Chronic obstructive pulmonary disease
diseaseOn this page
Also known as chronic obstructive airways diseasechronic obstructive lung diseasechronic obstructive pulmonary disease (COPD)chronic obstructive pulmonary disease, (COPD)COLDcold (chronic obstructive lung disease)COPDCOPD, chronic obstructive pulmonary diseasedisease (COPD), chronic obstructiveobstructive lung disease, chronicobstructive pulmonary disease (COPD), chronicpulmonary disease (COPD), chronic obstructive
Summary
Chronic obstructive pulmonary disease (MONDO:0005002) is a disease (an umbrella term covering 5 Mondo subtypes) with 75 cohort genes (1,266 GWAS associations across 119 studies) and 3,782 clinical trials. The dominant Reactome pathway is Highly calcium permeable nicotinic acetylcholine receptors (4 cohort genes). Top therapeutic interventions include formoterol, glycopyrronium, and tiotropium.
At a glance
- Umbrella term: 5 Mondo subtypes
- Cohort genes: 75
- GWAS associations: 1,266
- ClinVar variants: 40
- Clinical trials: 3,782
Clinical features
No curated clinical features (Orphanet) for this disease.
Identifiers
Disease identifiers
| Field | Value |
|---|---|
| Canonical name | chronic obstructive pulmonary disease |
| Mondo ID | MONDO:0005002 |
| EFO | EFO:0000341 |
| MeSH | D029424 |
| OMIM | 606963 |
| DOID | DOID:3083 |
| ICD-11 | 133207228 |
| NCIT | C3199 |
| SNOMED CT | 13645005 |
| UMLS | C0024117 |
| MedGen | 9818 |
| Is cancer (heuristic) | no |
Also known as: chronic obstructive airways disease · chronic obstructive lung disease · chronic obstructive pulmonary disease (COPD) · chronic obstructive pulmonary disease, (COPD) · COLD · cold · cold (chronic obstructive lung disease) · COPD · COPD, chronic obstructive pulmonary disease · disease (COPD), chronic obstructive · obstructive lung disease, chronic · obstructive pulmonary disease (COPD), chronic · pulmonary disease (COPD), chronic obstructive
Data availability: 40 ClinVar variants · 1,266 GWAS associations (119 studies) · 1 GenCC gene-disease record · 5 cell lines.
Disease family
An umbrella term covering 5 Mondo subtypes.
Classification path: disease › human disease › disease by body system or component › respiratory system disorder › lower respiratory tract disorder › lung disorder › obstructive lung disease › chronic obstructive pulmonary disease
Subtypes (5): bronchiectasis, pulmonary emphysema, chronic bronchitis, diffuse panbronchiolitis, COPD, severe early onset
Genetics & variants
GWAS landscape
1,266 GWAS associations across 119 studies. Top hits map to 38 distinct genes (as reported by GWAS).
Top associations by p-value
| rsID | p-value | Gene | Risk allele | Odds ratio |
|---|---|---|---|---|
| rs34712979 | 6e-161 | NPNT | G | 0.06 |
| rs10037493 | 1e-117 | HTR4 | C | 0.05 |
| rs7753012 | 3e-110 | ADGRG6 | T | 0.05 |
| rs6828540 | 7e-101 | GUSBP5 - KRT18P51 | G | 0.05 |
| rs2165489 | 2e-97 | THSD4 | C | 0.05 |
| rs9391855 | 3e-83 | AGER | C | 0.08 |
| rs2001546 | 7e-83 | CDC123 | A | 0.04 |
| rs13140176 | 4e-59 | GUSBP5 - KRT18P51 | A | 1.18 |
| rs62191107 | 1e-55 | LINC01940 - HDAC4 | T | 0.04 |
| rs7162542 | 4e-54 | ADAMTSL3 | C | 0.03 |
| rs2798641 | 3e-51 | ARMC2 | C | 0.04 |
| rs1990950 | 2e-50 | ADAM19 | G | 0.03 |
| rs4888415 | 5e-48 | CFDP1 | C | 0.03 |
| rs633185 | 2e-47 | ARHGAP42 | ? | |
| rs62202378 | 5e-47 | LINC01807 | T | 0.05 |
| rs55884799 | 1e-42 | KCNS3 | T | 0.04 |
| rs13141641 | 9e-41 | KRT18P51 - HHIP-AS1 | T | 1.22 |
| rs9399401 | 2e-40 | ADGRG6 | T | 1.16 |
| rs6537293 | 5e-40 | GUSBP5 - KRT18P51 | G | |
| rs10123811 | 1e-38 | GLIS3 | C | 0.03 |
| rs9788721 | 4e-38 | HYKK | T | 0.15 |
| rs2464523 | 4e-37 | FAM13A | C | 0.03 |
| rs2955133 | 5e-37 | EEFSEC | T | 0.04 |
| rs631126 | 2e-35 | MTCL1 | T | 0.03 |
| rs146059675 | 2e-35 | TSHZ3 | C | 0.04 |
| rs7424080 | 1e-34 | LINC01876 | T | 0.04 |
| rs10059996 | 5e-34 | FGF18 - SMIM23 | T | 0.03 |
| rs1441358 | 7e-33 | THSD4 | G | 1.13 |
| rs879394 | 8e-32 | LINC02082 - LINC01997 | G | 0.03 |
| rs17058639 | 1e-31 | SLMAP | C | 0.03 |
Top studies (by case count)
| Study | Lead author | Year | Cases | Controls | Title |
|---|---|---|---|---|---|
| GCST007692 | Sakornsakolpat P | 2019 | 35,735 | 222,076 | Genetic landscape of chronic obstructive pulmonary disease identifies heterogeneous cell-type and phenotype associations. |
| GCST011766 | Moll M | 2021 | 31,465 | 203,688 | A Systematic Analysis of Protein-altering Exonic Variants in Chronic Obstructive Pulmonary Disease. |
| GCST90016585 | Kim W | 2020 | 21,077 | 179,689 | Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease. |
| GCST90016586 | Kim W | 2020 | 21,077 | 179,689 | Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease. |
| GCST90016587 | Kim W | 2020 | 21,077 | 179,689 | Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease. |
| GCST90016590 | Kim W | 2020 | 21,077 | 179,689 | Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease. |
| GCST90016591 | Kim W | 2020 | 21,077 | 179,689 | Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease. |
| GCST90016592 | Kim W | 2020 | 21,077 | 179,689 | Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease. |
| GCST90016594 | Kim W | 2020 | 16,488 | 169,688 | Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease. |
| GCST90018807 | Sakaue S | 2021 | 13,530 | 454,945 | A cross-population atlas of genetic associations for 220 human phenotypes. |
Variant details and genetic-evidence tiers
Tier distribution (top 50 variants)
| Tier | Variants |
|---|---|
| Tier 1: coding | 2 |
| Tier 2: splice/UTR | 5 |
| Tier 3: regulatory | 0 |
| Tier 4: intronic/intergenic | 43 |
MAF distribution
| Bucket | Variants |
|---|---|
| common (>=0.05) | 46 |
| low_freq (0.01-0.05) | 1 |
| rare (<0.01) | 0 |
| unknown | 3 |
Functional consequences
| Consequence | Count |
|---|---|
| intron_variant | 36 |
| intergenic_variant | 5 |
| splice_region_variant | 2 |
| 3_prime_UTR_variant | 2 |
| missense_variant | 2 |
| unknown | 2 |
| 5_prime_UTR_variant | 1 |
Top variants
| rsID | Chr | Pos | Alleles | MAF | Consequence | Gene | p-value | Tier |
|---|---|---|---|---|---|---|---|---|
| rs34712979 | 4 | 105897896 | G>A,T | 0.05 | splice_region_variant | NPNT | 6e-161 | Tier 2: splice/UTR |
| rs10037493 | 5 | 148475407 | C>A,G,T | 0.05 | intron_variant | HTR4 | 1e-117 | Tier 4: intronic/intergenic |
| rs7753012 | 6 | 142424746 | T>A,C,G | 0.05 | intron_variant | ADGRG6 | 3e-110 | Tier 4: intronic/intergenic |
| rs6828540 | 4 | 144542079 | G>A,C | 0.05 | intron_variant | GUSBP5 - KRT18P51 | 7e-101 | Tier 4: intronic/intergenic |
| rs2165489 | 15 | 71381439 | C>G,T | 0.05 | intron_variant | THSD4 | 2e-97 | Tier 4: intronic/intergenic |
| rs9391855 | 6 | 32182024 | C>T | 0.05 | intron_variant | AGER | 3e-83 | Tier 4: intronic/intergenic |
| rs2001546 | 10 | 12243736 | A>T | 0.05 | intron_variant | CDC123 | 7e-83 | Tier 4: intronic/intergenic |
| rs13140176 | 4 | 144567946 | A>G,T | 0.39 | intron_variant | GUSBP5 - KRT18P51 | 4e-59 | Tier 4: intronic/intergenic |
| rs62191107 | 2 | 238954831 | T>C | 0.05 | intergenic_variant | LINC01940 - HDAC4 | 1e-55 | Tier 4: intronic/intergenic |
| rs7162542 | 15 | 83845538 | C>A,G,T | 0.05 | intron_variant | ADAMTSL3 | 4e-54 | Tier 4: intronic/intergenic |
| rs2798641 | 6 | 108946847 | C>T | 0.05 | intron_variant | ARMC2 | 3e-51 | Tier 4: intronic/intergenic |
| rs1990950 | 5 | 157493748 | G>C,T | 0.05 | intron_variant | ADAM19 | 2e-50 | Tier 4: intronic/intergenic |
| rs4888415 | 16 | 75415023 | C>G,T | 0.05 | intron_variant | CFDP1 | 5e-48 | Tier 4: intronic/intergenic |
| rs633185 | 11 | 100722807 | G>A,C | 0.05 | intron_variant | ARHGAP42 | 2e-47 | Tier 4: intronic/intergenic |
| rs62202378 | 2 | 228697179 | T>A,G | 0.05 | intron_variant | LINC01807 | 5e-47 | Tier 4: intronic/intergenic |
| rs55884799 | 2 | 18106357 | T>C | 0.05 | intergenic_variant | KCNS3 | 1e-42 | Tier 4: intronic/intergenic |
| rs13141641 | 4 | 144585304 | T>A,C | 0.41 | intron_variant | KRT18P51 - HHIP-AS1 | 9e-41 | Tier 4: intronic/intergenic |
| rs9399401 | 6 | 142347764 | T>A,C | 0.28 | intron_variant | ADGRG6 | 2e-40 | Tier 4: intronic/intergenic |
| rs6537293 | 4 | 144558609 | A>G | 0.39 | intron_variant | GUSBP5 - KRT18P51 | 5e-40 | Tier 4: intronic/intergenic |
| rs10123811 | 9 | 4143735 | C>G,T | 0.05 | intron_variant | GLIS3 | 1e-38 | Tier 4: intronic/intergenic |
| rs9788721 | 15 | 78510527 | C>A,G,T | 0.05 | intron_variant | HYKK | 4e-38 | Tier 4: intronic/intergenic |
| rs2464523 | 4 | 88939696 | C>G,T | 0.05 | intron_variant | FAM13A | 4e-37 | Tier 4: intronic/intergenic |
| rs2955133 | 3 | 128226479 | T>A,C | 0.05 | intron_variant | EEFSEC | 5e-37 | Tier 4: intronic/intergenic |
| rs631126 | 18 | 8800725 | T>A,C,G | 0.05 | intron_variant | MTCL1 | 2e-35 | Tier 4: intronic/intergenic |
| rs146059675 | 19 | 31338847 | CT>C,CTT,CTTT | 0.05 | intron_variant | TSHZ3 | 2e-35 | Tier 4: intronic/intergenic |
| rs7424080 | 2 | 156141090 | T>C | 0.05 | intron_variant | LINC01876 | 1e-34 | Tier 4: intronic/intergenic |
| rs10059996 | 5 | 171474459 | T>G | 0.05 | intron_variant | FGF18 - SMIM23 | 5e-34 | Tier 4: intronic/intergenic |
| rs1441358 | 15 | 71320175 | T>C,G | 0.34 | intron_variant | THSD4 | 7e-33 | Tier 4: intronic/intergenic |
| rs879394 | 3 | 168992055 | G>C,T | 0.05 | intergenic_variant | LINC02082 - LINC01997 | 8e-32 | Tier 4: intronic/intergenic |
| rs17058639 | 3 | 57896874 | C>T | 0.05 | splice_region_variant | SLMAP | 1e-31 | Tier 2: splice/UTR |
ClinVar germline variants
40 retrieved; paginated sample, class counts are floors:
14 association, 11 likely pathogenic, 4 benign, 2 uncertain significance; association, 2 uncertain significance, 2 conflicting classifications of pathogenicity, 2 pathogenic, 1 established risk allele; association, 1 conflicting classifications of pathogenicity; risk factor, 1 pathogenic/pathogenic, low penetrance; other
| ClinVar | Variant (HGVS) | Gene | Classification | Review |
|---|---|---|---|---|
| 3336651 | NM_000750.5(CHRNB4):c.1411G>C (p.Val471Leu) | CHRNB4 | Pathogenic | no assertion criteria provided |
| 3242552 | NM_000583.4(GC):c.1366A>T (p.Asn456Tyr) | GC | Pathogenic | no assertion criteria provided |
| 17969 | NM_001127701.1(SERPINA1):c.863A>T (p.Glu288Val) | SERPINA1 | Pathogenic/Pathogenic, low penetrance; other | criteria provided, multiple submitters, no conflicts |
| 3336641 | NM_000583.4(GC):c.1368C>A (p.Asn456Lys) | GC | Likely pathogenic | no assertion criteria provided |
| 3336642 | NM_000583.4(GC):c.1322_1323insTG (p.Val442fs) | GC | Likely pathogenic | no assertion criteria provided |
| 3336643 | NM_000583.4(GC):c.1328del (p.Asn443fs) | GC | Likely pathogenic | no assertion criteria provided |
| 3336644 | NM_000583.4(GC):c.1349C>G (p.Ser450Cys) | GC | Likely pathogenic | no assertion criteria provided |
| 3336646 | NM_000583.4(GC):c.1364T>C (p.Ile455Thr) | GC | Likely pathogenic | no assertion criteria provided |
| 3336647 | NM_000583.4(GC):c.1330A>T (p.Lys444Ter) | GC | Likely pathogenic | no assertion criteria provided |
| 3336648 | NM_000583.4(GC):c.1324dup (p.Val442fs) | GC | Likely pathogenic | no assertion criteria provided |
| 3336649 | NM_000583.4(GC):c.1327_1328insT (p.Asn443fs) | GC | Likely pathogenic | no assertion criteria provided |
| 4796619 | NM_002133.3(HMOX1):c.546C>A (p.Tyr182Ter) | HMOX1 | Likely pathogenic | criteria provided, single submitter |
| 3336640 | NM_001013619.4(HYKK):c.337+256T>C | HYKK | Likely pathogenic | no assertion criteria provided |
| 3336650 | NC_000012.12:g.47906043T>C | VDR | Likely pathogenic | no assertion criteria provided |
| 1027621 | NM_003357.5(SCGB1A1):c.-26G>A | SCGB1A1 | Established risk allele; association | no assertion criteria provided |
| 1318566 | NM_002133.3(HMOX1):c.287G>A (p.Trp96Ter) | HMOX1 | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 17967 | NM_001127701.1(SERPINA1):c.1096G>A (p.Glu366Lys) | SERPINA1 | Conflicting classifications of pathogenicity; risk factor | criteria provided, conflicting classifications |
| 410674 | NM_198253.3(TERT):c.1931C>T (p.Thr644Met) | TERT | Conflicting classifications of pathogenicity | criteria provided, conflicting classifications |
| 1027620 | NC_000011.10:g.34788896T>C | association | no assertion criteria provided | |
| 1027622 | NC_000011.10:g.34758731G>A | association | no assertion criteria provided | |
| 1027617 | NM_014883.4(FAM13A):c.605+25827G>A | FAM13A | association | no assertion criteria provided |
| 1027619 | NC_000004.12:g.88448181T>C | FAM13A | association | no assertion criteria provided |
| 1162779 | NM_014883.4(FAM13A):c.843+16335C>A | FAM13A | Uncertain significance; association | no assertion criteria provided |
| 3336645 | NM_000583.4(GC):c.1375_1376insG (p.Pro459fs) | GC | Uncertain significance | no assertion criteria provided |
| 870129 | NC_000004.12:g.144539078A>G | HHIP | association | no assertion criteria provided |
| 870130 | NC_000004.12:g.144565237A>G | HHIP | association | no assertion criteria provided |
| 870131 | NC_000004.12:g.144559628A>G | HHIP | association | no assertion criteria provided |
| 694514 | NM_005345.6(HSPA1A):c.330G>C (p.Glu110Asp) | HSPA1A | association | no assertion criteria provided |
| 694515 | NC_000006.12:g.31815431A>C | HSPA1A | association | no assertion criteria provided |
| 694516 | NM_005345.6(HSPA1A):c.-27G>C | HSPA1A | association | no assertion criteria provided |
Genes & proteins
Mendelian disease overlap and somatic drivers
GenCC: 6 · Orphanet: 62 · OMIM-shared: 0 · Dual-evidence (GWAS+Mendelian): 6
Dual-evidence genes (GWAS + Mendelian — highest-confidence targets)
| Gene | HGNC | Evidence routes |
|---|---|---|
| SCGB1A1 | SCGB1A1 | GWAS |
| HHIP | HHIP | GWAS |
| FAM13A | FAM13A | GWAS, Orphanet |
| CHRNB4 | CHRNB4 | GWAS |
| DSP | DSP | GWAS, Orphanet |
| HYKK | HYKK | GWAS |
GenCC gene–disease validity (cohort genes)
the Disease column is the GenCC-asserted condition — a cohort gene’s strongest validity may be for a related predisposition syndrome.
| Gene | Classification | Inheritance | Disease | Records |
|---|---|---|---|---|
| HMOX1 | Limited | Unknown | chronic obstructive pulmonary disease | 6 |
Orphanet rare-disease linkage (cohort genes)
| Gene | Orphanet ID | Rare disease |
|---|---|---|
| FAM13A | Orphanet:2032 | Idiopathic pulmonary fibrosis |
| DSP | Orphanet:154 | Familial isolated dilated cardiomyopathy |
| DSP | Orphanet:158687 | Lethal acantholytic erosive disorder |
| DSP | Orphanet:2032 | Idiopathic pulmonary fibrosis |
| DSP | Orphanet:293165 | Skin fragility-woolly hair-palmoplantar keratoderma syndrome |
| DSP | Orphanet:293888 | Inherited isolated arrhythmogenic cardiomyopathy, dominant-left variant |
| DSP | Orphanet:293899 | Inherited isolated arrhythmogenic ventricular dysplasia, biventricular variant |
| DSP | Orphanet:293910 | Inherited isolated arrhythmogenic cardiomyopathy, dominant-right variant |
| DSP | Orphanet:369992 | Severe dermatitis-multiple allergies-metabolic wasting syndrome |
| DSP | Orphanet:476096 | Erythrokeratodermia-cardiomyopathy syndrome |
| DSP | Orphanet:50942 | Striate palmoplantar keratoderma |
| DSP | Orphanet:65282 | Carvajal syndrome |
| HMOX1 | Orphanet:562509 | Heme oxygenase-1 deficiency |
| HMOX1 | Orphanet:586 | Cystic fibrosis |
| RREB1 | Orphanet:567 | 22q11.2 deletion syndrome |
| SEC24C | Orphanet:567 | 22q11.2 deletion syndrome |
| BMP6 | Orphanet:465508 | Symptomatic form of HFE-related hemochromatosis |
| SIX5 | Orphanet:107 | BOR syndrome |
| ARID1A | Orphanet:1465 | Coffin-Siris syndrome |
| SOX9 | Orphanet:140 | Campomelic dysplasia |
| SOX9 | Orphanet:2138 | 46,XX ovotesticular difference of sex development |
| SOX9 | Orphanet:242 | 46,XY complete gonadal dysgenesis |
| SOX9 | Orphanet:251510 | 46,XY partial gonadal dysgenesis |
| SOX9 | Orphanet:393 | 46,XX testicular difference of sex development |
| SOX9 | Orphanet:718 | Isolated Pierre Robin sequence |
| SYNGAP1 | Orphanet:1942 | Epilepsy with myoclonic-atonic seizures |
| SYNGAP1 | Orphanet:442835 | Non-specific early-onset epileptic encephalopathy |
| SYNGAP1 | Orphanet:544254 | SYNGAP1-related developmental and epileptic encephalopathy |
| HNF1A | Orphanet:319303 | Chromophobe renal cell carcinoma |
| HNF1A | Orphanet:324575 | Hyperinsulinism due to HNF1A deficiency |
| HNF1A | Orphanet:404511 | Clear cell papillary renal cell carcinoma |
| HNF1A | Orphanet:552 | MODY |
| TERT | Orphanet:146 | Differentiated thyroid carcinoma |
| TERT | Orphanet:1501 | Adrenocortical carcinoma |
| TERT | Orphanet:1775 | Dyskeratosis congenita |
| TERT | Orphanet:2032 | Idiopathic pulmonary fibrosis |
| TERT | Orphanet:2495 | Meningioma |
| TERT | Orphanet:3322 | Hoyeraal-Hreidarsson syndrome |
| TERT | Orphanet:457246 | Clear cell sarcoma of kidney |
| TERT | Orphanet:618 | Familial melanoma |
| TERT | Orphanet:88 | Idiopathic aplastic anemia |
| TGFB2 | Orphanet:60030 | Loeys-Dietz syndrome |
| TGFB2 | Orphanet:91387 | Familial thoracic aortic aneurysm and aortic dissection |
| THRA | Orphanet:566231 | Resistance to thyroid hormone due to a mutation in thyroid hormone receptor alpha |
| TNFSF15 | Orphanet:186 | Primary biliary cholangitis |
| TNRC6A | Orphanet:86814 | Familial adult myoclonic epilepsy |
| TOP2B | Orphanet:567502 | B-cell immunodeficiency-limb anomaly-urogenital malformation syndrome |
| VDR | Orphanet:93160 | Hypocalcemic vitamin D-resistant rickets |
| WNT7A | Orphanet:2854 | Fuhrmann syndrome |
| WNT7A | Orphanet:2879 | Phocomelia, Schinzel type |
Cohort genes → proteins
75 cohort genes, 74 distinct canonical proteins.
Evidence partition
| Subset | Genes |
|---|---|
| gwas_only | 66 |
| gwas_and_clinvar | 6 |
| multi_evidence | 3 |
Cohort genes (full)
| Symbol | HGNC | Ensembl | UniProt | Name | Evidence |
|---|---|---|---|---|---|
| SCGB1A1 | HGNC:12523 | ENSG00000149021 | P11684 | Uteroglobin | gwas,clinvar |
| HHIP | HGNC:14866 | ENSG00000164161 | Q96QV1 | Hedgehog-interacting protein | gwas,clinvar |
| FAM13A | HGNC:19367 | ENSG00000138640 | O94988 | Protein FAM13A | gwas,clinvar |
| CHRNB4 | HGNC:1964 | ENSG00000117971 | P30926 | Neuronal acetylcholine receptor subunit beta-4 | gwas,clinvar |
| DSP | HGNC:3052 | ENSG00000096696 | P15924 | Desmoplakin | gwas,clinvar |
| HYKK | HGNC:34403 | ENSG00000188266 | A2RU49 | Hydroxylysine kinase | gwas,clinvar |
| HMOX1 | HGNC:5013 | ENSG00000100292 | P09601 | Heme oxygenase 1 | gencc,clinvar |
| RPL17 | HGNC:10307 | ENSG00000265681 | P18621 | Large ribosomal subunit protein uL22 | gwas |
| RREB1 | HGNC:10449 | ENSG00000124782 | Q92766 | Ras-responsive element-binding protein 1 | gwas |
| RUVBL1 | HGNC:10474 | ENSG00000175792 | Q9Y265 | RuvB-like 1 | gwas |
| SEC24C | HGNC:10705 | ENSG00000176986 | P53992 | Protein transport protein Sec24C | gwas |
| BMP6 | HGNC:1073 | ENSG00000153162 | P22004 | Bone morphogenetic protein 6 | gwas |
| SFN | HGNC:10773 | ENSG00000175793 | P31947 | 14-3-3 protein sigma | gwas |
| SFTPD | HGNC:10803 | ENSG00000133661 | P35247 | Pulmonary surfactant-associated protein D | gwas |
| SIX5 | HGNC:10891 | ENSG00000177045 | Q8N196 | Homeobox protein SIX5 | gwas |
| ARID1A | HGNC:11110 | ENSG00000117713 | O14497 | AT-rich interactive domain-containing protein 1A | gwas |
| SNRPD2 | HGNC:11159 | ENSG00000125743 | P62316 | Small nuclear ribonucleoprotein Sm D2 | gwas |
| SNRPF | HGNC:11162 | ENSG00000139343 | P62306 | Small nuclear ribonucleoprotein F | gwas |
| BTBD1 | HGNC:1120 | ENSG00000064726 | Q9H0C5 | BTB/POZ domain-containing protein 1 | gwas |
| SOX9 | HGNC:11204 | ENSG00000125398 | P48436 | Transcription factor SOX-9 | gwas |
| BTC | HGNC:1121 | ENSG00000174808 | P35070 | Probetacellulin | gwas |
| BTN2A1 | HGNC:1136 | ENSG00000112763 | Q7KYR7 | Butyrophilin subfamily 2 member A1 | gwas |
| SYN2 | HGNC:11495 | ENSG00000157152 | Q92777 | Synapsin-2 | gwas |
| SYN3 | HGNC:11496 | ENSG00000185666 | O14994 | Synapsin-3 | gwas |
| SYNGAP1 | HGNC:11497 | ENSG00000197283 | Q96PV0 | Ras/Rap GTPase-activating protein SynGAP | gwas |
| HNF1A | HGNC:11621 | ENSG00000135100 | P20823 | Hepatocyte nuclear factor 1-alpha | gwas |
| TCF19 | HGNC:11629 | ENSG00000137310 | Q9Y242 | Transcription factor 19 | gwas |
| TERT | HGNC:11730 | ENSG00000164362 | O14746 | Telomerase reverse transcriptase | clinvar |
| TESK2 | HGNC:11732 | ENSG00000070759 | Q96S53 | Dual specificity testis-specific protein kinase 2 | gwas |
| TFAP2C | HGNC:11744 | ENSG00000087510 | Q92754 | Transcription factor AP-2 gamma | gwas |
| TGFB2 | HGNC:11768 | ENSG00000092969 | P61812 | Transforming growth factor beta-2 proprotein | gwas |
| THRA | HGNC:11796 | ENSG00000126351 | P10827 | Thyroid hormone receptor alpha | gwas |
| TNFSF15 | HGNC:11931 | ENSG00000181634 | O95150 | Tumor necrosis factor ligand superfamily member 15 | gwas |
| TNRC6A | HGNC:11969 | ENSG00000090905 | Q8NDV7 | Trinucleotide repeat-containing gene 6A protein | gwas |
| TNS1 | HGNC:11973 | ENSG00000079308 | Q9HBL0 | Tensin-1 | gwas |
| TOP2B | HGNC:11990 | ENSG00000077097 | Q02880 | DNA topoisomerase 2-beta | gwas |
| LINC00470 | HGNC:1225 | ENSG00000132204 | Q9BZP3 | Putative uncharacterized protein encoded by LINC00470 | gwas |
| USP3 | HGNC:12626 | ENSG00000140455 | Q9Y6I4 | Ubiquitin carboxyl-terminal hydrolase 3 | gwas |
| VARS1 | HGNC:12651 | ENSG00000204394 | P26640 | Valine–tRNA ligase | gwas |
| VDR | HGNC:12679 | ENSG00000111424 | P11473 | Vitamin D3 receptor | clinvar |
| MIR99AHG | HGNC:1274 | ENSG00000215386 | mir-99a-let-7c cluster host gene | gwas | |
| WNT7A | HGNC:12786 | ENSG00000154764 | O00755 | Protein Wnt-7a | gwas |
| ZKSCAN1 | HGNC:13101 | ENSG00000106261 | P17029 | Zinc finger protein with KRAB and SCAN domains 1 | gwas |
| EML4 | HGNC:1316 | ENSG00000143924 | Q9HC35 | Echinoderm microtubule-associated protein-like 4 | gwas |
| ZSCAN12 | HGNC:13172 | ENSG00000158691 | O43309 | Zinc finger and SCAN domain-containing protein 12 | gwas |
| LXN | HGNC:13347 | ENSG00000079257 | Q9BS40 | Latexin | gwas |
| RBMS3 | HGNC:13427 | ENSG00000144642 | Q6XE24 | RNA-binding motif, single-stranded-interacting protein 3 | gwas |
| MACF1 | HGNC:13664 | ENSG00000127603 | O94854 | Microtubule-actin cross-linking factor 1, isoforms 6/7 | gwas |
| GFM1 | HGNC:13780 | ENSG00000168827 | Q96RP9 | Elongation factor G, mitochondrial | gwas |
| ADGRG6 | HGNC:13841 | ENSG00000112414 | Q86SQ4 | Adhesion G-protein coupled receptor G6 | gwas |
Cohort function summary
Lead sentence per gene, UniProt-curated.
| Symbol | Protein name | Function (lead sentence) |
|---|---|---|
| SCGB1A1 | Uteroglobin | Binds phosphatidylcholine, phosphatidylinositol, polychlorinated biphenyls (PCB) and weakly progesterone, potent inhibitor of phospholipase A2. |
| HHIP | Hedgehog-interacting protein | Modulates hedgehog signaling in several cell types including brain and lung through direct interaction with members of the hedgehog family. |
| CHRNB4 | Neuronal acetylcholine receptor subunit beta-4 | Component of neuronal acetylcholine receptors (nAChRs) that function as pentameric, ligand-gated cation channels with high calcium permeability among other activities. nAChRs are excitatory neurotrasnmitter receptors formed by a collection… |
| DSP | Desmoplakin | A component of desmosome cell-cell junctions which are required for positive regulation of cellular adhesion. |
| HYKK | Hydroxylysine kinase | Catalyzes the GTP-dependent phosphorylation of 5-hydroxy-L-lysine. |
| HMOX1 | Heme oxygenase 1 | Catalyzes the oxidative cleavage of heme at the alpha-methene bridge carbon, released as carbon monoxide (CO), to generate biliverdin IXalpha, while releasing the central heme iron chelate as ferrous iron. |
| RPL17 | Large ribosomal subunit protein uL22 | Component of the large ribosomal subunit. |
| RREB1 | Ras-responsive element-binding protein 1 | Transcription factor that binds specifically to the RAS-responsive elements (RRE) of gene promoters. |
| RUVBL1 | RuvB-like 1 | Possesses single-stranded DNA-stimulated ATPase and ATP-dependent DNA helicase (3’ to 5’) activity; hexamerization is thought to be critical for ATP hydrolysis and adjacent subunits in the ring-like structure contribute to the ATPase activ… |
| SEC24C | Protein transport protein Sec24C | Component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). |
| BMP6 | Bone morphogenetic protein 6 | Growth factor of the TGF-beta superfamily that plays essential roles in many developmental processes including cartilage and bone formation. |
| SFN | 14-3-3 protein sigma | Adapter protein implicated in the regulation of a large spectrum of both general and specialized signaling pathways. |
| SFTPD | Pulmonary surfactant-associated protein D | Contributes to the lung’s defense against inhaled microorganisms, organic antigens and toxins. |
| SIX5 | Homeobox protein SIX5 | Transcription factor that is thought to be involved in regulation of organogenesis. |
| ARID1A | AT-rich interactive domain-containing protein 1A | Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). |
| SNRPD2 | Small nuclear ribonucleoprotein Sm D2 | Plays a role in pre-mRNA splicing as a core component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. |
| SNRPF | Small nuclear ribonucleoprotein F | Plays a role in pre-mRNA splicing as a core component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. |
| BTBD1 | BTB/POZ domain-containing protein 1 | Probable substrate-specific adapter of an E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins. |
| SOX9 | Transcription factor SOX-9 | Transcription factor that plays a key role in chondrocytes differentiation and skeletal development. |
| BTC | Probetacellulin | Growth factor that binds to EGFR, ERBB4 and other EGF receptor family members. |
| SYN2 | Synapsin-2 | Neuronal phosphoprotein that coats synaptic vesicles, binds to the cytoskeleton, and is believed to function in the regulation of neurotransmitter release. |
| SYN3 | Synapsin-3 | May be involved in the regulation of neurotransmitter release and synaptogenesis. |
| SYNGAP1 | Ras/Rap GTPase-activating protein SynGAP | Major constituent of the PSD essential for postsynaptic signaling. |
| HNF1A | Hepatocyte nuclear factor 1-alpha | Transcriptional activator that regulates the tissue specific expression of multiple genes, especially in pancreatic islet cells and in liver. |
| TCF19 | Transcription factor 19 | Potential transcription factor that may play a role in the regulation of genes involved in cell cycle G1/S transition. |
| TERT | Telomerase reverse transcriptase | Telomerase is a ribonucleoprotein enzyme essential for the replication of chromosome termini in most eukaryotes. |
| TESK2 | Dual specificity testis-specific protein kinase 2 | Dual specificity protein kinase activity catalyzing autophosphorylation and phosphorylation of exogenous substrates on both serine/threonine and tyrosine residues. |
| TFAP2C | Transcription factor AP-2 gamma | Sequence-specific DNA-binding transcription factor that interacts with cellular enhancer elements to regulate transcription of selected genes, and which plays a key role in early embryonic development. |
| TGFB2 | Transforming growth factor beta-2 proprotein | Precursor of the Latency-associated peptide (LAP) and Transforming growth factor beta-2 (TGF-beta-2) chains, which constitute the regulatory and active subunit of TGF-beta-2, respectively. |
| THRA | Thyroid hormone receptor alpha | Nuclear hormone receptor that can act as a repressor or activator of transcription. |
| TNFSF15 | Tumor necrosis factor ligand superfamily member 15 | Receptor for TNFRSF25 and TNFRSF6B. |
| TNRC6A | Trinucleotide repeat-containing gene 6A protein | Plays a role in RNA-mediated gene silencing by both micro-RNAs (miRNAs) and short interfering RNAs (siRNAs). |
| TNS1 | Tensin-1 | May act as a protein phosphatase and/or a lipid phosphatase. |
| TOP2B | DNA topoisomerase 2-beta | Key decatenating enzyme that alters DNA topology by binding to two double-stranded DNA molecules, generating a double-stranded break in one of the strands, passing the intact strand through the broken strand, and religating the broken stra… |
| USP3 | Ubiquitin carboxyl-terminal hydrolase 3 | Deubiquitinase that plays a role in several cellular processes including transcriptional regulation, cell cycle progression or innate immunity. |
| VARS1 | Valine–tRNA ligase | Catalyzes the attachment of valine to tRNA(Val). |
| VDR | Vitamin D3 receptor | Nuclear receptor for calcitriol, the active form of vitamin D3 which mediates the action of this vitamin on cells. |
| WNT7A | Protein Wnt-7a | Ligand for members of the frizzled family of seven transmembrane receptors that functions in the canonical Wnt/beta-catenin signaling pathway. |
| ZKSCAN1 | Zinc finger protein with KRAB and SCAN domains 1 | May be involved in transcriptional regulation. |
| EML4 | Echinoderm microtubule-associated protein-like 4 | Essential for the formation and stability of microtubules (MTs). |
| ZSCAN12 | Zinc finger and SCAN domain-containing protein 12 | May be involved in transcriptional regulation. |
| LXN | Latexin | Hardly reversible, non-competitive, and potent inhibitor of CPA1, CPA2 and CPA4. |
| RBMS3 | RNA-binding motif, single-stranded-interacting protein 3 | Binds poly(A) and poly(U) oligoribonucleotides. |
| GFM1 | Elongation factor G, mitochondrial | Mitochondrial GTPase that catalyzes the GTP-dependent ribosomal translocation step during translation elongation. |
| ADGRG6 | Adhesion G-protein coupled receptor G6 | Adhesion G-protein coupled receptor (aGPCR) for steroid hormones, such as progesterone and 17alpha-hydroxyprogesterone (17OHP). |
| CCHCR1 | Coiled-coil alpha-helical rod protein 1 | May be a regulator of keratinocyte proliferation or differentiation. |
| OR12D3 | Olfactory receptor 12D3 | Odorant receptor. |
| OR2B2 | Olfactory receptor 2B2 | Odorant receptor. |
| PRDM15 | PR domain zinc finger protein 15 | Sequence-specific DNA-binding transcriptional regulator. |
| CSMD1 | CUB and sushi domain-containing protein 1 | Potential suppressor of squamous cell carcinomas. |
Protein-family classification
Druggable: 21 · Difficult: 16 · Unknown: 38 · Druggable fraction: 0.28
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 |
|---|---|---|---|
| Nuclear receptor | 2 | 10.3× | 0.178 |
| Complement | 1 | 3.6× | 0.732 |
| Phosphatase | 2 | 2.2× | 0.732 |
| Scaffold/PPI | 6 | 1.4× | 0.732 |
| Kinase | 3 | 1.1× | 0.747 |
| Transcription factor | 10 | 1.1× | 0.747 |
| Protease | 2 | 1.0× | 0.747 |
| Enzyme (other) | 6 | 1.0× | 0.747 |
| GPCR | 3 | 1.0× | 0.747 |
| Antibody/Immunoglobulin | 2 | 0.8× | 0.806 |
| Other/Unknown | 38 | 0.9× | 0.845 |
Per-gene assignment
| Symbol | Family | Druggable? | EC | InterPro (top 3) |
|---|---|---|---|---|
| SCGB1A1 | Other/Unknown | no | Uteroglobin, Secretoglobin, Secretoglobin_sf | |
| HHIP | Other/Unknown | no | EGF, Quinoprot_gluc/sorb_DH_b-prop, 6-blade_b-propeller_TolB-like | |
| FAM13A | Other/Unknown | no | RhoGAP_dom, Rho_GTPase_activation_prot, FAM13 | |
| CHRNB4 | Other/Unknown | no | Nicotinic_acetylcholine_rcpt, Neurotrans-gated_channel_TM, Neur_channel | |
| DSP | Scaffold/PPI | no | Plectin_repeat, SH3_domain, Spectrin/alpha-actinin | |
| HYKK | Kinase | yes | 2.7.1.81 | Aminoglycoside_PTrfase, Kinase-like_dom_sf, Pseudomonas-type_ThrB |
| HMOX1 | Enzyme (other) | yes | 1.14.14.18 | Haem_Oase, Haem_Oase-like, Haem_Oase-like_multi-hlx |
| RPL17 | Other/Unknown | no | Ribosomal_uL22, Ribosomal_uL22_euk_arc, Ribosomal_uL22_CS | |
| RREB1 | Transcription factor | no | Znf_C2H2_type, Znf_C2H2_sf, RREB1 | |
| RUVBL1 | Other/Unknown | no | AAA+_ATPase, TIP49_P-loop, RuvB-like | |
| SEC24C | Transcription factor | no | Znf_Sec23_Sec24, Sec23/24_trunk_dom, Sec23/24_helical_dom | |
| BMP6 | Other/Unknown | no | TGF-b_propeptide, TGF-b_C, TGF-beta-like | |
| SFN | Other/Unknown | no | 14-3-3, 14-3-3_CS, 14-3-3_domain | |
| SFTPD | Other/Unknown | no | C-type_lectin-like, Collagen, Surfac_D-trimer | |
| SIX5 | Transcription factor | no | HD, Homeodomain-like_sf, Homeobox_CS | |
| ARID1A | Other/Unknown | no | ARID_dom, ARM-like, ARM-type_fold | |
| SNRPD2 | Other/Unknown | no | Sm_dom_euk/arc, LSM_dom_sf, Sm_D2 | |
| SNRPF | Other/Unknown | no | Sm_dom_euk/arc, LSM_dom_sf, Lsm6/sSmF | |
| BTBD1 | Other/Unknown | no | BTB/POZ_dom, SKP1/BTB/POZ_sf, BACK | |
| SOX9 | Transcription factor | no | HMG_box_dom, Sox_N, HMG_box_dom_sf | |
| BTC | Other/Unknown | no | EGF | |
| BTN2A1 | Antibody/Immunoglobulin | yes | B30.2/SPRY, Ig_sub, SPRY_dom | |
| SYN2 | Other/Unknown | no | Synapsin, ATP_grasp_subdomain_1, PreATP-grasp_dom_sf | |
| SYN3 | Other/Unknown | no | Synapsin, ATP_grasp_subdomain_1, PreATP-grasp_dom_sf | |
| SYNGAP1 | Scaffold/PPI | no | C2_dom, PH_domain, RasGAP_dom | |
| HNF1A | Transcription factor | no | HD, HNF1b_C, HNF1a_C | |
| TCF19 | Transcription factor | no | FHA_dom, Znf_PHD, SMAD_FHA_dom_sf | |
| TERT | Other/Unknown | no | RT_dom, Telomerase_RT, Telomerase_RBD | |
| TESK2 | Kinase | yes | 2.7.10.2 | Prot_kinase_dom, Ser-Thr/Tyr_kinase_cat_dom, Tyr_kinase_AS |
| TFAP2C | Transcription factor | no | TF_AP2, TF_AP2_gamma, TF_AP2_C | |
| TGFB2 | Other/Unknown | no | TGF-b_propeptide, TGF-b_C, TGFb2 | |
| THRA | Nuclear receptor | yes | Nucl_hrmn_rcpt_lig-bd, Znf_hrmn_rcpt, Nuclear_hrmn_rcpt | |
| TNFSF15 | Other/Unknown | no | TNF_dom, TNF, Tumour_necrosis_fac-like_dom | |
| TNRC6A | Other/Unknown | no | Nucleotide-bd_a/b_plait_sf, Argonaute_hook_dom, TNRC6_PABC-bd | |
| TNS1 | Phosphatase | yes | SH2, PKC_DAG/PE, Tyr_Pase_cat | |
| TOP2B | Enzyme (other) | yes | 5.6.2.2 | TopoII_euk, Topo_IIA, Topo_IIA_dom_A |
| LINC00470 | Other/Unknown | no | ||
| USP3 | Protease | yes | Peptidase_C19_UCH, Znf_UBP, Znf_RING/FYVE/PHD | |
| VARS1 | Enzyme (other) | yes | 6.1.1.9 | aa-tRNA-synth_I_CS, aa-tRNA-synth_Ia, Valyl-tRNA_ligase |
| VDR | Nuclear receptor | yes | VitD_rcpt, Nucl_hrmn_rcpt_lig-bd, Znf_hrmn_rcpt | |
| MIR99AHG | Other/Unknown | no | ||
| WNT7A | Other/Unknown | no | Wnt, Wnt7, Wnt_CS | |
| ZKSCAN1 | Transcription factor | no | KRAB, SCAN_dom, Znf_C2H2_type | |
| EML4 | Scaffold/PPI | no | WD40_rpt, HELP, Quinoprotein_ADH-like_sf | |
| ZSCAN12 | Transcription factor | no | SCAN_dom, Znf_C2H2_type, Znf_C2H2_sf | |
| LXN | Other/Unknown | no | Latexin, Cystatin_sf, CYSTATIN_LXN | |
| RBMS3 | Other/Unknown | no | RRM_dom, Hud_Sxl_RNA, Nucleotide-bd_a/b_plait_sf | |
| MACF1 | Scaffold/PPI | no | Spectrin_repeat, EF_hand_dom, GAR_dom | |
| GFM1 | Other/Unknown | no | EFG_V-like, T_Tr_GTP-bd_dom, EFTu-like_2 | |
| ADGRG6 | GPCR | yes | GPS, GPCR_2_secretin-like, CUB_dom |
Expression context
Cohort genes with no expression data: 0.
63 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) | 1 |
| broad (>20) | 73 |
| unknown | 0 |
Top tissues across cohort
| Tissue | Cohort genes |
|---|---|
| ventricular zone | 11 |
| primordial germ cell in gonad | 7 |
| calcaneal tendon | 7 |
| right testis | 6 |
| cartilage tissue | 5 |
| cortical plate | 5 |
| left testis | 5 |
| endothelial cell | 4 |
| jejunal mucosa | 4 |
| oocyte | 4 |
| upper leg skin | 4 |
| ileal mucosa | 4 |
| right uterine tube | 4 |
| embryo | 4 |
| endometrium epithelium | 4 |
| testis | 4 |
| bronchial epithelial cell | 3 |
| secondary oocyte | 3 |
| male germ line stem cell (sensu Vertebrata) in testis | 3 |
| hair follicle | 3 |
Per-gene tissue summary (top 30)
| Symbol | Bgee breadth | FANTOM5 breadth | SCXA | Top tissues |
|---|---|---|---|---|
| SCGB1A1 | 170 | tissue_specific | marker | bronchial epithelial cell, epithelium of bronchus, right lung |
| HHIP | 206 | ubiquitous | marker | corpus callosum, endothelial cell, globus pallidus |
| FAM13A | 293 | ubiquitous | marker | secondary oocyte, oocyte, jejunal mucosa |
| CHRNB4 | 125 | broad | marker | primordial germ cell in gonad, male germ line stem cell (sensu Vertebrata) in testis, right testis |
| DSP | 253 | ubiquitous | marker | skin of hip, upper leg skin, hair follicle |
| HYKK | 170 | ubiquitous | marker | olfactory segment of nasal mucosa, calcaneal tendon, ileal mucosa |
| HMOX1 | 230 | ubiquitous | marker | cartilage tissue, spleen, monocyte |
| RPL17 | 134 | ubiquitous | marker | left ovary, ovary, right ovary |
| RREB1 | 278 | ubiquitous | marker | buccal mucosa cell, epithelium of nasopharynx, oral cavity |
| RUVBL1 | 134 | ubiquitous | marker | right uterine tube, ventricular zone, primordial germ cell in gonad |
| SEC24C | 290 | ubiquitous | marker | lower esophagus mucosa, esophagus squamous epithelium, epithelium of esophagus |
| BMP6 | 197 | ubiquitous | marker | secondary oocyte, cartilage tissue, oocyte |
| SFN | 278 | broad | marker | cervix squamous epithelium, gingival epithelium, squamous epithelium |
| SFTPD | 180 | tissue_specific | marker | lower lobe of lung, visceral pleura, upper lobe of lung |
| SIX5 | 205 | ubiquitous | yes | cardiac muscle of right atrium, right uterine tube, right ovary |
| ARID1A | 286 | ubiquitous | marker | bone marrow cell, ventricular zone, embryo |
| SNRPD2 | 295 | ubiquitous | marker | adult organism, type B pancreatic cell, embryo |
| SNRPF | 283 | ubiquitous | marker | endometrium epithelium, oocyte, embryo |
| BTBD1 | 290 | ubiquitous | marker | skeletal muscle tissue of rectus abdominis, vastus lateralis, quadriceps femoris |
| SOX9 | 274 | ubiquitous | marker | ventricular zone, cranial nerve II, hair follicle |
| BTC | 201 | broad | marker | muscle layer of sigmoid colon, upper leg skin, lower esophagus muscularis layer |
| BTN2A1 | 286 | ubiquitous | marker | granulocyte, spleen, cerebellar hemisphere |
| SYN2 | 217 | broad | marker | middle temporal gyrus, endothelial cell, Brodmann (1909) area 23 |
| SYN3 | 176 | broad | marker | primordial germ cell in gonad, cortical plate, primary visual cortex |
| SYNGAP1 | 137 | ubiquitous | marker | pituitary gland, right uterine tube, adenohypophysis |
| HNF1A | 81 | tissue_specific | yes | right lobe of liver, mucosa of transverse colon, liver |
| TCF19 | 133 | ubiquitous | yes | primordial germ cell in gonad, ventricular zone, lymph node |
| TERT | 105 | broad | yes | stromal cell of endometrium, type B pancreatic cell, olfactory bulb |
| TESK2 | 218 | ubiquitous | yes | cartilage tissue, ileal mucosa, C1 segment of cervical spinal cord |
| TFAP2C | 198 | broad | marker | endometrium epithelium, ventricular zone, epithelium of mammary gland |
Protein interactions among cohort
Intra-cohort edges: 22.
Hub genes (top 10 by interactor count)
| Symbol | Interactor count |
|---|---|
| VARS1 | 5,848 |
| GFM1 | 5,789 |
| TERT | 5,717 |
| SFN | 5,552 |
| RPL17 | 5,372 |
| TOP2B | 5,298 |
| SOX9 | 4,935 |
| SNRPF | 4,334 |
| HMOX1 | 4,054 |
| ARID1A | 3,476 |
Intra-cohort edges
| A | B | Sources |
|---|---|---|
| CAMK2G | SYN2 | string_interaction |
| CAMK2G | SYN3 | string_interaction |
| CCHCR1 | OR12D3 | string_interaction |
| CCHCR1 | TCF19 | string_interaction |
| CHRNB4 | HYKK | string_interaction |
| ELOVL4 | HMOX1 | intact |
| FAM13A | HHIP | string_interaction |
| FAM13A | HYKK | string_interaction |
| FAM13A | SFN | intact |
| GAB2 | TESK2 | biogrid_interaction |
| HDAC7 | SFN | intact |
| OR12D3 | TCF19 | string_interaction |
| RUVBL1 | TERT | intact |
| SCGB1A1 | SFTPD | string_interaction |
| SEC24C | SYNGAP1 | intact |
| SFN | TESK2 | intact |
| SNRPD2 | SNRPF | intact |
| SYN2 | SYN3 | biogrid_interaction, intact |
| SYN2 | SYNGAP1 | intact |
| SYN3 | SYNGAP1 | intact |
| SYNGAP1 | TOP2B | intact |
| VARS1 | VWA7 | string_interaction |
Structural data
PDB: 43 · AlphaFold-only: 31 · No structure: 1
Cohort genes with PDB structures (top 30)
| Symbol | UniProt | PDB entries |
|---|---|---|
| SFN | P31947 | 524 |
| RPL17 | P18621 | 195 |
| SNRPF | P62306 | 84 |
| SNRPD2 | P62316 | 81 |
| VDR | P11473 | 52 |
| RUVBL1 | Q9Y265 | 36 |
| BTN2A1 | Q7KYR7 | 33 |
| SFTPD | P35247 | 31 |
| HMOX1 | P09601 | 26 |
| TERT | O14746 | 23 |
| TOP2B | Q02880 | 20 |
| HHIP | Q96QV1 | 11 |
| TGFB2 | P61812 | 11 |
| THRA | P10827 | 10 |
| GAB2 | Q9UQC2 | 10 |
| ARID1A | O14497 | 7 |
| TNFSF15 | O95150 | 7 |
| HNF1A | P20823 | 6 |
| HDAC7 | Q8WUI4 | 6 |
| BMP6 | P22004 | 5 |
| GFM1 | Q96RP9 | 5 |
| CHRNB4 | P30926 | 4 |
| DSP | P15924 | 4 |
| BTC | P35070 | 4 |
| NUF2 | Q9BZD4 | 4 |
| SEC24C | P53992 | 3 |
| WNT7A | O00755 | 3 |
| MACF1 | O94854 | 3 |
| SCGB1A1 | P11684 | 2 |
| TNRC6A | Q8NDV7 | 2 |
AlphaFold-only cohort genes (top 30 by pLDDT)
| Symbol | UniProt | pLDDT |
|---|---|---|
| HYKK | A2RU49 | 93.89 |
| VARS1 | P26640 | 88.12 |
| BTBD1 | Q9H0C5 | 87.99 |
| ELOVL4 | Q9GZR5 | 84.53 |
| VWA7 | Q9Y334 | 84.03 |
| CACNA2D3 | Q8IZS8 | 83.30 |
| PRSS23 | O95084 | 82.18 |
| OR12D3 | Q9UGF7 | 81.77 |
| ASB1 | Q9Y576 | 80.61 |
| OR2B2 | Q9GZK3 | 79.53 |
| CCHCR1 | Q8TD31 | 79.52 |
| USP3 | Q9Y6I4 | 79.40 |
| SYN2 | Q92777 | 75.24 |
| ZSCAN12 | O43309 | 70.20 |
| RSPH6A | Q9H0K4 | 68.76 |
| PICALM | Q13492 | 67.38 |
| TESK2 | Q96S53 | 66.52 |
| TFAP2C | Q92754 | 66.37 |
| ADAMTSL3 | P82987 | 65.99 |
| RBMS3 | Q6XE24 | 63.30 |
| TCF19 | Q9Y242 | 63.17 |
| RGS20 | O76081 | 62.78 |
| FAM13A | O94988 | 61.00 |
| LINC00470 | Q9BZP3 | 60.83 |
| SYNGAP1 | Q96PV0 | 60.43 |
| ZKSCAN1 | P17029 | 59.61 |
| PRDM15 | P57071 | 56.66 |
| TNS1 | Q9HBL0 | 53.42 |
| SIX5 | Q8N196 | 53.21 |
| RREB1 | Q92766 | 48.28 |
Function
Pathway analysis
Distinct Reactome pathways touched by cohort: 644. Enrichment computed across 250 evidence-associated genes (136 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 136 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.
| Pathway | Cohort genes | Fold | FDR | Sample cohort genes |
|---|---|---|---|---|
| Highly calcium permeable nicotinic acetylcholine receptors | 4 | 37.3× | 0.001 | CHRNB4, CHRNA3, CHRNA4, CHRNA5 |
| Highly calcium permeable postsynaptic nicotinic acetylcholine receptors | 4 | 30.5× | 0.002 | CHRNB4, CHRNA3, CHRNA4, CHRNA5 |
| Presynaptic nicotinic acetylcholine receptors | 4 | 28.0× | 0.002 | CHRNB4, CHRNA3, CHRNA4, CHRNA5 |
| Acetylcholine binding and downstream events | 4 | 24.0× | 0.002 | CHRNB4, CHRNA3, CHRNA4, CHRNA5 |
| Postsynaptic nicotinic acetylcholine receptors | 4 | 24.0× | 0.002 | CHRNB4, CHRNA3, CHRNA4, CHRNA5 |
| Highly sodium permeable postsynaptic acetylcholine nicotinic receptors | 3 | 36.0× | 0.006 | CHRNB4, CHRNA3, CHRNA4 |
| Transmission across Chemical Synapses | 9 | 5.0× | 0.007 | CHRNB4, SYN2, SYN3, CAMK2G, CACNA2D3, CHRNA3, CHRNA4, CHRNA5 (+1 more) |
| TFAP2 (AP-2) family regulates transcription of other transcription factors | 2 | 42.0× | 0.060 | TFAP2C, CITED2 |
| Invadopodia formation | 2 | 42.0× | 0.060 | ADAM19, SH3PXD2A |
| Extension of Telomeres | 3 | 13.3× | 0.090 | RUVBL1, TERT, STN1 |
| Neurotransmitter receptors and postsynaptic signal transmission | 6 | 4.4× | 0.139 | CHRNB4, CAMK2G, CHRNA3, CHRNA4, CHRNA5, ADCY5 |
| Neuronal System | 9 | 2.9× | 0.198 | CHRNB4, SYN2, SYN3, CAMK2G, CACNA2D3, CHRNA3, CHRNA4, CHRNA5 (+1 more) |
| Regulation of CDH11 mRNA translation by microRNAs | 2 | 18.7× | 0.225 | TNRC6A, CDH11 |
| Uptake of dietary cobalamins into enterocytes | 2 | 16.8× | 0.225 | CTRB1, CTRB2 |
| Telomere Maintenance | 3 | 8.1× | 0.225 | RUVBL1, TERT, STN1 |
| Regulation of MECP2 expression and activity | 3 | 8.1× | 0.225 | TNRC6A, CAMK2G, TBL1XR1 |
| SARS-CoV-2-host interactions | 5 | 4.4× | 0.225 | SEC24C, SFN, SFTPD, SNRPD2, SNRPF |
| Processing of Capped Intronless Pre-mRNA | 2 | 15.3× | 0.232 | SNRPF, SYMPK |
| Regulation of CDH11 function | 2 | 15.3× | 0.232 | CDH11, ADAM19 |
| SARS-CoV-2 Infection | 6 | 3.5× | 0.232 | SEC24C, SFN, SFTPD, SNRPD2, SNRPF, CSNK1A1 |
| Activation of the TFAP2 (AP-2) family of transcription factors | 2 | 14.0× | 0.259 | TFAP2C, CITED2 |
| Transcriptional Regulation by MECP2 | 3 | 7.0× | 0.259 | TNRC6A, CAMK2G, TBL1XR1 |
| Specification of primordial germ cells | 2 | 12.9× | 0.282 | TFAP2C, TET2 |
| Regulation of CDH11 Expression and Function | 2 | 12.0× | 0.313 | CDH11, ADAM19 |
| Class I MHC mediated antigen processing & presentation | 6 | 3.1× | 0.341 | SEC24C, BTBD1, ASB1, SEC61A1, ANAPC10, RNF220 |
| O-linked glycosylation | 4 | 4.2× | 0.360 | ADAMTSL3, POFUT4, C1GALT1, THSD4 |
| Transcriptional regulation of testis differentiation | 2 | 10.5× | 0.361 | SOX9, ZFPM2 |
| Regulation of Homotypic Cell-Cell Adhesion | 2 | 9.9× | 0.378 | CDH11, ADAM19 |
| Regulation of Expression and Function of Type II Classical Cadherins | 2 | 9.9× | 0.378 | CDH11, ADAM19 |
| Serotonin Neurotransmitter Release Cycle | 2 | 9.3× | 0.395 | SYN2, SYN3 |
GO biological processes by enrichment
Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 215 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.
| GO term | Cohort genes | Fold | FDR | Sample cohort genes |
|---|---|---|---|---|
| behavioral response to nicotine | 4 | 34.8× | 0.004 | CHRNB4, CHRNA3, CHRNA4, CHRNA5 |
| acetylcholine receptor signaling pathway | 5 | 14.5× | 0.013 | CHRNB4, CHRM3, CHRNA3, CHRNA4, CHRNA5 |
| synaptic transmission, cholinergic | 4 | 14.9× | 0.050 | CHRNB4, CHRNA3, CHRNA4, CHRNA5 |
| cartilage condensation | 4 | 14.2× | 0.050 | SOX9, TGFB2, THRA, WNT7A |
| positive regulation of male gonad development | 3 | 23.5× | 0.059 | SOX9, ZFPM2, CITED2 |
| keratinocyte development | 3 | 21.4× | 0.067 | SFN, TFAP2C, KDF1 |
| regulation of epidermal cell division | 2 | 52.2× | 0.088 | SFN, KDF1 |
| regulation of smooth muscle contraction | 3 | 16.8× | 0.107 | CHRNB4, CHRM3, CHRNA3 |
| synaptic transmission involved in micturition | 2 | 39.2× | 0.111 | CHRNB4, CHRNA3 |
| mammary gland branching involved in pregnancy | 2 | 39.2× | 0.111 | VDR, CSMD1 |
| membrane depolarization | 4 | 9.5× | 0.111 | CHRNB4, CHRNA3, CHRNA4, CHRNA5 |
| nuclear envelope organization | 3 | 13.8× | 0.125 | LEMD2, DMPK, TMEM170A |
| positive regulation of transcription by RNA polymerase II | 27 | 1.9× | 0.125 | RREB1, BMP6, SOX9, HNF1A, TFAP2C, THRA, VDR, WNT7A (+19 more) |
| intermediate filament cytoskeleton organization | 3 | 13.1× | 0.133 | DSP, MACF1, CSNK1A1 |
| response to nicotine | 4 | 7.8× | 0.140 | HMOX1, CHRNA3, CHRNA4, CHRNA5 |
| positive regulation of bone mineralization | 4 | 7.3× | 0.172 | BMP6, VDR, ADGRV1, ADRB2 |
| smooth muscle contraction | 3 | 11.2× | 0.173 | CHRNB4, CHRM3, ADRB2 |
| RNA-templated transcription | 1 | 78.4× | 0.194 | TERT |
| deoxyribonucleoside triphosphate metabolic process | 1 | 78.4× | 0.194 | RRM2B |
| regulation of acetylcholine secretion, neurotransmission | 1 | 78.4× | 0.194 | CHRNA3 |
| regulation of excitatory postsynaptic membrane potential involved in skeletal muscle contraction | 1 | 78.4× | 0.194 | DMPK |
| polysaccharide transport | 1 | 78.4× | 0.194 | SMPD3 |
| cranial nerve morphogenesis | 1 | 78.4× | 0.194 | CITED2 |
| DNA strand elongation | 1 | 78.4× | 0.194 | TERT |
| regulation of myeloid cell apoptotic process | 1 | 78.4× | 0.194 | THRA |
| obsolete L-asparagine catabolic process via L-aspartate | 1 | 78.4× | 0.194 | ASRGL1 |
| negative regulation of syncytium formation by plasma membrane fusion | 1 | 78.4× | 0.194 | RAPGEF3 |
| pronephric nephron development | 1 | 78.4× | 0.194 | SEC61A1 |
| asymmetric protein localization involved in cell fate determination | 1 | 78.4× | 0.194 | WNT7A |
| regulation of timing of catagen | 1 | 78.4× | 0.194 | TGFB2 |
Therapeutics
Drugs indicated for this disease
8 approved, 52 in late-stage (phase 3) trials. Disease-direct ChEMBL indications, not inferred from the associated-gene cohort below.
| Drug | Development status |
|---|---|
| Albuterol | Approved (phase 4) |
| Azithromycin | Approved (phase 4) |
| Budesonide | Approved (phase 4) |
| Ensifentrine | Approved (phase 4) |
| Fluticasone Furoate | Approved (phase 4) |
| Fluticasone Propionate | Approved (phase 4) |
| Revefenacin | Approved (phase 4) |
| Roflumilast | Approved (phase 4) |
| .ALPHA.1-PROTEINASE INHIBITOR HUMAN | Phase 3 (in late-stage trials) |
| Acetylcysteine | Phase 3 (in late-stage trials) |
| Albumin Human | Phase 3 (in late-stage trials) |
| Arformoterol | Phase 3 (in late-stage trials) |
| Aspirin | Phase 3 (in late-stage trials) |
| Astegolimab | Phase 3 (in late-stage trials) |
| Beclomethasone Dipropionate | Phase 3 (in late-stage trials) |
| Benralizumab | Phase 3 (in late-stage trials) |
| Cilomilast | Phase 3 (in late-stage trials) |
| Ciprofloxacin | Phase 3 (in late-stage trials) |
| Clopidogrel | Phase 3 (in late-stage trials) |
| Dupilumab | Phase 3 (in late-stage trials) |
| Erdosteine | Phase 3 (in late-stage trials) |
| Fenoterol | Phase 3 (in late-stage trials) |
| Fluticasone | Phase 3 (in late-stage trials) |
| Formoterol | Phase 3 (in late-stage trials) |
| Furosemide | Phase 3 (in late-stage trials) |
| Glycopyrronium | Phase 3 (in late-stage trials) |
| Helium | Phase 3 (in late-stage trials) |
| Indacaterol | Phase 3 (in late-stage trials) |
| Infliximab | Phase 3 (in late-stage trials) |
| Ipratropium | Phase 3 (in late-stage trials) |
| Itepekimab | Phase 3 (in late-stage trials) |
| Ivospemin | Phase 3 (in late-stage trials) |
| Levosalbutamol | Phase 3 (in late-stage trials) |
| Magnesium Sulfate Anhydrous | Phase 3 (in late-stage trials) |
| Mepolizumab | Phase 3 (in late-stage trials) |
| Methylprednisolone | Phase 3 (in late-stage trials) |
| Mometasone Furoate | Phase 3 (in late-stage trials) |
| Morphine | Phase 3 (in late-stage trials) |
| Moxifloxacin | Phase 3 (in late-stage trials) |
| Nicotine | Phase 3 (in late-stage trials) |
| Olodaterol | Phase 3 (in late-stage trials) |
| Oxitropium | Phase 3 (in late-stage trials) |
| Oxygen | Phase 3 (in late-stage trials) |
| Prednisolone | Phase 3 (in late-stage trials) |
| Prednisone | Phase 3 (in late-stage trials) |
| Procalcitonin | Phase 3 (in late-stage trials) |
| Resveratrol | Phase 3 (in late-stage trials) |
| Salmeterol | Phase 3 (in late-stage trials) |
| Simvastatin | Phase 3 (in late-stage trials) |
| Sodium Chloride | Phase 3 (in late-stage trials) |
| Temazepam | Phase 3 (in late-stage trials) |
| Terbutaline | Phase 3 (in late-stage trials) |
| Tiotropium | Phase 3 (in late-stage trials) |
| Tozorakimab | Phase 3 (in late-stage trials) |
| Triamcinolone | Phase 3 (in late-stage trials) |
| Umeclidinium | Phase 3 (in late-stage trials) |
| Vilanterol | Phase 3 (in late-stage trials) |
| Vitamin E | Phase 3 (in late-stage trials) |
| Zabofloxacin | Phase 3 (in late-stage trials) |
| Zileuton | Phase 3 (in late-stage trials) |
Earlier-phase candidates (phase 2, investigational — efficacy not yet established): Aclidinium, Bimagrumab, Bosentan, Carbon Monoxide, Chlorhexidine, Cholecalciferol, Ciclesonide, Erythromycin, Etanercept, Ferric Carboxymaltose, Fevipiprant, Human Immunoglobulin G, INTERFERON BETA-1A, Iloprost, Ivacaftor, Lactose, Anhydrous, Lebrikizumab, Levomenthol, Losmapimod, Lovastatin, Megestrol Acetate, Metformin, Nitrogen, Omalizumab, Onabotulinumtoxina, Ramelteon, Reldesemtiv, Rosiptor, Rosuvastatin, Sapropterin, Solithromycin, Tesamorelin, Testosterone Enanthate, Tetomilast, Tezepelumab, Ticagrelor, Treprostinil, Valacyclovir.
Drug target analysis
Approved (phase 4): 11 · Phase ≥3: 11 · Phased (≥1): 16 · Undrugged: 59
Druggability breadth: 74 of 250 evidence-associated genes (30%) 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 |
|---|---|
| CHRNB4 | VARENICLINE |
| RPL17 | GENTAMICIN SULFATE |
| TERT | BERBERINE |
| THRA | LIOTHYRONINE |
| TOP2B | AMSACRINE |
| VDR | CHOLECALCIFEROL |
| EML4 | ALECTINIB |
| HDAC7 | CELECOXIB |
| SMPD3 | LAROTRECTINIB |
| CAMK2G | MOMELOTINIB |
| CACNA2D3 | NIMODIPINE |
Top cohort targets by molecule count
| Symbol | Molecules | Max phase |
|---|---|---|
| CAMK2G | 39 | 4 |
| HDAC7 | 28 | 4 |
| CHRNB4 | 20 | 4 |
| THRA | 12 | 4 |
| TOP2B | 11 | 4 |
| TERT | 10 | 4 |
| VDR | 10 | 4 |
| EML4 | 10 | 4 |
| EGLN2 | 2 | 2 |
| CACNA2D3 | 2 | 4 |
Drugs targeting cohort genes (top 30)
| Molecule | Max phase | Targets in cohort |
|---|---|---|
| VARENICLINE | 4 | CHRNB4 |
| NICOTINE | 4 | CHRNB4 |
| BUPROPION | 4 | CHRNB4 |
| MECAMYLAMINE | 4 | CHRNB4 |
| ONDANSETRON | 4 | CHRNB4 |
| TROPISETRON | 4 | CHRNB4 |
| ACETYLCHOLINE | 4 | CHRNB4 |
| GENTAMICIN SULFATE | 4 | RPL17 |
| BERBERINE | 4 | TERT |
| DOXORUBICIN | 4 | TERT, TOP2B |
| LIOTHYRONINE | 4 | THRA |
| LEVOTHYROXINE | 4 | THRA |
| ROXADUSTAT | 4 | THRA |
| RESMETIROM | 4 | THRA |
| AMIODARONE | 4 | THRA |
| AMSACRINE | 4 | TOP2B |
| ETOPOSIDE | 4 | TOP2B |
| TENIPOSIDE | 4 | TOP2B |
| CIPROFLOXACIN | 4 | TOP2B |
| TOPOTECAN | 4 | TOP2B |
| DEXRAZOXANE | 4 | TOP2B |
| CHOLECALCIFEROL | 4 | VDR |
| CALCIPOTRIENE | 4 | VDR |
| DOXERCALCIFEROL | 4 | VDR |
| TACALCITOL | 4 | VDR |
| CALCITRIOL | 4 | VDR |
| ALECTINIB | 4 | EML4 |
| ENTRECTINIB | 4 | EML4 |
| CERITINIB | 4 | EML4 |
| LORLATINIB | 4 | EML4 |
Bioactivity and enzyme data
Enzyme cohort genes (≥1 EC): 10.
Cohort genes with ChEMBL bioactivity (full, sorted by assay count)
| Symbol | Assays | Type breakdown |
|---|---|---|
| HDAC7 | 1,710 | Binding:1695, ADMET:10, Functional:4, Toxicity:1 |
| VDR | 561 | Binding:459, Functional:99, ADMET:3 |
| CHRNB4 | 407 | Binding:309, Functional:96, ADMET:2 |
| TERT | 391 | Binding:389, Functional:2 |
| EML4 | 304 | Binding:304 |
| CAMK2G | 291 | Binding:290, Functional:1 |
| TOP2B | 284 | Binding:247, Functional:36, ADMET:1 |
| THRA | 140 | Binding:115, Functional:23, ADMET:2 |
| RPL17 | 90 | Binding:90 |
| EGLN2 | 31 | Binding:31 |
| HMOX1 | 23 | Binding:22, ADMET:1 |
| SFN | 21 | Binding:21 |
| RUVBL1 | 15 | Binding:15 |
| TESK2 | 13 | Binding:13 |
| CACNA2D3 | 13 | Binding:13 |
| SNRPD2 | 8 | Binding:8 |
| SMPD3 | 8 | Binding:8 |
| VARS1 | 7 | Binding:7 |
| ARID1A | 6 | Binding:6 |
| SOX9 | 3 | Binding:3 |
| TGFB2 | 3 | Binding:3 |
| USP3 | 3 | Binding:3 |
| DSP | 2 | Binding:2 |
| SFTPD | 2 | Binding:2 |
| ADGRG6 | 2 | Binding:2 |
| SEC24C | 1 | Binding:1 |
| BMP6 | 1 | Binding:1 |
| SNRPF | 1 | Binding:1 |
| BTN2A1 | 1 | Binding:1 |
| HNF1A | 1 | Binding:1 |
| GFM1 | 1 | Binding:1 |
| ELOVL4 | 1 | Binding:1 |
| PICALM | 1 | Binding:1 |
| KLHL7 | 1 | Binding:1 |
Cohort enzymes (BRENDA EC)
| Symbol | EC numbers | Names |
|---|---|---|
| HYKK | 2.7.1.81 | hydroxylysine kinase |
| HMOX1 | 1.14.14.18 | heme oxygenase (biliverdin-producing) |
| TESK2 | 2.7.10.2 | non-specific protein-tyrosine kinase |
| TOP2B | 5.6.2.2, 5.99.1.3 | DNA topoisomerase (ATP-hydrolysing), DNA topoisomerase (ATP-hydrolysing) |
| VARS1 | 6.1.1.9 | valine-tRNA ligase |
| HDAC7 | 3.5.1.98 | histone deacetylase |
| SMPD3 | 3.1.4.12 | sphingomyelin phosphodiesterase |
| CAMK2G | 2.7.11.17 | Ca2+/calmodulin-dependent protein kinase |
| EGLN2 | 1.14.11.2, 1.14.11.29 | procollagen-proline 4-dioxygenase, hypoxia-inducible factor-proline dioxygenase |
| POFUT1 | 2.4.1.221 | peptide-O-fucosyltransferase |
Cohort genes with high screening signal
≥100 ChEMBL assays — a studied-ness signal; see Therapeutics for approved-drug status.
| Symbol | ChEMBL assays |
|---|---|
| CHRNB4 | 407 |
| TERT | 391 |
| THRA | 140 |
| TOP2B | 284 |
| VDR | 561 |
| EML4 | 304 |
| HDAC7 | 1,710 |
| CAMK2G | 291 |
Pharmacogenomics
Cohort genes with a PharmGKB record: 75; 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) |
|---|---|---|
| VARENICLINE | 4 | CHRNB4 |
| NICOTINE | 4 | CHRNB4 |
| BUPROPION | 4 | CHRNB4 |
| MECAMYLAMINE | 4 | CHRNB4 |
| ONDANSETRON | 4 | CHRNB4 |
| TROPISETRON | 4 | CHRNB4 |
| ACETYLCHOLINE | 4 | CHRNB4 |
| GENTAMICIN SULFATE | 4 | RPL17 |
| BERBERINE | 4 | TERT |
| DOXORUBICIN | 4 | TERT, TOP2B |
| LIOTHYRONINE | 4 | THRA |
| LEVOTHYROXINE | 4 | THRA |
| ROXADUSTAT | 4 | THRA |
| RESMETIROM | 4 | THRA |
| AMIODARONE | 4 | THRA |
| AMSACRINE | 4 | TOP2B |
| ETOPOSIDE | 4 | TOP2B |
| TENIPOSIDE | 4 | TOP2B |
| CIPROFLOXACIN | 4 | TOP2B |
| TOPOTECAN | 4 | TOP2B |
| DEXRAZOXANE | 4 | TOP2B |
| CHOLECALCIFEROL | 4 | VDR |
| CALCIPOTRIENE | 4 | VDR |
| DOXERCALCIFEROL | 4 | VDR |
| TACALCITOL | 4 | VDR |
| CALCITRIOL | 4 | VDR |
| ALECTINIB | 4 | EML4 |
| ENTRECTINIB | 4 | EML4 |
| CERITINIB | 4 | EML4 |
| LORLATINIB | 4 | EML4 |
Druggability pyramid
Cohort genes binned by druggability tier (high → low):
| Tier | Definition | Genes | Symbols |
|---|---|---|---|
| A | Approved (phase 4 drug) | 11 | CHRNB4, RPL17, TERT, THRA, TOP2B, VDR, EML4, HDAC7, SMPD3, CAMK2G (+1 more) |
| B | Phased (≥1) drug, not yet approved | 5 | RUVBL1, SNRPD2, TESK2, TGFB2, EGLN2 |
| C | Druggable family + PDB, no drug | 5 | HMOX1, BTN2A1, ADGRG6, CSMD1, POFUT1 |
| D | Druggable family + AlphaFold only, no drug | 8 | HYKK, TNS1, USP3, VARS1, OR12D3, OR2B2, PRSS23, ADAMTSL3 |
| E | Difficult family or no structure, no drug | 46 | SCGB1A1, HHIP, FAM13A, DSP, RREB1, SEC24C, BMP6, SFN, SFTPD, SIX5 (+36 more) |
Undrugged target profiles
59 cohort genes are undrugged. Ranked by ‘starting-point quality’ (assay depth + drugged-partner adjacency).
| Symbol | ChEMBL assays | Drugged partners (top 3) |
|---|---|---|
| HYKK | 0 | CHRNB4 |
| SCGB1A1 | 0 | — |
| HHIP | 0 | — |
| FAM13A | 0 | — |
| DSP | 2 | — |
| HMOX1 | 23 | — |
| RREB1 | 0 | — |
| SEC24C | 1 | — |
| BMP6 | 1 | — |
| SFN | 21 | — |
| SFTPD | 2 | — |
| SIX5 | 0 | — |
| ARID1A | 6 | — |
| SNRPF | 1 | — |
| BTBD1 | 0 | — |
| SOX9 | 3 | — |
| BTC | 0 | — |
| BTN2A1 | 1 | — |
| SYN2 | 0 | — |
| SYN3 | 0 | — |
| SYNGAP1 | 0 | — |
| HNF1A | 1 | — |
| TCF19 | 0 | — |
| TFAP2C | 0 | — |
| TNFSF15 | 0 | — |
| TNRC6A | 0 | — |
| TNS1 | 0 | — |
| LINC00470 | 0 | — |
| USP3 | 3 | — |
| VARS1 | 7 | — |
Clinical trials & evidence
Clinical trials
Clinical trials: 3,782.
Phase distribution (across all retrieved trials)
| Phase | Trials |
|---|---|
| PHASE3 | 306 |
| PHASE4 | 287 |
| PHASE2 | 283 |
| PHASE1 | 126 |
| PHASE1/PHASE2 | 47 |
| PHASE2/PHASE3 | 30 |
| EARLY_PHASE1 | 21 |
Top trials by phase / activity
| NCT | Phase | Status | Title |
|---|---|---|---|
| NCT02989935 | PHASE4 | ACTIVE_NOT_RECRUITING | RELVAR Effects on Parasternal Muscle Activity, Diaphragm, and Ventilation in Severe COPD |
| NCT03566667 | PHASE4 | ACTIVE_NOT_RECRUITING | Beta-blockers to Patients With Chronic Obstructive Pulmonary Disease |
| NCT04238221 | PHASE4 | NOT_YET_RECRUITING | Effect of add-on Doxofylline on Lung Function in Stable COPD |
| NCT04339270 | PHASE4 | RECRUITING | Chronic Airway Disease, Mucus Rheology and Exacerbations |
| NCT04789057 | PHASE4 | ACTIVE_NOT_RECRUITING | Atorvastatin Effect on Reduction of COPD Exacerbations |
| NCT05772013 | PHASE4 | RECRUITING | Optimising Azithromycin Prevention Treatment in COPD to Reduce Exacerbations |
| NCT06152653 | PHASE4 | RECRUITING | The Effects of Positive Airway Pressure on the Mucolytic Effects of NAC (TEAM) |
| NCT06334575 | PHASE4 | RECRUITING | Molecular Signatures Associated With Response to ICS Treatment in Patients With COPD Stratified by Eosinophil Levels |
| NCT06552364 | PHASE4 | NOT_YET_RECRUITING | Air Pollution and Inhaled Corticosteroids in COPD |
| NCT06825013 | PHASE4 | RECRUITING | Bronchodilators and Lung Mechanics During Exercise in COPD |
| NCT06825728 | PHASE4 | NOT_YET_RECRUITING | Metoprolol in Patients With HFrEF and COPD |
| NCT06892210 | PHASE4 | RECRUITING | Comparing Hydrocortisone and Prednisolone for Acute Exacerbation of Chronic Obstructive Pulmonary Disease (AECOPD) |
| NCT06929767 | PHASE4 | NOT_YET_RECRUITING | Do Blood Tests Help to Decide Which Patients With Flares of Chronic Obstructive Pulmonary Disease (COPD) Need Antibiotics and Steroids? |
| NCT06991426 | PHASE4 | NOT_YET_RECRUITING | Effects of CreaSafe® on Kidney, Muscle, and Cardiopulmonary Function in Athletes and COPD Patients |
| NCT07053423 | PHASE4 | RECRUITING | A Study to Investigate Airway Inflammation With Dupilumab Subcutaneously in Participants Aged ≥40 to ≤85 Years With Chronic Obstructive Pulmonary Disease. |
| NCT07073950 | PHASE4 | RECRUITING | A Study to Investigate the Effect of Budesonide/Glycopyrronium/Formoterol Fumarate Metered Dose Inhaler (BGF MDI) Compared With Placebo MDI on Heart and Lung Function in Participants With Chronic Obstructive Pulmonary Disease (COPD) and Hyperinflation |
| NCT07114120 | PHASE4 | RECRUITING | Clinical Study on the Treatment of Stable Bronchiectasis With Bailing Capsules Combined With Guben Kechuan Granules |
| NCT07133880 | PHASE4 | RECRUITING | Compare the Effects of Nebulizer Versus Inhaler Based Therapy for COPD Using Long-acting Bronchodilators |
| NCT07135427 | PHASE4 | RECRUITING | Genetic Variation in IgG in Alpha 1 Antitrypsin Deficiency |
| NCT07192016 | PHASE4 | NOT_YET_RECRUITING | 129-Xe MRI Study of Single Triple Therapy Inhaler Effects in COPD Patients With Moderate-severe Dyspnea and/or Poor Health Status With High or Low Risk of Exacerbation |
| NCT07508644 | PHASE4 | NOT_YET_RECRUITING | RSV Vaccination to Reduce Recurrent AECOPD |
| NCT07587658 | PHASE4 | NOT_YET_RECRUITING | This After Market Study is Seeing if Dupilumab Plus Usual Standard of Care (SOC) is Better Than Usual Care Alone for Adult Participants After a Severe Chronic Obstructive Pulmonary Disease (COPD) Flare-Up Requiring Hospitalization |
| NCT00120978 | PHASE4 | UNKNOWN | Can Advair and Flovent Reduce Systemic Inflammation Related to Chronic Obstructive Pulmonary Disease (COPD)? A Multi-Center Randomized Controlled Trial |
| NCT00134979 | PHASE4 | COMPLETED | Formoterol Certihaler, Tiotropium HandiHaler and Tiotropium HandiHaler in Combination With Formoterol Certihaler in Patients With Stable Chronic Obstructive Pulmonary Disease |
| NCT00158847 | PHASE4 | TERMINATED | Modification Of Disease Outcome In COPD |
| NCT00170222 | PHASE4 | COMPLETED | Placebo Versus Antibiotics in Acute Exacerbations of Chronic Obstructive Pulmonary Disease (COPD) |
| NCT00175565 | PHASE4 | COMPLETED | Inhaled Steroid Reduces Systemic Inflammation in COPD |
| NCT00181207 | PHASE4 | COMPLETED | Airway Clearance for Prevention of Chronic Obstructive Pulmonary Disease (COPD) Exacerbation |
| NCT00186706 | PHASE4 | COMPLETED | Selenium Supplementation in Chronic Obstructive Pulmonary Disease (COPD) Patients |
| NCT00190437 | PHASE4 | COMPLETED | ANTEAB: a Study of Early Antibiotherapy in the ICU Management of Acute Exacerbations of COPD |
| NCT00202176 | PHASE4 | COMPLETED | Effects of Bronchodilators in Mild Chronic Obstructive Pulmonary Disease (COPD) |
| NCT00202189 | PHASE4 | COMPLETED | Effects of Inhaled Corticosteroids in Chronic Obstructive Pulmonary Disease (COPD) |
| NCT00232674 | PHASE4 | COMPLETED | Efficacy Study of the Effect of Budesonide on Emphysema |
| NCT00288548 | PHASE4 | UNKNOWN | Metoprolol and Formoterol in Chronic Obstructive Pulmonary Disease (COPD) |
| NCT00291408 | PHASE4 | WITHDRAWN | Effect of Symbicort on HAT and HDAC in Sputum Macrophages of COPD |
| NCT00291460 | PHASE4 | UNKNOWN | Inspiratory Muscle Training in Hypercapnic COPD |
| NCT00292838 | PHASE4 | COMPLETED | Relative Potency of Inhaled Corticosteroids |
| NCT00311961 | PHASE4 | COMPLETED | Intravenous Versus Oral Administration of Prednisolone in Exacerbations of Chronic Obstructive Pulmonary Disease (COPD) |
| NCT00316992 | PHASE4 | COMPLETED | Safety of Ramelteon in Subjects With Chronic Obstructive Pulmonary Disease |
| NCT00331656 | PHASE4 | UNKNOWN | Comparative Study of Non-Invasive Mask Ventilation vs Cuirass Ventilation in Patients With Acute Respiratory Failure. |
Drugs tested across these trials (top 30)
| Molecule | Max phase | Trials referencing |
|---|---|---|
| FORMOTEROL | 4 | 133 |
| GLYCOPYRRONIUM | 4 | 119 |
| TIOTROPIUM | 4 | 90 |
| INDACATEROL | 4 | 76 |
| ARFORMOTEROL | 4 | 71 |
| ACLIDINIUM | 4 | 57 |
| DARIFENACIN | 4 | 57 |
| ROFLUMILAST | 4 | 28 |
| SALMETEROL | 4 | 28 |
| ALBUTEROL | 4 | 23 |
| BUDESONIDE | 4 | 23 |
| IPRATROPIUM | 4 | 21 |
| VILANTEROL | 4 | 20 |
| THEOPHYLLINE ANHYDROUS | 4 | 18 |
| BECLOMETHASONE DIPROPIONATE | 4 | 14 |
| BISOPROLOL | 4 | 12 |
| FLUTICASONE PROPIONATE | 4 | 12 |
| SILDENAFIL | 4 | 12 |
| REVEFENACIN | 4 | 11 |
| ACETAZOLAMIDE | 4 | 10 |
| UMECLIDINIUM | 4 | 10 |
| DOXYCYCLINE ANHYDROUS | 4 | 9 |
| ENSIFENTRINE | 4 | 9 |
| FLUTICASONE FUROATE | 4 | 8 |
| MOXIFLOXACIN | 4 | 5 |
| OXYGEN | 4 | 5 |
| BENRALIZUMAB | 4 | 4 |
| DUPILUMAB | 4 | 4 |
| MEPOLIZUMAB | 4 | 4 |
| TEZEPELUMAB | 4 | 4 |
Related Atlas pages
- Cohort genes: HMOX1, SCGB1A1, HHIP, FAM13A, CHRNB4, DSP, HYKK, RPL17, RREB1, RUVBL1, SEC24C, BMP6, SFN, SFTPD, SIX5, ARID1A, SNRPD2, SNRPF, BTBD1, SOX9, BTC, BTN2A1, SYN2, SYN3, SYNGAP1, HNF1A, TCF19, TERT, TESK2, TFAP2C, TGFB2, THRA, TNFSF15, TNRC6A, TNS1, TOP2B, LINC00470, USP3, VARS1, VDR, MIR99AHG, WNT7A, ZKSCAN1, EML4, ZSCAN12, LXN, RBMS3, MACF1, GFM1, ADGRG6, TSBP1, CCHCR1, VWA7, OR12D3, OR2B2, PRDM15, CSMD1, HDAC7, SMPD3, RSPH6A, ENDOU, PRSS23, ELOVL4, GAB2, RGS20, NUF2, CAMK2G, ADAMTSL3, EGLN2, PPP1R3B, POFUT1, CACNA2D3, PICALM, KLHL7, ASB1
- Drugs: Formoterol, Glycopyrronium, Tiotropium, Indacaterol, Arformoterol, Aclidinium, Darifenacin, Roflumilast, Salmeterol, Albuterol, Budesonide, Ipratropium, Vilanterol, Theophylline, Beclomethasone Dipropionate, Bisoprolol, Fluticasone Propionate, Sildenafil, Revefenacin, Acetazolamide, Umeclidinium, Doxycycline, Ensifentrine, Fluticasone Furoate, Moxifloxacin, Oxygen, Benralizumab, Dupilumab, Mepolizumab, Tezepelumab