Chronic obstructive pulmonary disease

disease
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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

FieldValue
Canonical namechronic obstructive pulmonary disease
Mondo IDMONDO:0005002
EFOEFO:0000341
MeSHD029424
OMIM606963
DOIDDOID:3083
ICD-11133207228
NCITC3199
SNOMED CT13645005
UMLSC0024117
MedGen9818
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 disorderlower respiratory tract disorderlung disorderobstructive lung diseasechronic 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

rsIDp-valueGeneRisk alleleOdds ratio
rs347129796e-161NPNTG0.06
rs100374931e-117HTR4C0.05
rs77530123e-110ADGRG6T0.05
rs68285407e-101GUSBP5 - KRT18P51G0.05
rs21654892e-97THSD4C0.05
rs93918553e-83AGERC0.08
rs20015467e-83CDC123A0.04
rs131401764e-59GUSBP5 - KRT18P51A1.18
rs621911071e-55LINC01940 - HDAC4T0.04
rs71625424e-54ADAMTSL3C0.03
rs27986413e-51ARMC2C0.04
rs19909502e-50ADAM19G0.03
rs48884155e-48CFDP1C0.03
rs6331852e-47ARHGAP42?
rs622023785e-47LINC01807T0.05
rs558847991e-42KCNS3T0.04
rs131416419e-41KRT18P51 - HHIP-AS1T1.22
rs93994012e-40ADGRG6T1.16
rs65372935e-40GUSBP5 - KRT18P51G
rs101238111e-38GLIS3C0.03
rs97887214e-38HYKKT0.15
rs24645234e-37FAM13AC0.03
rs29551335e-37EEFSECT0.04
rs6311262e-35MTCL1T0.03
rs1460596752e-35TSHZ3C0.04
rs74240801e-34LINC01876T0.04
rs100599965e-34FGF18 - SMIM23T0.03
rs14413587e-33THSD4G1.13
rs8793948e-32LINC02082 - LINC01997G0.03
rs170586391e-31SLMAPC0.03

Top studies (by case count)

StudyLead authorYearCasesControlsTitle
GCST007692Sakornsakolpat P201935,735222,076Genetic landscape of chronic obstructive pulmonary disease identifies heterogeneous cell-type and phenotype associations.
GCST011766Moll M202131,465203,688A Systematic Analysis of Protein-altering Exonic Variants in Chronic Obstructive Pulmonary Disease.
GCST90016585Kim W202021,077179,689Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease.
GCST90016586Kim W202021,077179,689Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease.
GCST90016587Kim W202021,077179,689Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease.
GCST90016590Kim W202021,077179,689Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease.
GCST90016591Kim W202021,077179,689Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease.
GCST90016592Kim W202021,077179,689Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease.
GCST90016594Kim W202016,488169,688Genome-wide Gene-by-smoking Interaction Study of Chronic Obstructive Pulmonary Disease.
GCST90018807Sakaue S202113,530454,945A cross-population atlas of genetic associations for 220 human phenotypes.

Variant details and genetic-evidence tiers

Tier distribution (top 50 variants)

TierVariants
Tier 1: coding2
Tier 2: splice/UTR5
Tier 3: regulatory0
Tier 4: intronic/intergenic43

MAF distribution

BucketVariants
common (>=0.05)46
low_freq (0.01-0.05)1
rare (<0.01)0
unknown3

Functional consequences

ConsequenceCount
intron_variant36
intergenic_variant5
splice_region_variant2
3_prime_UTR_variant2
missense_variant2
unknown2
5_prime_UTR_variant1

Top variants

rsIDChrPosAllelesMAFConsequenceGenep-valueTier
rs347129794105897896G>A,T0.05splice_region_variantNPNT6e-161Tier 2: splice/UTR
rs100374935148475407C>A,G,T0.05intron_variantHTR41e-117Tier 4: intronic/intergenic
rs77530126142424746T>A,C,G0.05intron_variantADGRG63e-110Tier 4: intronic/intergenic
rs68285404144542079G>A,C0.05intron_variantGUSBP5 - KRT18P517e-101Tier 4: intronic/intergenic
rs21654891571381439C>G,T0.05intron_variantTHSD42e-97Tier 4: intronic/intergenic
rs9391855632182024C>T0.05intron_variantAGER3e-83Tier 4: intronic/intergenic
rs20015461012243736A>T0.05intron_variantCDC1237e-83Tier 4: intronic/intergenic
rs131401764144567946A>G,T0.39intron_variantGUSBP5 - KRT18P514e-59Tier 4: intronic/intergenic
rs621911072238954831T>C0.05intergenic_variantLINC01940 - HDAC41e-55Tier 4: intronic/intergenic
rs71625421583845538C>A,G,T0.05intron_variantADAMTSL34e-54Tier 4: intronic/intergenic
rs27986416108946847C>T0.05intron_variantARMC23e-51Tier 4: intronic/intergenic
rs19909505157493748G>C,T0.05intron_variantADAM192e-50Tier 4: intronic/intergenic
rs48884151675415023C>G,T0.05intron_variantCFDP15e-48Tier 4: intronic/intergenic
rs63318511100722807G>A,C0.05intron_variantARHGAP422e-47Tier 4: intronic/intergenic
rs622023782228697179T>A,G0.05intron_variantLINC018075e-47Tier 4: intronic/intergenic
rs55884799218106357T>C0.05intergenic_variantKCNS31e-42Tier 4: intronic/intergenic
rs131416414144585304T>A,C0.41intron_variantKRT18P51 - HHIP-AS19e-41Tier 4: intronic/intergenic
rs93994016142347764T>A,C0.28intron_variantADGRG62e-40Tier 4: intronic/intergenic
rs65372934144558609A>G0.39intron_variantGUSBP5 - KRT18P515e-40Tier 4: intronic/intergenic
rs1012381194143735C>G,T0.05intron_variantGLIS31e-38Tier 4: intronic/intergenic
rs97887211578510527C>A,G,T0.05intron_variantHYKK4e-38Tier 4: intronic/intergenic
rs2464523488939696C>G,T0.05intron_variantFAM13A4e-37Tier 4: intronic/intergenic
rs29551333128226479T>A,C0.05intron_variantEEFSEC5e-37Tier 4: intronic/intergenic
rs631126188800725T>A,C,G0.05intron_variantMTCL12e-35Tier 4: intronic/intergenic
rs1460596751931338847CT>C,CTT,CTTT0.05intron_variantTSHZ32e-35Tier 4: intronic/intergenic
rs74240802156141090T>C0.05intron_variantLINC018761e-34Tier 4: intronic/intergenic
rs100599965171474459T>G0.05intron_variantFGF18 - SMIM235e-34Tier 4: intronic/intergenic
rs14413581571320175T>C,G0.34intron_variantTHSD47e-33Tier 4: intronic/intergenic
rs8793943168992055G>C,T0.05intergenic_variantLINC02082 - LINC019978e-32Tier 4: intronic/intergenic
rs17058639357896874C>T0.05splice_region_variantSLMAP1e-31Tier 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

ClinVarVariant (HGVS)GeneClassificationReview
3336651NM_000750.5(CHRNB4):c.1411G>C (p.Val471Leu)CHRNB4Pathogenicno assertion criteria provided
3242552NM_000583.4(GC):c.1366A>T (p.Asn456Tyr)GCPathogenicno assertion criteria provided
17969NM_001127701.1(SERPINA1):c.863A>T (p.Glu288Val)SERPINA1Pathogenic/Pathogenic, low penetrance; othercriteria provided, multiple submitters, no conflicts
3336641NM_000583.4(GC):c.1368C>A (p.Asn456Lys)GCLikely pathogenicno assertion criteria provided
3336642NM_000583.4(GC):c.1322_1323insTG (p.Val442fs)GCLikely pathogenicno assertion criteria provided
3336643NM_000583.4(GC):c.1328del (p.Asn443fs)GCLikely pathogenicno assertion criteria provided
3336644NM_000583.4(GC):c.1349C>G (p.Ser450Cys)GCLikely pathogenicno assertion criteria provided
3336646NM_000583.4(GC):c.1364T>C (p.Ile455Thr)GCLikely pathogenicno assertion criteria provided
3336647NM_000583.4(GC):c.1330A>T (p.Lys444Ter)GCLikely pathogenicno assertion criteria provided
3336648NM_000583.4(GC):c.1324dup (p.Val442fs)GCLikely pathogenicno assertion criteria provided
3336649NM_000583.4(GC):c.1327_1328insT (p.Asn443fs)GCLikely pathogenicno assertion criteria provided
4796619NM_002133.3(HMOX1):c.546C>A (p.Tyr182Ter)HMOX1Likely pathogeniccriteria provided, single submitter
3336640NM_001013619.4(HYKK):c.337+256T>CHYKKLikely pathogenicno assertion criteria provided
3336650NC_000012.12:g.47906043T>CVDRLikely pathogenicno assertion criteria provided
1027621NM_003357.5(SCGB1A1):c.-26G>ASCGB1A1Established risk allele; associationno assertion criteria provided
1318566NM_002133.3(HMOX1):c.287G>A (p.Trp96Ter)HMOX1Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
17967NM_001127701.1(SERPINA1):c.1096G>A (p.Glu366Lys)SERPINA1Conflicting classifications of pathogenicity; risk factorcriteria provided, conflicting classifications
410674NM_198253.3(TERT):c.1931C>T (p.Thr644Met)TERTConflicting classifications of pathogenicitycriteria provided, conflicting classifications
1027620NC_000011.10:g.34788896T>Cassociationno assertion criteria provided
1027622NC_000011.10:g.34758731G>Aassociationno assertion criteria provided
1027617NM_014883.4(FAM13A):c.605+25827G>AFAM13Aassociationno assertion criteria provided
1027619NC_000004.12:g.88448181T>CFAM13Aassociationno assertion criteria provided
1162779NM_014883.4(FAM13A):c.843+16335C>AFAM13AUncertain significance; associationno assertion criteria provided
3336645NM_000583.4(GC):c.1375_1376insG (p.Pro459fs)GCUncertain significanceno assertion criteria provided
870129NC_000004.12:g.144539078A>GHHIPassociationno assertion criteria provided
870130NC_000004.12:g.144565237A>GHHIPassociationno assertion criteria provided
870131NC_000004.12:g.144559628A>GHHIPassociationno assertion criteria provided
694514NM_005345.6(HSPA1A):c.330G>C (p.Glu110Asp)HSPA1Aassociationno assertion criteria provided
694515NC_000006.12:g.31815431A>CHSPA1Aassociationno assertion criteria provided
694516NM_005345.6(HSPA1A):c.-27G>CHSPA1Aassociationno 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)

GeneHGNCEvidence routes
SCGB1A1SCGB1A1GWAS
HHIPHHIPGWAS
FAM13AFAM13AGWAS, Orphanet
CHRNB4CHRNB4GWAS
DSPDSPGWAS, Orphanet
HYKKHYKKGWAS

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.

GeneClassificationInheritanceDiseaseRecords
HMOX1LimitedUnknownchronic obstructive pulmonary disease6

Orphanet rare-disease linkage (cohort genes)

GeneOrphanet IDRare disease
FAM13AOrphanet:2032Idiopathic pulmonary fibrosis
DSPOrphanet:154Familial isolated dilated cardiomyopathy
DSPOrphanet:158687Lethal acantholytic erosive disorder
DSPOrphanet:2032Idiopathic pulmonary fibrosis
DSPOrphanet:293165Skin fragility-woolly hair-palmoplantar keratoderma syndrome
DSPOrphanet:293888Inherited isolated arrhythmogenic cardiomyopathy, dominant-left variant
DSPOrphanet:293899Inherited isolated arrhythmogenic ventricular dysplasia, biventricular variant
DSPOrphanet:293910Inherited isolated arrhythmogenic cardiomyopathy, dominant-right variant
DSPOrphanet:369992Severe dermatitis-multiple allergies-metabolic wasting syndrome
DSPOrphanet:476096Erythrokeratodermia-cardiomyopathy syndrome
DSPOrphanet:50942Striate palmoplantar keratoderma
DSPOrphanet:65282Carvajal syndrome
HMOX1Orphanet:562509Heme oxygenase-1 deficiency
HMOX1Orphanet:586Cystic fibrosis
RREB1Orphanet:56722q11.2 deletion syndrome
SEC24COrphanet:56722q11.2 deletion syndrome
BMP6Orphanet:465508Symptomatic form of HFE-related hemochromatosis
SIX5Orphanet:107BOR syndrome
ARID1AOrphanet:1465Coffin-Siris syndrome
SOX9Orphanet:140Campomelic dysplasia
SOX9Orphanet:213846,XX ovotesticular difference of sex development
SOX9Orphanet:24246,XY complete gonadal dysgenesis
SOX9Orphanet:25151046,XY partial gonadal dysgenesis
SOX9Orphanet:39346,XX testicular difference of sex development
SOX9Orphanet:718Isolated Pierre Robin sequence
SYNGAP1Orphanet:1942Epilepsy with myoclonic-atonic seizures
SYNGAP1Orphanet:442835Non-specific early-onset epileptic encephalopathy
SYNGAP1Orphanet:544254SYNGAP1-related developmental and epileptic encephalopathy
HNF1AOrphanet:319303Chromophobe renal cell carcinoma
HNF1AOrphanet:324575Hyperinsulinism due to HNF1A deficiency
HNF1AOrphanet:404511Clear cell papillary renal cell carcinoma
HNF1AOrphanet:552MODY
TERTOrphanet:146Differentiated thyroid carcinoma
TERTOrphanet:1501Adrenocortical carcinoma
TERTOrphanet:1775Dyskeratosis congenita
TERTOrphanet:2032Idiopathic pulmonary fibrosis
TERTOrphanet:2495Meningioma
TERTOrphanet:3322Hoyeraal-Hreidarsson syndrome
TERTOrphanet:457246Clear cell sarcoma of kidney
TERTOrphanet:618Familial melanoma
TERTOrphanet:88Idiopathic aplastic anemia
TGFB2Orphanet:60030Loeys-Dietz syndrome
TGFB2Orphanet:91387Familial thoracic aortic aneurysm and aortic dissection
THRAOrphanet:566231Resistance to thyroid hormone due to a mutation in thyroid hormone receptor alpha
TNFSF15Orphanet:186Primary biliary cholangitis
TNRC6AOrphanet:86814Familial adult myoclonic epilepsy
TOP2BOrphanet:567502B-cell immunodeficiency-limb anomaly-urogenital malformation syndrome
VDROrphanet:93160Hypocalcemic vitamin D-resistant rickets
WNT7AOrphanet:2854Fuhrmann syndrome
WNT7AOrphanet:2879Phocomelia, Schinzel type

Cohort genes → proteins

75 cohort genes, 74 distinct canonical proteins.

Evidence partition

SubsetGenes
gwas_only66
gwas_and_clinvar6
multi_evidence3

Cohort genes (full)

SymbolHGNCEnsemblUniProtNameEvidence
SCGB1A1HGNC:12523ENSG00000149021P11684Uteroglobingwas,clinvar
HHIPHGNC:14866ENSG00000164161Q96QV1Hedgehog-interacting proteingwas,clinvar
FAM13AHGNC:19367ENSG00000138640O94988Protein FAM13Agwas,clinvar
CHRNB4HGNC:1964ENSG00000117971P30926Neuronal acetylcholine receptor subunit beta-4gwas,clinvar
DSPHGNC:3052ENSG00000096696P15924Desmoplakingwas,clinvar
HYKKHGNC:34403ENSG00000188266A2RU49Hydroxylysine kinasegwas,clinvar
HMOX1HGNC:5013ENSG00000100292P09601Heme oxygenase 1gencc,clinvar
RPL17HGNC:10307ENSG00000265681P18621Large ribosomal subunit protein uL22gwas
RREB1HGNC:10449ENSG00000124782Q92766Ras-responsive element-binding protein 1gwas
RUVBL1HGNC:10474ENSG00000175792Q9Y265RuvB-like 1gwas
SEC24CHGNC:10705ENSG00000176986P53992Protein transport protein Sec24Cgwas
BMP6HGNC:1073ENSG00000153162P22004Bone morphogenetic protein 6gwas
SFNHGNC:10773ENSG00000175793P3194714-3-3 protein sigmagwas
SFTPDHGNC:10803ENSG00000133661P35247Pulmonary surfactant-associated protein Dgwas
SIX5HGNC:10891ENSG00000177045Q8N196Homeobox protein SIX5gwas
ARID1AHGNC:11110ENSG00000117713O14497AT-rich interactive domain-containing protein 1Agwas
SNRPD2HGNC:11159ENSG00000125743P62316Small nuclear ribonucleoprotein Sm D2gwas
SNRPFHGNC:11162ENSG00000139343P62306Small nuclear ribonucleoprotein Fgwas
BTBD1HGNC:1120ENSG00000064726Q9H0C5BTB/POZ domain-containing protein 1gwas
SOX9HGNC:11204ENSG00000125398P48436Transcription factor SOX-9gwas
BTCHGNC:1121ENSG00000174808P35070Probetacellulingwas
BTN2A1HGNC:1136ENSG00000112763Q7KYR7Butyrophilin subfamily 2 member A1gwas
SYN2HGNC:11495ENSG00000157152Q92777Synapsin-2gwas
SYN3HGNC:11496ENSG00000185666O14994Synapsin-3gwas
SYNGAP1HGNC:11497ENSG00000197283Q96PV0Ras/Rap GTPase-activating protein SynGAPgwas
HNF1AHGNC:11621ENSG00000135100P20823Hepatocyte nuclear factor 1-alphagwas
TCF19HGNC:11629ENSG00000137310Q9Y242Transcription factor 19gwas
TERTHGNC:11730ENSG00000164362O14746Telomerase reverse transcriptaseclinvar
TESK2HGNC:11732ENSG00000070759Q96S53Dual specificity testis-specific protein kinase 2gwas
TFAP2CHGNC:11744ENSG00000087510Q92754Transcription factor AP-2 gammagwas
TGFB2HGNC:11768ENSG00000092969P61812Transforming growth factor beta-2 proproteingwas
THRAHGNC:11796ENSG00000126351P10827Thyroid hormone receptor alphagwas
TNFSF15HGNC:11931ENSG00000181634O95150Tumor necrosis factor ligand superfamily member 15gwas
TNRC6AHGNC:11969ENSG00000090905Q8NDV7Trinucleotide repeat-containing gene 6A proteingwas
TNS1HGNC:11973ENSG00000079308Q9HBL0Tensin-1gwas
TOP2BHGNC:11990ENSG00000077097Q02880DNA topoisomerase 2-betagwas
LINC00470HGNC:1225ENSG00000132204Q9BZP3Putative uncharacterized protein encoded by LINC00470gwas
USP3HGNC:12626ENSG00000140455Q9Y6I4Ubiquitin carboxyl-terminal hydrolase 3gwas
VARS1HGNC:12651ENSG00000204394P26640Valine–tRNA ligasegwas
VDRHGNC:12679ENSG00000111424P11473Vitamin D3 receptorclinvar
MIR99AHGHGNC:1274ENSG00000215386mir-99a-let-7c cluster host genegwas
WNT7AHGNC:12786ENSG00000154764O00755Protein Wnt-7agwas
ZKSCAN1HGNC:13101ENSG00000106261P17029Zinc finger protein with KRAB and SCAN domains 1gwas
EML4HGNC:1316ENSG00000143924Q9HC35Echinoderm microtubule-associated protein-like 4gwas
ZSCAN12HGNC:13172ENSG00000158691O43309Zinc finger and SCAN domain-containing protein 12gwas
LXNHGNC:13347ENSG00000079257Q9BS40Latexingwas
RBMS3HGNC:13427ENSG00000144642Q6XE24RNA-binding motif, single-stranded-interacting protein 3gwas
MACF1HGNC:13664ENSG00000127603O94854Microtubule-actin cross-linking factor 1, isoforms 6/7gwas
GFM1HGNC:13780ENSG00000168827Q96RP9Elongation factor G, mitochondrialgwas
ADGRG6HGNC:13841ENSG00000112414Q86SQ4Adhesion G-protein coupled receptor G6gwas

Cohort function summary

Lead sentence per gene, UniProt-curated.

SymbolProtein nameFunction (lead sentence)
SCGB1A1UteroglobinBinds phosphatidylcholine, phosphatidylinositol, polychlorinated biphenyls (PCB) and weakly progesterone, potent inhibitor of phospholipase A2.
HHIPHedgehog-interacting proteinModulates hedgehog signaling in several cell types including brain and lung through direct interaction with members of the hedgehog family.
CHRNB4Neuronal acetylcholine receptor subunit beta-4Component 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…
DSPDesmoplakinA component of desmosome cell-cell junctions which are required for positive regulation of cellular adhesion.
HYKKHydroxylysine kinaseCatalyzes the GTP-dependent phosphorylation of 5-hydroxy-L-lysine.
HMOX1Heme oxygenase 1Catalyzes 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.
RPL17Large ribosomal subunit protein uL22Component of the large ribosomal subunit.
RREB1Ras-responsive element-binding protein 1Transcription factor that binds specifically to the RAS-responsive elements (RRE) of gene promoters.
RUVBL1RuvB-like 1Possesses 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…
SEC24CProtein transport protein Sec24CComponent of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER).
BMP6Bone morphogenetic protein 6Growth factor of the TGF-beta superfamily that plays essential roles in many developmental processes including cartilage and bone formation.
SFN14-3-3 protein sigmaAdapter protein implicated in the regulation of a large spectrum of both general and specialized signaling pathways.
SFTPDPulmonary surfactant-associated protein DContributes to the lung’s defense against inhaled microorganisms, organic antigens and toxins.
SIX5Homeobox protein SIX5Transcription factor that is thought to be involved in regulation of organogenesis.
ARID1AAT-rich interactive domain-containing protein 1AInvolved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology).
SNRPD2Small nuclear ribonucleoprotein Sm D2Plays 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.
SNRPFSmall nuclear ribonucleoprotein FPlays 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.
BTBD1BTB/POZ domain-containing protein 1Probable substrate-specific adapter of an E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.
SOX9Transcription factor SOX-9Transcription factor that plays a key role in chondrocytes differentiation and skeletal development.
BTCProbetacellulinGrowth factor that binds to EGFR, ERBB4 and other EGF receptor family members.
SYN2Synapsin-2Neuronal phosphoprotein that coats synaptic vesicles, binds to the cytoskeleton, and is believed to function in the regulation of neurotransmitter release.
SYN3Synapsin-3May be involved in the regulation of neurotransmitter release and synaptogenesis.
SYNGAP1Ras/Rap GTPase-activating protein SynGAPMajor constituent of the PSD essential for postsynaptic signaling.
HNF1AHepatocyte nuclear factor 1-alphaTranscriptional activator that regulates the tissue specific expression of multiple genes, especially in pancreatic islet cells and in liver.
TCF19Transcription factor 19Potential transcription factor that may play a role in the regulation of genes involved in cell cycle G1/S transition.
TERTTelomerase reverse transcriptaseTelomerase is a ribonucleoprotein enzyme essential for the replication of chromosome termini in most eukaryotes.
TESK2Dual specificity testis-specific protein kinase 2Dual specificity protein kinase activity catalyzing autophosphorylation and phosphorylation of exogenous substrates on both serine/threonine and tyrosine residues.
TFAP2CTranscription factor AP-2 gammaSequence-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.
TGFB2Transforming growth factor beta-2 proproteinPrecursor 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.
THRAThyroid hormone receptor alphaNuclear hormone receptor that can act as a repressor or activator of transcription.
TNFSF15Tumor necrosis factor ligand superfamily member 15Receptor for TNFRSF25 and TNFRSF6B.
TNRC6ATrinucleotide repeat-containing gene 6A proteinPlays a role in RNA-mediated gene silencing by both micro-RNAs (miRNAs) and short interfering RNAs (siRNAs).
TNS1Tensin-1May act as a protein phosphatase and/or a lipid phosphatase.
TOP2BDNA topoisomerase 2-betaKey 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…
USP3Ubiquitin carboxyl-terminal hydrolase 3Deubiquitinase that plays a role in several cellular processes including transcriptional regulation, cell cycle progression or innate immunity.
VARS1Valine–tRNA ligaseCatalyzes the attachment of valine to tRNA(Val).
VDRVitamin D3 receptorNuclear receptor for calcitriol, the active form of vitamin D3 which mediates the action of this vitamin on cells.
WNT7AProtein Wnt-7aLigand for members of the frizzled family of seven transmembrane receptors that functions in the canonical Wnt/beta-catenin signaling pathway.
ZKSCAN1Zinc finger protein with KRAB and SCAN domains 1May be involved in transcriptional regulation.
EML4Echinoderm microtubule-associated protein-like 4Essential for the formation and stability of microtubules (MTs).
ZSCAN12Zinc finger and SCAN domain-containing protein 12May be involved in transcriptional regulation.
LXNLatexinHardly reversible, non-competitive, and potent inhibitor of CPA1, CPA2 and CPA4.
RBMS3RNA-binding motif, single-stranded-interacting protein 3Binds poly(A) and poly(U) oligoribonucleotides.
GFM1Elongation factor G, mitochondrialMitochondrial GTPase that catalyzes the GTP-dependent ribosomal translocation step during translation elongation.
ADGRG6Adhesion G-protein coupled receptor G6Adhesion G-protein coupled receptor (aGPCR) for steroid hormones, such as progesterone and 17alpha-hydroxyprogesterone (17OHP).
CCHCR1Coiled-coil alpha-helical rod protein 1May be a regulator of keratinocyte proliferation or differentiation.
OR12D3Olfactory receptor 12D3Odorant receptor.
OR2B2Olfactory receptor 2B2Odorant receptor.
PRDM15PR domain zinc finger protein 15Sequence-specific DNA-binding transcriptional regulator.
CSMD1CUB and sushi domain-containing protein 1Potential 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.

FamilyGenesFoldFDR
Nuclear receptor210.3×0.178
Complement13.6×0.732
Phosphatase22.2×0.732
Scaffold/PPI61.4×0.732
Kinase31.1×0.747
Transcription factor101.1×0.747
Protease21.0×0.747
Enzyme (other)61.0×0.747
GPCR31.0×0.747
Antibody/Immunoglobulin20.8×0.806
Other/Unknown380.9×0.845

Per-gene assignment

SymbolFamilyDruggable?ECInterPro (top 3)
SCGB1A1Other/UnknownnoUteroglobin, Secretoglobin, Secretoglobin_sf
HHIPOther/UnknownnoEGF, Quinoprot_gluc/sorb_DH_b-prop, 6-blade_b-propeller_TolB-like
FAM13AOther/UnknownnoRhoGAP_dom, Rho_GTPase_activation_prot, FAM13
CHRNB4Other/UnknownnoNicotinic_acetylcholine_rcpt, Neurotrans-gated_channel_TM, Neur_channel
DSPScaffold/PPInoPlectin_repeat, SH3_domain, Spectrin/alpha-actinin
HYKKKinaseyes2.7.1.81Aminoglycoside_PTrfase, Kinase-like_dom_sf, Pseudomonas-type_ThrB
HMOX1Enzyme (other)yes1.14.14.18Haem_Oase, Haem_Oase-like, Haem_Oase-like_multi-hlx
RPL17Other/UnknownnoRibosomal_uL22, Ribosomal_uL22_euk_arc, Ribosomal_uL22_CS
RREB1Transcription factornoZnf_C2H2_type, Znf_C2H2_sf, RREB1
RUVBL1Other/UnknownnoAAA+_ATPase, TIP49_P-loop, RuvB-like
SEC24CTranscription factornoZnf_Sec23_Sec24, Sec23/24_trunk_dom, Sec23/24_helical_dom
BMP6Other/UnknownnoTGF-b_propeptide, TGF-b_C, TGF-beta-like
SFNOther/Unknownno14-3-3, 14-3-3_CS, 14-3-3_domain
SFTPDOther/UnknownnoC-type_lectin-like, Collagen, Surfac_D-trimer
SIX5Transcription factornoHD, Homeodomain-like_sf, Homeobox_CS
ARID1AOther/UnknownnoARID_dom, ARM-like, ARM-type_fold
SNRPD2Other/UnknownnoSm_dom_euk/arc, LSM_dom_sf, Sm_D2
SNRPFOther/UnknownnoSm_dom_euk/arc, LSM_dom_sf, Lsm6/sSmF
BTBD1Other/UnknownnoBTB/POZ_dom, SKP1/BTB/POZ_sf, BACK
SOX9Transcription factornoHMG_box_dom, Sox_N, HMG_box_dom_sf
BTCOther/UnknownnoEGF
BTN2A1Antibody/ImmunoglobulinyesB30.2/SPRY, Ig_sub, SPRY_dom
SYN2Other/UnknownnoSynapsin, ATP_grasp_subdomain_1, PreATP-grasp_dom_sf
SYN3Other/UnknownnoSynapsin, ATP_grasp_subdomain_1, PreATP-grasp_dom_sf
SYNGAP1Scaffold/PPInoC2_dom, PH_domain, RasGAP_dom
HNF1ATranscription factornoHD, HNF1b_C, HNF1a_C
TCF19Transcription factornoFHA_dom, Znf_PHD, SMAD_FHA_dom_sf
TERTOther/UnknownnoRT_dom, Telomerase_RT, Telomerase_RBD
TESK2Kinaseyes2.7.10.2Prot_kinase_dom, Ser-Thr/Tyr_kinase_cat_dom, Tyr_kinase_AS
TFAP2CTranscription factornoTF_AP2, TF_AP2_gamma, TF_AP2_C
TGFB2Other/UnknownnoTGF-b_propeptide, TGF-b_C, TGFb2
THRANuclear receptoryesNucl_hrmn_rcpt_lig-bd, Znf_hrmn_rcpt, Nuclear_hrmn_rcpt
TNFSF15Other/UnknownnoTNF_dom, TNF, Tumour_necrosis_fac-like_dom
TNRC6AOther/UnknownnoNucleotide-bd_a/b_plait_sf, Argonaute_hook_dom, TNRC6_PABC-bd
TNS1PhosphataseyesSH2, PKC_DAG/PE, Tyr_Pase_cat
TOP2BEnzyme (other)yes5.6.2.2TopoII_euk, Topo_IIA, Topo_IIA_dom_A
LINC00470Other/Unknownno
USP3ProteaseyesPeptidase_C19_UCH, Znf_UBP, Znf_RING/FYVE/PHD
VARS1Enzyme (other)yes6.1.1.9aa-tRNA-synth_I_CS, aa-tRNA-synth_Ia, Valyl-tRNA_ligase
VDRNuclear receptoryesVitD_rcpt, Nucl_hrmn_rcpt_lig-bd, Znf_hrmn_rcpt
MIR99AHGOther/Unknownno
WNT7AOther/UnknownnoWnt, Wnt7, Wnt_CS
ZKSCAN1Transcription factornoKRAB, SCAN_dom, Znf_C2H2_type
EML4Scaffold/PPInoWD40_rpt, HELP, Quinoprotein_ADH-like_sf
ZSCAN12Transcription factornoSCAN_dom, Znf_C2H2_type, Znf_C2H2_sf
LXNOther/UnknownnoLatexin, Cystatin_sf, CYSTATIN_LXN
RBMS3Other/UnknownnoRRM_dom, Hud_Sxl_RNA, Nucleotide-bd_a/b_plait_sf
MACF1Scaffold/PPInoSpectrin_repeat, EF_hand_dom, GAR_dom
GFM1Other/UnknownnoEFG_V-like, T_Tr_GTP-bd_dom, EFTu-like_2
ADGRG6GPCRyesGPS, 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)

BucketGenes
narrow (1-5 tissues)1
moderate (6-20)1
broad (>20)73
unknown0

Top tissues across cohort

TissueCohort genes
ventricular zone11
primordial germ cell in gonad7
calcaneal tendon7
right testis6
cartilage tissue5
cortical plate5
left testis5
endothelial cell4
jejunal mucosa4
oocyte4
upper leg skin4
ileal mucosa4
right uterine tube4
embryo4
endometrium epithelium4
testis4
bronchial epithelial cell3
secondary oocyte3
male germ line stem cell (sensu Vertebrata) in testis3
hair follicle3

Per-gene tissue summary (top 30)

SymbolBgee breadthFANTOM5 breadthSCXATop tissues
SCGB1A1170tissue_specificmarkerbronchial epithelial cell, epithelium of bronchus, right lung
HHIP206ubiquitousmarkercorpus callosum, endothelial cell, globus pallidus
FAM13A293ubiquitousmarkersecondary oocyte, oocyte, jejunal mucosa
CHRNB4125broadmarkerprimordial germ cell in gonad, male germ line stem cell (sensu Vertebrata) in testis, right testis
DSP253ubiquitousmarkerskin of hip, upper leg skin, hair follicle
HYKK170ubiquitousmarkerolfactory segment of nasal mucosa, calcaneal tendon, ileal mucosa
HMOX1230ubiquitousmarkercartilage tissue, spleen, monocyte
RPL17134ubiquitousmarkerleft ovary, ovary, right ovary
RREB1278ubiquitousmarkerbuccal mucosa cell, epithelium of nasopharynx, oral cavity
RUVBL1134ubiquitousmarkerright uterine tube, ventricular zone, primordial germ cell in gonad
SEC24C290ubiquitousmarkerlower esophagus mucosa, esophagus squamous epithelium, epithelium of esophagus
BMP6197ubiquitousmarkersecondary oocyte, cartilage tissue, oocyte
SFN278broadmarkercervix squamous epithelium, gingival epithelium, squamous epithelium
SFTPD180tissue_specificmarkerlower lobe of lung, visceral pleura, upper lobe of lung
SIX5205ubiquitousyescardiac muscle of right atrium, right uterine tube, right ovary
ARID1A286ubiquitousmarkerbone marrow cell, ventricular zone, embryo
SNRPD2295ubiquitousmarkeradult organism, type B pancreatic cell, embryo
SNRPF283ubiquitousmarkerendometrium epithelium, oocyte, embryo
BTBD1290ubiquitousmarkerskeletal muscle tissue of rectus abdominis, vastus lateralis, quadriceps femoris
SOX9274ubiquitousmarkerventricular zone, cranial nerve II, hair follicle
BTC201broadmarkermuscle layer of sigmoid colon, upper leg skin, lower esophagus muscularis layer
BTN2A1286ubiquitousmarkergranulocyte, spleen, cerebellar hemisphere
SYN2217broadmarkermiddle temporal gyrus, endothelial cell, Brodmann (1909) area 23
SYN3176broadmarkerprimordial germ cell in gonad, cortical plate, primary visual cortex
SYNGAP1137ubiquitousmarkerpituitary gland, right uterine tube, adenohypophysis
HNF1A81tissue_specificyesright lobe of liver, mucosa of transverse colon, liver
TCF19133ubiquitousyesprimordial germ cell in gonad, ventricular zone, lymph node
TERT105broadyesstromal cell of endometrium, type B pancreatic cell, olfactory bulb
TESK2218ubiquitousyescartilage tissue, ileal mucosa, C1 segment of cervical spinal cord
TFAP2C198broadmarkerendometrium epithelium, ventricular zone, epithelium of mammary gland

Protein interactions among cohort

Intra-cohort edges: 22.

Hub genes (top 10 by interactor count)

SymbolInteractor count
VARS15,848
GFM15,789
TERT5,717
SFN5,552
RPL175,372
TOP2B5,298
SOX94,935
SNRPF4,334
HMOX14,054
ARID1A3,476

Intra-cohort edges

ABSources
CAMK2GSYN2string_interaction
CAMK2GSYN3string_interaction
CCHCR1OR12D3string_interaction
CCHCR1TCF19string_interaction
CHRNB4HYKKstring_interaction
ELOVL4HMOX1intact
FAM13AHHIPstring_interaction
FAM13AHYKKstring_interaction
FAM13ASFNintact
GAB2TESK2biogrid_interaction
HDAC7SFNintact
OR12D3TCF19string_interaction
RUVBL1TERTintact
SCGB1A1SFTPDstring_interaction
SEC24CSYNGAP1intact
SFNTESK2intact
SNRPD2SNRPFintact
SYN2SYN3biogrid_interaction, intact
SYN2SYNGAP1intact
SYN3SYNGAP1intact
SYNGAP1TOP2Bintact
VARS1VWA7string_interaction

Structural data

PDB: 43 · AlphaFold-only: 31 · No structure: 1

Cohort genes with PDB structures (top 30)

SymbolUniProtPDB entries
SFNP31947524
RPL17P18621195
SNRPFP6230684
SNRPD2P6231681
VDRP1147352
RUVBL1Q9Y26536
BTN2A1Q7KYR733
SFTPDP3524731
HMOX1P0960126
TERTO1474623
TOP2BQ0288020
HHIPQ96QV111
TGFB2P6181211
THRAP1082710
GAB2Q9UQC210
ARID1AO144977
TNFSF15O951507
HNF1AP208236
HDAC7Q8WUI46
BMP6P220045
GFM1Q96RP95
CHRNB4P309264
DSPP159244
BTCP350704
NUF2Q9BZD44
SEC24CP539923
WNT7AO007553
MACF1O948543
SCGB1A1P116842
TNRC6AQ8NDV72

AlphaFold-only cohort genes (top 30 by pLDDT)

SymbolUniProtpLDDT
HYKKA2RU4993.89
VARS1P2664088.12
BTBD1Q9H0C587.99
ELOVL4Q9GZR584.53
VWA7Q9Y33484.03
CACNA2D3Q8IZS883.30
PRSS23O9508482.18
OR12D3Q9UGF781.77
ASB1Q9Y57680.61
OR2B2Q9GZK379.53
CCHCR1Q8TD3179.52
USP3Q9Y6I479.40
SYN2Q9277775.24
ZSCAN12O4330970.20
RSPH6AQ9H0K468.76
PICALMQ1349267.38
TESK2Q96S5366.52
TFAP2CQ9275466.37
ADAMTSL3P8298765.99
RBMS3Q6XE2463.30
TCF19Q9Y24263.17
RGS20O7608162.78
FAM13AO9498861.00
LINC00470Q9BZP360.83
SYNGAP1Q96PV060.43
ZKSCAN1P1702959.61
PRDM15P5707156.66
TNS1Q9HBL053.42
SIX5Q8N19653.21
RREB1Q9276648.28

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.

PathwayCohort genesFoldFDRSample cohort genes
Highly calcium permeable nicotinic acetylcholine receptors437.3×0.001CHRNB4, CHRNA3, CHRNA4, CHRNA5
Highly calcium permeable postsynaptic nicotinic acetylcholine receptors430.5×0.002CHRNB4, CHRNA3, CHRNA4, CHRNA5
Presynaptic nicotinic acetylcholine receptors428.0×0.002CHRNB4, CHRNA3, CHRNA4, CHRNA5
Acetylcholine binding and downstream events424.0×0.002CHRNB4, CHRNA3, CHRNA4, CHRNA5
Postsynaptic nicotinic acetylcholine receptors424.0×0.002CHRNB4, CHRNA3, CHRNA4, CHRNA5
Highly sodium permeable postsynaptic acetylcholine nicotinic receptors336.0×0.006CHRNB4, CHRNA3, CHRNA4
Transmission across Chemical Synapses95.0×0.007CHRNB4, SYN2, SYN3, CAMK2G, CACNA2D3, CHRNA3, CHRNA4, CHRNA5 (+1 more)
TFAP2 (AP-2) family regulates transcription of other transcription factors242.0×0.060TFAP2C, CITED2
Invadopodia formation242.0×0.060ADAM19, SH3PXD2A
Extension of Telomeres313.3×0.090RUVBL1, TERT, STN1
Neurotransmitter receptors and postsynaptic signal transmission64.4×0.139CHRNB4, CAMK2G, CHRNA3, CHRNA4, CHRNA5, ADCY5
Neuronal System92.9×0.198CHRNB4, SYN2, SYN3, CAMK2G, CACNA2D3, CHRNA3, CHRNA4, CHRNA5 (+1 more)
Regulation of CDH11 mRNA translation by microRNAs218.7×0.225TNRC6A, CDH11
Uptake of dietary cobalamins into enterocytes216.8×0.225CTRB1, CTRB2
Telomere Maintenance38.1×0.225RUVBL1, TERT, STN1
Regulation of MECP2 expression and activity38.1×0.225TNRC6A, CAMK2G, TBL1XR1
SARS-CoV-2-host interactions54.4×0.225SEC24C, SFN, SFTPD, SNRPD2, SNRPF
Processing of Capped Intronless Pre-mRNA215.3×0.232SNRPF, SYMPK
Regulation of CDH11 function215.3×0.232CDH11, ADAM19
SARS-CoV-2 Infection63.5×0.232SEC24C, SFN, SFTPD, SNRPD2, SNRPF, CSNK1A1
Activation of the TFAP2 (AP-2) family of transcription factors214.0×0.259TFAP2C, CITED2
Transcriptional Regulation by MECP237.0×0.259TNRC6A, CAMK2G, TBL1XR1
Specification of primordial germ cells212.9×0.282TFAP2C, TET2
Regulation of CDH11 Expression and Function212.0×0.313CDH11, ADAM19
Class I MHC mediated antigen processing & presentation63.1×0.341SEC24C, BTBD1, ASB1, SEC61A1, ANAPC10, RNF220
O-linked glycosylation44.2×0.360ADAMTSL3, POFUT4, C1GALT1, THSD4
Transcriptional regulation of testis differentiation210.5×0.361SOX9, ZFPM2
Regulation of Homotypic Cell-Cell Adhesion29.9×0.378CDH11, ADAM19
Regulation of Expression and Function of Type II Classical Cadherins29.9×0.378CDH11, ADAM19
Serotonin Neurotransmitter Release Cycle29.3×0.395SYN2, 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 termCohort genesFoldFDRSample cohort genes
behavioral response to nicotine434.8×0.004CHRNB4, CHRNA3, CHRNA4, CHRNA5
acetylcholine receptor signaling pathway514.5×0.013CHRNB4, CHRM3, CHRNA3, CHRNA4, CHRNA5
synaptic transmission, cholinergic414.9×0.050CHRNB4, CHRNA3, CHRNA4, CHRNA5
cartilage condensation414.2×0.050SOX9, TGFB2, THRA, WNT7A
positive regulation of male gonad development323.5×0.059SOX9, ZFPM2, CITED2
keratinocyte development321.4×0.067SFN, TFAP2C, KDF1
regulation of epidermal cell division252.2×0.088SFN, KDF1
regulation of smooth muscle contraction316.8×0.107CHRNB4, CHRM3, CHRNA3
synaptic transmission involved in micturition239.2×0.111CHRNB4, CHRNA3
mammary gland branching involved in pregnancy239.2×0.111VDR, CSMD1
membrane depolarization49.5×0.111CHRNB4, CHRNA3, CHRNA4, CHRNA5
nuclear envelope organization313.8×0.125LEMD2, DMPK, TMEM170A
positive regulation of transcription by RNA polymerase II271.9×0.125RREB1, BMP6, SOX9, HNF1A, TFAP2C, THRA, VDR, WNT7A (+19 more)
intermediate filament cytoskeleton organization313.1×0.133DSP, MACF1, CSNK1A1
response to nicotine47.8×0.140HMOX1, CHRNA3, CHRNA4, CHRNA5
positive regulation of bone mineralization47.3×0.172BMP6, VDR, ADGRV1, ADRB2
smooth muscle contraction311.2×0.173CHRNB4, CHRM3, ADRB2
RNA-templated transcription178.4×0.194TERT
deoxyribonucleoside triphosphate metabolic process178.4×0.194RRM2B
regulation of acetylcholine secretion, neurotransmission178.4×0.194CHRNA3
regulation of excitatory postsynaptic membrane potential involved in skeletal muscle contraction178.4×0.194DMPK
polysaccharide transport178.4×0.194SMPD3
cranial nerve morphogenesis178.4×0.194CITED2
DNA strand elongation178.4×0.194TERT
regulation of myeloid cell apoptotic process178.4×0.194THRA
obsolete L-asparagine catabolic process via L-aspartate178.4×0.194ASRGL1
negative regulation of syncytium formation by plasma membrane fusion178.4×0.194RAPGEF3
pronephric nephron development178.4×0.194SEC61A1
asymmetric protein localization involved in cell fate determination178.4×0.194WNT7A
regulation of timing of catagen178.4×0.194TGFB2

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.

DrugDevelopment status
AlbuterolApproved (phase 4)
AzithromycinApproved (phase 4)
BudesonideApproved (phase 4)
EnsifentrineApproved (phase 4)
Fluticasone FuroateApproved (phase 4)
Fluticasone PropionateApproved (phase 4)
RevefenacinApproved (phase 4)
RoflumilastApproved (phase 4)
.ALPHA.1-PROTEINASE INHIBITOR HUMANPhase 3 (in late-stage trials)
AcetylcysteinePhase 3 (in late-stage trials)
Albumin HumanPhase 3 (in late-stage trials)
ArformoterolPhase 3 (in late-stage trials)
AspirinPhase 3 (in late-stage trials)
AstegolimabPhase 3 (in late-stage trials)
Beclomethasone DipropionatePhase 3 (in late-stage trials)
BenralizumabPhase 3 (in late-stage trials)
CilomilastPhase 3 (in late-stage trials)
CiprofloxacinPhase 3 (in late-stage trials)
ClopidogrelPhase 3 (in late-stage trials)
DupilumabPhase 3 (in late-stage trials)
ErdosteinePhase 3 (in late-stage trials)
FenoterolPhase 3 (in late-stage trials)
FluticasonePhase 3 (in late-stage trials)
FormoterolPhase 3 (in late-stage trials)
FurosemidePhase 3 (in late-stage trials)
GlycopyrroniumPhase 3 (in late-stage trials)
HeliumPhase 3 (in late-stage trials)
IndacaterolPhase 3 (in late-stage trials)
InfliximabPhase 3 (in late-stage trials)
IpratropiumPhase 3 (in late-stage trials)
ItepekimabPhase 3 (in late-stage trials)
IvospeminPhase 3 (in late-stage trials)
LevosalbutamolPhase 3 (in late-stage trials)
Magnesium Sulfate AnhydrousPhase 3 (in late-stage trials)
MepolizumabPhase 3 (in late-stage trials)
MethylprednisolonePhase 3 (in late-stage trials)
Mometasone FuroatePhase 3 (in late-stage trials)
MorphinePhase 3 (in late-stage trials)
MoxifloxacinPhase 3 (in late-stage trials)
NicotinePhase 3 (in late-stage trials)
OlodaterolPhase 3 (in late-stage trials)
OxitropiumPhase 3 (in late-stage trials)
OxygenPhase 3 (in late-stage trials)
PrednisolonePhase 3 (in late-stage trials)
PrednisonePhase 3 (in late-stage trials)
ProcalcitoninPhase 3 (in late-stage trials)
ResveratrolPhase 3 (in late-stage trials)
SalmeterolPhase 3 (in late-stage trials)
SimvastatinPhase 3 (in late-stage trials)
Sodium ChloridePhase 3 (in late-stage trials)
TemazepamPhase 3 (in late-stage trials)
TerbutalinePhase 3 (in late-stage trials)
TiotropiumPhase 3 (in late-stage trials)
TozorakimabPhase 3 (in late-stage trials)
TriamcinolonePhase 3 (in late-stage trials)
UmeclidiniumPhase 3 (in late-stage trials)
VilanterolPhase 3 (in late-stage trials)
Vitamin EPhase 3 (in late-stage trials)
ZabofloxacinPhase 3 (in late-stage trials)
ZileutonPhase 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.

SymbolExample approved molecule
CHRNB4VARENICLINE
RPL17GENTAMICIN SULFATE
TERTBERBERINE
THRALIOTHYRONINE
TOP2BAMSACRINE
VDRCHOLECALCIFEROL
EML4ALECTINIB
HDAC7CELECOXIB
SMPD3LAROTRECTINIB
CAMK2GMOMELOTINIB
CACNA2D3NIMODIPINE

Top cohort targets by molecule count

SymbolMoleculesMax phase
CAMK2G394
HDAC7284
CHRNB4204
THRA124
TOP2B114
TERT104
VDR104
EML4104
EGLN222
CACNA2D324

Drugs targeting cohort genes (top 30)

MoleculeMax phaseTargets in cohort
VARENICLINE4CHRNB4
NICOTINE4CHRNB4
BUPROPION4CHRNB4
MECAMYLAMINE4CHRNB4
ONDANSETRON4CHRNB4
TROPISETRON4CHRNB4
ACETYLCHOLINE4CHRNB4
GENTAMICIN SULFATE4RPL17
BERBERINE4TERT
DOXORUBICIN4TERT, TOP2B
LIOTHYRONINE4THRA
LEVOTHYROXINE4THRA
ROXADUSTAT4THRA
RESMETIROM4THRA
AMIODARONE4THRA
AMSACRINE4TOP2B
ETOPOSIDE4TOP2B
TENIPOSIDE4TOP2B
CIPROFLOXACIN4TOP2B
TOPOTECAN4TOP2B
DEXRAZOXANE4TOP2B
CHOLECALCIFEROL4VDR
CALCIPOTRIENE4VDR
DOXERCALCIFEROL4VDR
TACALCITOL4VDR
CALCITRIOL4VDR
ALECTINIB4EML4
ENTRECTINIB4EML4
CERITINIB4EML4
LORLATINIB4EML4

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 10.

Cohort genes with ChEMBL bioactivity (full, sorted by assay count)

SymbolAssaysType breakdown
HDAC71,710Binding:1695, ADMET:10, Functional:4, Toxicity:1
VDR561Binding:459, Functional:99, ADMET:3
CHRNB4407Binding:309, Functional:96, ADMET:2
TERT391Binding:389, Functional:2
EML4304Binding:304
CAMK2G291Binding:290, Functional:1
TOP2B284Binding:247, Functional:36, ADMET:1
THRA140Binding:115, Functional:23, ADMET:2
RPL1790Binding:90
EGLN231Binding:31
HMOX123Binding:22, ADMET:1
SFN21Binding:21
RUVBL115Binding:15
TESK213Binding:13
CACNA2D313Binding:13
SNRPD28Binding:8
SMPD38Binding:8
VARS17Binding:7
ARID1A6Binding:6
SOX93Binding:3
TGFB23Binding:3
USP33Binding:3
DSP2Binding:2
SFTPD2Binding:2
ADGRG62Binding:2
SEC24C1Binding:1
BMP61Binding:1
SNRPF1Binding:1
BTN2A11Binding:1
HNF1A1Binding:1
GFM11Binding:1
ELOVL41Binding:1
PICALM1Binding:1
KLHL71Binding:1

Cohort enzymes (BRENDA EC)

SymbolEC numbersNames
HYKK2.7.1.81hydroxylysine kinase
HMOX11.14.14.18heme oxygenase (biliverdin-producing)
TESK22.7.10.2non-specific protein-tyrosine kinase
TOP2B5.6.2.2, 5.99.1.3DNA topoisomerase (ATP-hydrolysing), DNA topoisomerase (ATP-hydrolysing)
VARS16.1.1.9valine-tRNA ligase
HDAC73.5.1.98histone deacetylase
SMPD33.1.4.12sphingomyelin phosphodiesterase
CAMK2G2.7.11.17Ca2+/calmodulin-dependent protein kinase
EGLN21.14.11.2, 1.14.11.29procollagen-proline 4-dioxygenase, hypoxia-inducible factor-proline dioxygenase
POFUT12.4.1.221peptide-O-fucosyltransferase

Cohort genes with high screening signal

≥100 ChEMBL assays — a studied-ness signal; see Therapeutics for approved-drug status.

SymbolChEMBL assays
CHRNB4407
TERT391
THRA140
TOP2B284
VDR561
EML4304
HDAC71,710
CAMK2G291

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.

CompoundMax phaseCohort target (bioactivity)
VARENICLINE4CHRNB4
NICOTINE4CHRNB4
BUPROPION4CHRNB4
MECAMYLAMINE4CHRNB4
ONDANSETRON4CHRNB4
TROPISETRON4CHRNB4
ACETYLCHOLINE4CHRNB4
GENTAMICIN SULFATE4RPL17
BERBERINE4TERT
DOXORUBICIN4TERT, TOP2B
LIOTHYRONINE4THRA
LEVOTHYROXINE4THRA
ROXADUSTAT4THRA
RESMETIROM4THRA
AMIODARONE4THRA
AMSACRINE4TOP2B
ETOPOSIDE4TOP2B
TENIPOSIDE4TOP2B
CIPROFLOXACIN4TOP2B
TOPOTECAN4TOP2B
DEXRAZOXANE4TOP2B
CHOLECALCIFEROL4VDR
CALCIPOTRIENE4VDR
DOXERCALCIFEROL4VDR
TACALCITOL4VDR
CALCITRIOL4VDR
ALECTINIB4EML4
ENTRECTINIB4EML4
CERITINIB4EML4
LORLATINIB4EML4

Druggability pyramid

Cohort genes binned by druggability tier (high → low):

TierDefinitionGenesSymbols
AApproved (phase 4 drug)11CHRNB4, RPL17, TERT, THRA, TOP2B, VDR, EML4, HDAC7, SMPD3, CAMK2G (+1 more)
BPhased (≥1) drug, not yet approved5RUVBL1, SNRPD2, TESK2, TGFB2, EGLN2
CDruggable family + PDB, no drug5HMOX1, BTN2A1, ADGRG6, CSMD1, POFUT1
DDruggable family + AlphaFold only, no drug8HYKK, TNS1, USP3, VARS1, OR12D3, OR2B2, PRSS23, ADAMTSL3
EDifficult family or no structure, no drug46SCGB1A1, 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).

SymbolChEMBL assaysDrugged partners (top 3)
HYKK0CHRNB4
SCGB1A10
HHIP0
FAM13A0
DSP2
HMOX123
RREB10
SEC24C1
BMP61
SFN21
SFTPD2
SIX50
ARID1A6
SNRPF1
BTBD10
SOX93
BTC0
BTN2A11
SYN20
SYN30
SYNGAP10
HNF1A1
TCF190
TFAP2C0
TNFSF150
TNRC6A0
TNS10
LINC004700
USP33
VARS17

Clinical trials & evidence

Clinical trials

Clinical trials: 3,782.

Phase distribution (across all retrieved trials)

PhaseTrials
PHASE3306
PHASE4287
PHASE2283
PHASE1126
PHASE1/PHASE247
PHASE2/PHASE330
EARLY_PHASE121

Top trials by phase / activity

NCTPhaseStatusTitle
NCT02989935PHASE4ACTIVE_NOT_RECRUITINGRELVAR Effects on Parasternal Muscle Activity, Diaphragm, and Ventilation in Severe COPD
NCT03566667PHASE4ACTIVE_NOT_RECRUITINGBeta-blockers to Patients With Chronic Obstructive Pulmonary Disease
NCT04238221PHASE4NOT_YET_RECRUITINGEffect of add-on Doxofylline on Lung Function in Stable COPD
NCT04339270PHASE4RECRUITINGChronic Airway Disease, Mucus Rheology and Exacerbations
NCT04789057PHASE4ACTIVE_NOT_RECRUITINGAtorvastatin Effect on Reduction of COPD Exacerbations
NCT05772013PHASE4RECRUITINGOptimising Azithromycin Prevention Treatment in COPD to Reduce Exacerbations
NCT06152653PHASE4RECRUITINGThe Effects of Positive Airway Pressure on the Mucolytic Effects of NAC (TEAM)
NCT06334575PHASE4RECRUITINGMolecular Signatures Associated With Response to ICS Treatment in Patients With COPD Stratified by Eosinophil Levels
NCT06552364PHASE4NOT_YET_RECRUITINGAir Pollution and Inhaled Corticosteroids in COPD
NCT06825013PHASE4RECRUITINGBronchodilators and Lung Mechanics During Exercise in COPD
NCT06825728PHASE4NOT_YET_RECRUITINGMetoprolol in Patients With HFrEF and COPD
NCT06892210PHASE4RECRUITINGComparing Hydrocortisone and Prednisolone for Acute Exacerbation of Chronic Obstructive Pulmonary Disease (AECOPD)
NCT06929767PHASE4NOT_YET_RECRUITINGDo Blood Tests Help to Decide Which Patients With Flares of Chronic Obstructive Pulmonary Disease (COPD) Need Antibiotics and Steroids?
NCT06991426PHASE4NOT_YET_RECRUITINGEffects of CreaSafe® on Kidney, Muscle, and Cardiopulmonary Function in Athletes and COPD Patients
NCT07053423PHASE4RECRUITINGA Study to Investigate Airway Inflammation With Dupilumab Subcutaneously in Participants Aged ≥40 to ≤85 Years With Chronic Obstructive Pulmonary Disease.
NCT07073950PHASE4RECRUITINGA 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
NCT07114120PHASE4RECRUITINGClinical Study on the Treatment of Stable Bronchiectasis With Bailing Capsules Combined With Guben Kechuan Granules
NCT07133880PHASE4RECRUITINGCompare the Effects of Nebulizer Versus Inhaler Based Therapy for COPD Using Long-acting Bronchodilators
NCT07135427PHASE4RECRUITINGGenetic Variation in IgG in Alpha 1 Antitrypsin Deficiency
NCT07192016PHASE4NOT_YET_RECRUITING129-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
NCT07508644PHASE4NOT_YET_RECRUITINGRSV Vaccination to Reduce Recurrent AECOPD
NCT07587658PHASE4NOT_YET_RECRUITINGThis 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
NCT00120978PHASE4UNKNOWNCan Advair and Flovent Reduce Systemic Inflammation Related to Chronic Obstructive Pulmonary Disease (COPD)? A Multi-Center Randomized Controlled Trial
NCT00134979PHASE4COMPLETEDFormoterol Certihaler, Tiotropium HandiHaler and Tiotropium HandiHaler in Combination With Formoterol Certihaler in Patients With Stable Chronic Obstructive Pulmonary Disease
NCT00158847PHASE4TERMINATEDModification Of Disease Outcome In COPD
NCT00170222PHASE4COMPLETEDPlacebo Versus Antibiotics in Acute Exacerbations of Chronic Obstructive Pulmonary Disease (COPD)
NCT00175565PHASE4COMPLETEDInhaled Steroid Reduces Systemic Inflammation in COPD
NCT00181207PHASE4COMPLETEDAirway Clearance for Prevention of Chronic Obstructive Pulmonary Disease (COPD) Exacerbation
NCT00186706PHASE4COMPLETEDSelenium Supplementation in Chronic Obstructive Pulmonary Disease (COPD) Patients
NCT00190437PHASE4COMPLETEDANTEAB: a Study of Early Antibiotherapy in the ICU Management of Acute Exacerbations of COPD
NCT00202176PHASE4COMPLETEDEffects of Bronchodilators in Mild Chronic Obstructive Pulmonary Disease (COPD)
NCT00202189PHASE4COMPLETEDEffects of Inhaled Corticosteroids in Chronic Obstructive Pulmonary Disease (COPD)
NCT00232674PHASE4COMPLETEDEfficacy Study of the Effect of Budesonide on Emphysema
NCT00288548PHASE4UNKNOWNMetoprolol and Formoterol in Chronic Obstructive Pulmonary Disease (COPD)
NCT00291408PHASE4WITHDRAWNEffect of Symbicort on HAT and HDAC in Sputum Macrophages of COPD
NCT00291460PHASE4UNKNOWNInspiratory Muscle Training in Hypercapnic COPD
NCT00292838PHASE4COMPLETEDRelative Potency of Inhaled Corticosteroids
NCT00311961PHASE4COMPLETEDIntravenous Versus Oral Administration of Prednisolone in Exacerbations of Chronic Obstructive Pulmonary Disease (COPD)
NCT00316992PHASE4COMPLETEDSafety of Ramelteon in Subjects With Chronic Obstructive Pulmonary Disease
NCT00331656PHASE4UNKNOWNComparative Study of Non-Invasive Mask Ventilation vs Cuirass Ventilation in Patients With Acute Respiratory Failure.

Drugs tested across these trials (top 30)

MoleculeMax phaseTrials referencing
FORMOTEROL4133
GLYCOPYRRONIUM4119
TIOTROPIUM490
INDACATEROL476
ARFORMOTEROL471
ACLIDINIUM457
DARIFENACIN457
ROFLUMILAST428
SALMETEROL428
ALBUTEROL423
BUDESONIDE423
IPRATROPIUM421
VILANTEROL420
THEOPHYLLINE ANHYDROUS418
BECLOMETHASONE DIPROPIONATE414
BISOPROLOL412
FLUTICASONE PROPIONATE412
SILDENAFIL412
REVEFENACIN411
ACETAZOLAMIDE410
UMECLIDINIUM410
DOXYCYCLINE ANHYDROUS49
ENSIFENTRINE49
FLUTICASONE FUROATE48
MOXIFLOXACIN45
OXYGEN45
BENRALIZUMAB44
DUPILUMAB44
MEPOLIZUMAB44
TEZEPELUMAB44