obophenotype / human-phenotype-ontology

Ontology for the description of human clinical features
http://obophenotype.github.io/human-phenotype-ontology/
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Modification, pulmo: Hypersensitivity pneumonitis HP:0006516 #5806

Closed GrieseAG closed 4 years ago

GrieseAG commented 4 years ago

HPO term Hypersensitivity pneumonitis HP:0006516

Synonym to be added exogen allergic alveolitis, extrinsic allergic alveolitis

broad/exact/narrow/plural/abbreviation ? EAA

definition: Hypersensitivity pneumonitis involves inhalation of an antigen. This leads to an exaggerated immune response and a following inflammation of the alveoli within the lungs. The main feature of chronic hypersensitivity pneumonitis on lung biopsies is expansion of the interstitium by lymphocytes accompanied by an occasional multinucleated giant cell or loose granuloma. After exposure to the provoking antigen, following symptoms can be seen: fever, chills, malaise, cough, hemoptysis, chest tightness, dyspnea, rash, swelling and headache and can be completely reversible, based on the duration of the illness, categorized as acute (HP:0011009), subacute (HP:0011011), and chronic (HP:0011010).

Comment: Hypersensitivity pneumonitis may also be called many different names, based on the provoking antigen PMID 16635083, PMID 15316440, PMID 18051218

nano contribution lmu: chrapp, @katrinknoflach, @mgriese

mgriese commented 4 years ago

definition: Hypersensitivity pneumonitis involves inhalation of an organic antigen. This leads to an exaggerated immune response with inflammation of the alveoli, i.e. alveolitis or pneumonitis. Histopathology of lung biopsies shows a lymphocytic infiltrate of the interstitium, occasional multinucleated giant cells or loose (non-caseating) granuloma. 4-12 h after exposure to the provoking antigen fever, chills, malaise, cough, hemoptysis, chest tightness, dyspnea, rash, swelling and headache can occur. With removal of the antigen this is reversible, with continous expose lung fibrosis occurs. Acute (HP:0011009), subacute (HP:0011011), and chronic (HP:0011010) Hypersensitivity pneumonits may be differentiated. PMID: 23924322, PMID: 27836954.

Comment: Hypersensitivity pneumonitis is the general term. Based on the provoking antigen many different specifying terms are used. PMID 16635083, PMID 15316440, PMID 18051218. Grouped according to the source of antigen, exampels are: Bacteria: Thermophilic actinomycetes => Farmers lung; bagasse workers lung; mushroom workers lung, potato riddlers lung, compost workers lung, ventilation systems lung; Lichtheimia corymbifera => Farmers lung; Acinetobacter, Ochrobactrum => Metal working fluids lung; Streptomyces albus => Compost workers lung; Klebsiella oxytoca=> Humidifiers lung; Bacillus subtilis enzymes => Detergent industry lung; Mycobacterium avium complex and other nontuberculous mycobacteria => Spa workers lung. Mycobacterium immunogenum => Metal working fluids lung, machine operator´s lung. Fungi: Alternaria alternate => Humidifiers lung, wood workers lung; Aspergillus spp. => Stucco workers lung, tobacco growers lung, malt workers lung; Trichosporon cutaneum => Summer‐type HP; Penicillium glabrum=> Cork workers lung; Pencillium roqueforti => Cheese workers lung; Penicillium verrucosum => Food processors lung; Penicillium camemberti => Food processors lung; Penicillium citreonigrum => Peat moss processing workers lung; Cryptostroma corticale => Maple bark strippers lung, florists lung; Botrytis cinerea => Wine makers lung; Mucor stolonifera => Paprika slicers lung; Rhodotorula => Humidifiers lung. Mushrooms: Shiitaki, Bunashimeji, Pleurotus, Pholiota, Shimeji, Agaricus => Mushroom workers lung. Enzymes: Phytase, subtilisin => Animal feeding lung, cleaners lung. Animal & insect proteins: Avian serum and feather proteins => Bird breeders lung; Rat serum proteins= > Laboratory workers lung; Pearl => Pearl industry lung; Mollusk shell => Nacre industries’ lung; Silk => Textile workers lung; Carmine => Food and cosmetic industries’ lung; Sitophilus granaries => Farmers lung. Plant proteins: Tiger nut => Food processors lung; Legumes (e.g. soy) => Food processors lung; Malt => Food processors lung; Alginate => Seaweed workers lung. Woods: Ramin, pine => Wood workers lung, Esparto dust => Stucco workers lung Low molecular weight chemicals: Diisocyanates => Chemical and polyurethane industry, painters lung; Acid anhydrides => Plastic workers lung, aircraft industries’ lung; Acrylate compounds = > Dental technicians lung; Triglycidyl isocyanurate => Painters lung (powder paint) Pharmaceutical agents: penicillins, cephalosporins => Pharmaceutical industry’s lung; Dimethyl phthalate and styrene => Yacht manufacturing lung Metals: Cobalt => Hard‐metal workers lung; Zinc => Smelters lung; Zirconium => Ceramic workers lung.

=> I suggest to make a term for each "disease"

nicolevasilevsky commented 4 years ago

@mgriese we would add diseases to Mondo, not HPO.

@pnrobinson and @cmungall any objections to adding these diseases to Mondo? It looks like we have a few of them already: image

I will make a ticket in Mondo

pnrobinson commented 4 years ago

@nicolevasilevsky @GrieseAG @cmungall I agree that we should add the subtypes to MONDO. The HPO term can remain to refer to the typical phenotypic manifestation, although in the fullness of time we need to link this to the Mondo term as well. @nicolevasilevsky Please close this issue as soon as we have linked to MONDO!

pnrobinson commented 4 years ago

I have linked this to the Mondo tracker, closing here. (https://github.com/monarch-initiative/mondo/issues/1821)