96LT7 | 4 |
| IL18R1 | Q13478 | 3 |
| IL18RAP | O95256 | 3 |
| TATDN1 | Q6P1N9 | 2 |
| APOA4 | P06727 | 2 |
| SNCAIP | Q9Y6H5 | 1 |
| HECW1 | Q76N89 | 1 |
| SAMTOR | Q1RMZ1 | 1 |
| GFRA1 | P56159 | 1 |
| IL1RL1 | Q01638 | 1 |
| APOC3 | P02656 | 1 |
| LBR | Q14739 | 1 |
AlphaFold-only cohort genes (top 30 by pLDDT)
| Symbol | UniProt | pLDDT |
|---|---|---|
| GNA14 | O95837 | 93.68 |
| MOB3B | Q86TA1 | 90.13 |
| IFNK | Q9P0W0 | 82.77 |
| ZPR1 | O75312 | 80.11 |
| PDE7B | Q9NP56 | 79.84 |
| TBC1D10A | Q9BXI6 | 78.06 |
| PTTG1IP | P53801 | 77.51 |
| CDH26 | Q8IXH8 | 72.84 |
| HORMAD2 | Q8N7B1 | 72.61 |
| APOA5 | Q6Q788 | 72.38 |
| PPP1R3D | O95685 | 71.03 |
| MTMR3 | Q13615 | 66.94 |
| SLC9A4 | Q6AI14 | 66.73 |
| SLC9A2 | Q9UBY0 | 66.40 |
| FAM217B | Q9NTX9 | 57.78 |
| SYCP2 | Q9BX26 | 54.36 |
| AFTPH | Q6ULP2 | 46.36 |
| AKAP12 | Q02952 | 40.98 |
| DNAH14 | Q0VDD8 |
Function
Pathway analysis
Distinct Reactome pathways touched by cohort: 152. Enrichment computed across 45 evidence-associated genes (27 with Reactome annotation).
Pathways by enrichment
Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 27 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.
| Pathway | Cohort genes | Fold | FDR | Sample cohort genes |
|---|---|---|---|---|
| Chylomicron remodeling | 4 | 169.2× | 8e-07 | APOA5, APOA1, APOA4, APOC3 |
| Plasma lipoprotein remodeling | 4 | 70.5× | 2e-05 | APOA5, APOA1, APOA4, APOC3 |
| Chylomicron assembly | 3 | 126.9× | 7e-05 | APOA1, APOA4, APOC3 |
| Plasma lipoprotein assembly | 3 | 79.3× | 2e-04 | APOA1, APOA4, APOC3 |
| Plasma lipoprotein assembly, remodeling, and clearance | 4 | 33.8× | 2e-04 | APOA5, APOA1, APOA4, APOC3 |
| Metabolism of fat-soluble vitamins | 3 | 42.3× | 0.001 | APOA1, APOA4, APOC3 |
| Interleukin-18 signaling | 2 | 105.7× | 0.003 | IL18R1, IL18RAP |
| Visual phototransduction | 3 | 28.8× | 0.003 | APOA1, APOA4, APOC3 |
| Retinoid metabolism and transport | 3 | 27.6× | 0.003 | APOA1, APOA4, APOC3 |
| Sodium/Proton exchangers | 2 | 94.0× | 0.003 | SLC9A2, SLC9A4 |
| HDL remodeling | 2 | 84.6× | 0.003 | APOA1, APOC3 |
| Transport of small molecules | 6 | 5.6× | 0.007 | SLC9A2, SLC9A4, APOA5, APOA1, APOA4, APOC3 |
| Assembly of active LPL and LIPC lipase complexes | 2 | 44.5× | 0.010 | APOA5, APOA4 |
| Metabolism of vitamins and cofactors | 3 | 12.9× | 0.017 | APOA1, APOA4, APOC3 |
| Amyloid fiber formation | 3 | 11.4× | 0.022 | SNCAIP, APOA1, APOA4 |
| Sensory Perception | 3 | 10.6× | 0.026 | APOA1, APOA4, APOC3 |
| Defective ABCA1 causes TGD | 1 | 211.5× | 0.042 | APOA1 |
| Interleukin-33 signaling | 1 | 141.0× | 0.060 | IL1RL1 |
| RHOD GTPase cycle | 2 | 15.1× | 0.060 | AKAP12, LBR |
| Amino acids regulate mTORC1 | 2 | 14.8× | 0.060 | SAMTOR, CASTOR1 |
| Metabolism of lipids | 4 | 4.7× | 0.071 | APOA5, APOA1, LBR, MTMR3 |
| SUMO is conjugated to E1 (UBA2:SAE1) | 1 | 84.6× | 0.075 | SUMO3 |
| HDL clearance | 1 | 84.6× | 0.075 | APOA1 |
| Cellular response to starvation | 2 | 12.3× | 0.075 | SAMTOR, CASTOR1 |
| SUMO is proteolytically processed | 1 | 70.5× | 0.086 | SUMO3 |
| Regulation of lipid metabolism by PPARalpha | 2 | 10.4× | 0.091 | APOA5, APOA1 |
| SUMO is transferred from E1 to E2 (UBE2I, UBC9) | 1 | 60.4× | 0.092 | SUMO3 |
| Fatty Acids bound to GPR40 (FFAR1) regulate insulin secretion | 1 | 52.9× | 0.092 | GNA14 |
| Interleukin-6 family signaling | 1 | 52.9× | 0.092 | LIF |
| HDL assembly | 1 | 52.9× | 0.092 | APOA1 |
GO biological processes by enrichment
Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 39 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.
| GO term | Cohort genes | Fold | FDR | Sample cohort genes |
|---|---|---|---|---|
| phospholipid efflux | 4 | 115.2× | 1e-05 | APOA5, APOA1, APOA4, APOC3 |
| acylglycerol homeostasis | 3 | 259.3× | 2e-05 | APOA5, APOA1, APOA4 |
| cholesterol efflux | 4 | 54.0× | 9e-05 | APOA5, APOA1, APOA4, APOC3 |
| lipoprotein metabolic process | 3 | 72.0× | 6e-04 | APOA5, APOA4, APOC3 |
| reverse cholesterol transport | 3 | 72.0× | 6e-04 | APOA1, APOA4, APOC3 |
| high-density lipoprotein particle remodeling | 3 | 61.7× | 8e-04 | APOA1, APOA4, APOC3 |
| regulation of intestinal cholesterol absorption | 2 | 216.1× | 0.001 | APOA1, APOA4 |
| negative regulation of very-low-density lipoprotein particle remodeling | 2 | 144.0× | 0.003 | APOA1, APOC3 |
| interleukin-18-mediated signaling pathway | 2 | 144.0× | 0.003 | IL18R1, IL18RAP |
| triglyceride homeostasis | 3 | 37.0× | 0.003 | APOA5, APOA1, APOC3 |
| cholesterol homeostasis | 4 | 16.0× | 0.003 | APOA5, APOA1, APOA4, APOC3 |
| positive regulation of triglyceride catabolic process | 2 | 108.0× | 0.004 | APOA5, APOA4 |
| regulation of TORC1 signaling | 2 | 86.4× | 0.006 | SAMTOR, C9orf72 |
| positive regulation of TORC1 signaling | 3 | 22.7× | 0.007 | SAMTOR, SIK3, CASTOR1 |
| regulation of Cdc42 protein signal transduction | 2 | 72.0× | 0.007 | APOA1, APOC3 |
| positive regulation of fatty acid biosynthetic process | 2 | 66.5× | 0.008 | APOA5, APOA4 |
| regulation of autophagosome assembly | 2 | 57.6× | 0.010 | C9orf72, MTMR3 |
| triglyceride catabolic process | 2 | 41.1× | 0.018 | APOA5, APOC3 |
| cholesterol metabolic process | 3 | 15.1× | 0.018 | APOA5, APOA1, APOA4 |
| negative regulation of high-density lipoprotein particle clearance | 1 | 432.1× | 0.027 | APOC3 |
| DNA endoreduplication | 1 | 432.1× | 0.027 | ZPR1 |
| protein-lipid complex assembly | 1 | 432.1× | 0.027 | APOA4 |
| regulation of protein kinase C signaling | 1 | 432.1× | 0.027 | AKAP12 |
| pre-mRNA catabolic process | 1 | 432.1× | 0.027 | ZPR1 |
| sodium ion import across plasma membrane | 2 | 32.0× | 0.027 | SLC9A2, SLC9A4 |
| U2-type prespliceosome assembly | 2 | 32.0× | 0.027 | SF3A1, BUD13 |
| regulation of intracellular pH | 2 | 30.9× | 0.027 | SLC9A2, SLC9A4 |
| natural killer cell activation | 2 | 29.8× | 0.027 | IFNK, IL18R1 |
| macrophage differentiation | 2 | 24.0× | 0.035 | IL1RL1, LIF |
| regulation of glycogen catabolic process | 1 | 216.1× | 0.036 | PPP1R3D |
Therapeutics
Drugs indicated for this disease
0 approved, 21 in late-stage (phase 3) trials. Disease-direct ChEMBL indications, not inferred from the associated-gene cohort below.
| Drug | Development status |
|---|---|
| Acetaminophen | Phase 3 (in late-stage trials) |
| Clonidine | Phase 3 (in late-stage trials) |
| Dexmedetomidine | Phase 3 (in late-stage trials) |
| Fospropofol | Phase 3 (in late-stage trials) |
| Gabapentin | Phase 3 (in late-stage trials) |
| Guanfacine | Phase 3 (in late-stage trials) |
| Haloperidol | Phase 3 (in late-stage trials) |
| Ketamine | Phase 3 (in late-stage trials) |
| Liraglutide | Phase 3 (in late-stage trials) |
| Loxapine | Phase 3 (in late-stage trials) |
| Melatonin | Phase 3 (in late-stage trials) |
| Methylphenidate | Phase 3 (in late-stage trials) |
| Midazolam | Phase 3 (in late-stage trials) |
| Nalbuphine | Phase 3 (in late-stage trials) |
| Physostigmine | Phase 3 (in late-stage trials) |
| Propofol | Phase 3 (in late-stage trials) |
| Quetiapine | Phase 3 (in late-stage trials) |
| Rivastigmine | Phase 3 (in late-stage trials) |
| Sodium Chloride | Phase 3 (in late-stage trials) |
| Suvorexant | Phase 3 (in late-stage trials) |
| Vitamin E | Phase 3 (in late-stage trials) |
Earlier-phase candidates (phase 2, investigational — efficacy not yet established): Chlorpromazine, Donepezil, Fentanyl, Haloperidol Decanoate, Lorazepam, Olanzapine, Sevoflurane, Xenon.
Drug target analysis
Approved (phase 4): 2 · Phase ≥3: 2 · Phased (≥1): 3 · Undrugged: 42
Druggability breadth: 14 of 45 evidence-associated genes (31%) have a ChEMBL target (buckets above are over the deeply-mined display cohort).
Genes with an approved drug
The molecule shown is one approved compound that hits the gene — not necessarily a drug of choice or one indicated for this disease.
| Symbol | Example approved molecule |
|---|---|
| SIK3 | MOMELOTINIB |
| PDE7B | VARDENAFIL |
Top cohort targets by molecule count
| Symbol | Molecules | Max phase |
|---|---|---|
| SIK3 | 25 | 4 |
| SLC9A2 | 3 | 2 |
| PDE7B | 3 | 4 |
| SF3A1 | 0 | 0 |
| SLC9A4 | 0 | 0 |
| SUMO3 | 0 | 0 |
| SNCAIP | 0 | 0 |
| SYCP2 | 0 | 0 |
| ZPR1 | 0 | 0 |
| PTTG1IP | 0 | 0 |
Drugs targeting cohort genes (top 30)
| Molecule | Max phase | Targets in cohort |
|---|---|---|
| MOMELOTINIB | 4 | SIK3 |
| FEDRATINIB | 4 | SIK3 |
| RUXOLITINIB | 4 | SIK3 |
| DABRAFENIB | 4 | SIK3 |
| VANDETANIB | 4 | SIK3 |
| BOSUTINIB | 4 | SIK3 |
| DASATINIB | 4 | SIK3 |
| MIDOSTAURIN | 4 | SIK3 |
| VARDENAFIL | 4 | PDE7B |
| DIPYRIDAMOLE | 4 | PDE7B |
| CRENOLANIB | 3 | SIK3 |
| SARACATINIB | 3 | SIK3 |
| CANERTINIB | 3 | SIK3 |
| LESTAURTINIB | 3 | SIK3 |
| ZONIPORIDE | 2 | SLC9A2 |
| CARIPORIDE | 2 | SLC9A2 |
| ENIPORIDE | 2 | SLC9A2 |
| ZOTIRACICLIB | 2 | SIK3 |
| TANZISERTIB | 2 | SIK3 |
| OSI-632 | 2 | SIK3 |
| SONOLISIB | 2 | SIK3 |
| AT-9283 | 2 | SIK3 |
| MILCICLIB | 2 | SIK3 |
| UCN-01 | 2 | SIK3 |
| KW-2449 | 1 | SIK3 |
| AZD-7762 | 1 | SIK3 |
| XL-019 | 1 | SIK3 |
| PF-03814735 | 1 | SIK3 |
| CYC-116 | 1 | SIK3 |
| Y-39983 | 1 | SIK3 |
Bioactivity and enzyme data
Enzyme cohort genes (≥1 EC): 4.
Cohort genes with ChEMBL bioactivity (full, sorted by assay count)
| Symbol | Assays | Type breakdown |
|---|---|---|
| SIK3 | 173 | Binding:173 |
| PDE7B | 89 | Binding:83, ADMET:4, Functional:1, Toxicity:1 |
| SLC9A2 | 10 | Binding:8, Functional:2 |
| SF3A1 | 7 | Binding:7 |
| GFRA1 | 2 | Binding:2 |
| APOA1 | 2 | Binding:2 |
| SUMO3 | 1 | Binding:1 |
| SNCAIP | 1 | Binding:1 |
| AKAP12 | 1 | Binding:1 |
| APOC3 | 1 | Binding:1 |
| LBR | 1 | Binding:1 |
Cohort enzymes (BRENDA EC)
| Symbol | EC numbers | Names |
|---|---|---|
| HECW1 | 2.3.2.26 | HECT-type E3 ubiquitin transferase |
| LBR | 1.3.1.70 | DELTA14-sterol reductase |
| MTMR3 | 3.1.3.95 | phosphatidylinositol-3,5-bisphosphate 3-phosphatase |
| PDE7B | 3.1.4.53 | 3’,5’-cyclic-AMP phosphodiesterase |
Cohort genes with high screening signal
≥100 ChEMBL assays — a studied-ness signal; see Therapeutics for approved-drug status.
| Symbol | ChEMBL assays |
|---|---|
| SIK3 | 173 |
Pharmacogenomics
Cohort genes with a PharmGKB record: 41; with CPIC/DPWG dosing guidelines: 0.
No cohort gene has a CPIC/DPWG genotype-guided dosing guideline (PharmGKB).
Chemical tractability of cohort targets
30 approved/phased compounds have measured bioactivity against a cohort gene (and aren’t yet in disease-level trials). This is a research / tractability signal, NOT a therapeutic recommendation — a bioactivity row often reflects off-target or screening binding (e.g. promiscuous kinase inhibitors against a cohort kinase), implying no disease mechanism.
| Compound | Max phase | Cohort target (bioactivity) |
|---|---|---|
| MOMELOTINIB | 4 | SIK3 |
| FEDRATINIB | 4 | SIK3 |
| RUXOLITINIB | 4 | SIK3 |
| DABRAFENIB | 4 | SIK3 |
| VANDETANIB | 4 | SIK3 |
| BOSUTINIB | 4 | SIK3 |
| DASATINIB | 4 | SIK3 |
| MIDOSTAURIN | 4 | SIK3 |
| VARDENAFIL | 4 | PDE7B |
| DIPYRIDAMOLE | 4 | PDE7B |
| CRENOLANIB | 3 | SIK3 |
| SARACATINIB | 3 | SIK3 |
| CANERTINIB | 3 | SIK3 |
| LESTAURTINIB | 3 | SIK3 |
| ZONIPORIDE | 2 | SLC9A2 |
| CARIPORIDE | 2 | SLC9A2 |
| ENIPORIDE | 2 | SLC9A2 |
| ZOTIRACICLIB | 2 | SIK3 |
| TANZISERTIB | 2 | SIK3 |
| OSI-632 | 2 | SIK3 |
| SONOLISIB | 2 | SIK3 |
| AT-9283 | 2 | SIK3 |
| MILCICLIB | 2 | SIK3 |
| UCN-01 | 2 | SIK3 |
| KW-2449 | 1 | SIK3 |
| AZD-7762 | 1 | SIK3 |
| XL-019 | 1 | SIK3 |
| PF-03814735 | 1 | SIK3 |
| CYC-116 | 1 | SIK3 |
| Y-39983 | 1 | SIK3 |
Druggability pyramid
Cohort genes binned by druggability tier (high → low):
| Tier | Definition | Genes | Symbols |
|---|---|---|---|
| A | Approved (phase 4 drug) | 2 | SIK3, PDE7B |
| B | Phased (≥1) drug, not yet approved | 1 | SLC9A2 |
| C | Druggable family + PDB, no drug | 4 | IL18R1, IL18RAP, IL1RL1, LBR |
| D | Druggable family + AlphaFold only, no drug | 2 | MOB3B, MTMR3 |
| E | Difficult family or no structure, no drug | 36 | SF3A1, SLC9A4, SUMO3, SNCAIP, SYCP2, ZPR1, PTTG1IP, CDH26, FAM217B, APOA5 (+26 more) |
Undrugged target profiles
42 cohort genes are undrugged. Ranked by ‘starting-point quality’ (assay depth + drugged-partner adjacency).
| Symbol | ChEMBL assays | Drugged partners (top 3) |
|---|---|---|
| SF3A1 | 7 | — |
| SLC9A4 | 0 | — |
| SUMO3 | 1 | — |
| SNCAIP | 1 | — |
| SYCP2 | 0 | — |
| ZPR1 | 0 | — |
| PTTG1IP | 0 | — |
| CDH26 | 0 | — |
| FAM217B | 0 | — |
| APOA5 | 0 | — |
| ENAH | 0 | — |
| CCM2 | 0 | — |
| IFNK | 0 | — |
| HECW1 | 0 | — |
| TBC1D10A | 0 | — |
| MOB3B | 0 | — |
| TATDN1 | 0 | — |
| AFTPH | 0 | — |
| SAMTOR | 0 | — |
| MIR646HG | 0 | — |
| BUD13 | 0 | — |
| C9orf72 | 0 | — |
| HORMAD2 | 0 | — |
| DNAH14 | 0 | — |
| CASTOR1 | 0 | — |
| AKAP12 | 1 | — |
| MIR4772 | 0 | — |
| MIR4434 | 0 | — |
| GFRA1 | 2 | — |
| GNA14 | 0 | — |
Clinical trials & evidence
Clinical trials
Clinical trials: 854.
Phase distribution (across all retrieved trials)
| Phase | Trials |
|---|---|
| Not specified | 666 |
| PHASE4 | 95 |
| PHASE3 | 37 |
| PHASE2 | 32 |
| PHASE2/PHASE3 | 8 |
| EARLY_PHASE1 | 6 |
| PHASE1/PHASE2 | 5 |
| PHASE1 | 5 |
Top trials by phase / activity
| NCT | Phase | Status | Title |
|---|---|---|---|
| NCT03480061 | PHASE4 | ACTIVE_NOT_RECRUITING | Dexmedetomidine to Reduce the Incidence of POCD After Open Cardiac Surgery |
| NCT04289142 | PHASE4 | RECRUITING | Cognitive Outcomes After Dexmedetomidine Sedation in Cardiac Surgery Patients |
| NCT04532606 | PHASE4 | RECRUITING | Impact of Remimazolam on Prognosis After Bladder Cancer Surgery |
| NCT05069428 | PHASE4 | RECRUITING | Delirium Reduction With Ramelteon |
| NCT05823844 | PHASE4 | RECRUITING | Efficacy of Suvorexant on Post-operative Sleep Disturbance |
| NCT05990790 | PHASE4 | RECRUITING | The Effect of Desflurane Versus Sevoflurane Versus Propofol on Postoperative Delirium |
| NCT06579001 | PHASE4 | RECRUITING | Effect of Nasal Spray Dexmedetomidine on Emergence Delirium Prevention in Total Hip Replacement |
| NCT07066111 | PHASE4 | NOT_YET_RECRUITING | The Effect of Bupivacaine Liposome Preemptive Analgesia on Postoperative Pain and Delirium in Elderly Patients Undergoing Hip Fracture Surgery |
| NCT07151716 | PHASE4 | RECRUITING | Sedation With Dexmedetomidine-esketamine Combination and Delirium in ICU Patients |
| NCT07235995 | PHASE4 | NOT_YET_RECRUITING | Paracetamol and Mannitol Injection and Postoperative Delirium |
| NCT07265128 | PHASE4 | NOT_YET_RECRUITING | Remimazolam vs Midazolam to Reduce Delirium in Adults ≥65 Undergoing CPB Valve Surgery |
| NCT07277881 | PHASE4 | NOT_YET_RECRUITING | The Effect of Reversal of Remimazolam Sedation With Flumazenil on Cognitive Function in Patients Undergoing Hip Arthroplasty Under Spinal Anesthesia |
| NCT07407400 | PHASE4 | NOT_YET_RECRUITING | Lemborexant for Sleep and Delirium Prevention in Elderly ICU Patients |
| NCT07523334 | PHASE4 | NOT_YET_RECRUITING | Impact of Esketamine on Delayed Neurocognitive Recovery in Older Patients |
| NCT00182845 | PHASE4 | COMPLETED | Donepezil in the Prevention of Post-Operative Cognitive Decline |
| NCT00182884 | PHASE4 | COMPLETED | Donepezil in Preventing Delirium in Hospitalized Elderly |
| NCT00286936 | PHASE4 | TERMINATED | Incidence of Delirium in Hip Fracture Patients Randomized to Regular Hypnotics vs Placebo |
| NCT00303433 | PHASE4 | TERMINATED | Namenda to Prevent Post-Operative Delirium |
| NCT00455143 | PHASE4 | TERMINATED | Cognitive Protection - Dexmedetomidine and Cognitive Reserve |
| NCT00561678 | PHASE4 | COMPLETED | Perioperative Cognitive Function - Dexmedetomidine and Cognitive Reserve |
| NCT00622011 | PHASE4 | TERMINATED | Risperidone and Zotepine in the Treatment of Delirium |
| NCT00693121 | PHASE4 | COMPLETED | Amantadine for Treatment of Symptoms of the Post-traumatic Confusional State |
| NCT00704301 | PHASE4 | TERMINATED | Rivastigmine for Intensive Care Unit (ICU) Delirium |
| NCT00786318 | PHASE4 | WITHDRAWN | Ziprasidone vs Standard Therapy for Agitated Patients in the ED |
| NCT00835159 | PHASE4 | COMPLETED | Rivastigmine in the Treatment of Postoperative Delirium: a Pilot Clinical Trial |
| NCT01139996 | PHASE4 | TERMINATED | Use of Transdermal Clonidine in Trauma Patients |
| NCT01353378 | PHASE4 | WITHDRAWN | Use of Dexmedetomidine in Children Undergoing Oral Maxillofacial Surgery to Decrease Emergence Delirium |
| NCT01362959 | PHASE4 | COMPLETED | Nicotine Replacement Therapy in the Intensive Care Unit |
| NCT01530308 | PHASE4 | COMPLETED | Haloperidol Prophylaxis in Older Emergency Department Patients |
| NCT01785290 | PHASE4 | COMPLETED | pRophylactic halopEriDol Use for Delirium in iCu patiEnts With a High Risk for Delirium |
| NCT01791296 | PHASE4 | COMPLETED | Does Nightly Dexmedetomidine Improve Sleep and Reduce Delirium in ICU Patients? |
| NCT01904760 | PHASE4 | COMPLETED | Dexmedetomidine to Prevent Agitation After Free Flap Surgery |
| NCT01934049 | PHASE4 | UNKNOWN | Postoperative Recovery in Elderly Patients Undergoing Hip Hemi-arthroplasty |
| NCT01993836 | PHASE4 | COMPLETED | Markers of Alzheimers Disease and Cognitive Outcomes After Perioperative Care |
| NCT02025855 | PHASE4 | TERMINATED | Adjunct Methadone to Decrease the Duration of Mechanical Ventilation in the Medical Intensive Care Unit |
| NCT02078583 | PHASE4 | UNKNOWN | The Effect of Analgesia Based Sedation Protocol on Brain Function of Critical Care Patients |
| NCT02080169 | PHASE4 | UNKNOWN | Safety and Efficacy of Combined Sedation With Midazolam and Dexmedetomidine in ICU Patients |
| NCT02096068 | PHASE4 | COMPLETED | Neuroprotection With Dexmedetomidine in Patients Undergoing Elective Cardiac or Abdominal Surgery (Neuprodex) |
| NCT02109081 | PHASE4 | TERMINATED | Dexamethasone and Postoperative Delirium |
| NCT02117726 | PHASE4 | UNKNOWN | Impact of Various Sedation Regimens on the Incidence of Delirium |
Drugs tested across these trials (top 30)
| Molecule | Max phase | Trials referencing |
|---|---|---|
| HALOPERIDOL | 4 | 22 |
| DEXMEDETOMIDINE | 4 | 20 |
| RIVASTIGMINE | 4 | 15 |
| ZIPRASIDONE | 4 | 9 |
| CLONIDINE | 4 | 8 |
| CHLORPROMAZINE | 4 | 6 |
| GUANFACINE | 4 | 6 |
| MELATONIN | 4 | 6 |
| METHYLENE BLUE CATION | 4 | 6 |
| RAMELTEON | 4 | 6 |
| TROPISETRON | 4 | 6 |
| DONEPEZIL | 4 | 5 |
| DESFLURANE | 4 | 4 |
| FENTANYL | 4 | 4 |
| SUFENTANIL | 4 | 4 |
| SUVOREXANT | 4 | 4 |
| THIAMINE ION | 4 | 4 |
| TRAZODONE | 4 | 3 |
| DARIDOREXANT | 4 | 2 |
| LORAZEPAM | 4 | 2 |
| MIDAZOLAM | 4 | 2 |
| PREGABALIN | 4 | 2 |
| REMIMAZOLAM | 4 | 2 |
| SEVOFLURANE | 4 | 2 |
| AMANTADINE HYDROCHLORIDE | 4 | 1 |
| BUPIVACAINE HYDROCHLORIDE | 4 | 1 |
| CAFFEINE CITRATE | 4 | 1 |
| CYANOCOBALAMIN | 4 | 1 |
| DEXAMETHASONE | 4 | 1 |
| ESKETAMINE | 4 | 1 |
Related Atlas pages
- Cohort genes: SF3A1, SLC9A2, SLC9A4, SUMO3, SNCAIP, SYCP2, ZPR1, PTTG1IP, CDH26, FAM217B, APOA5, ENAH, CCM2, IFNK, HECW1, TBC1D10A, MOB3B, TATDN1, AFTPH, SAMTOR, MIR646HG, BUD13, C9orf72, HORMAD2, SIK3, DNAH14, CASTOR1, AKAP12, MIR4772, MIR4434, GFRA1, GNA14, MIR6818, IL18R1, IL18RAP, IL1RL1, APOA1, APOA4, APOC3, LBR, LIF, MTMR3, PDE7B, PPFIA2, PPP1R3D
- Drugs: Haloperidol, Dexmedetomidine, Rivastigmine, Ziprasidone, Clonidine, Chlorpromazine, Guanfacine, Melatonin, Methylene Blue Cation, Ramelteon, Tropisetron, Donepezil, Desflurane, Fentanyl, Sufentanil, Suvorexant, Thiamine Ion, Trazodone, Daridorexant, Lorazepam, Midazolam, Pregabalin, Remimazolam, Sevoflurane, Amantadine, Bupivacaine, Caffeine, Cyanocobalamin, Dexamethasone, Esketamine