[ { "phenotype_id": "PH4163", "phenotype_version_id": 9381, "name": "Infections of the digestive system", "definition": "Infections of the digestive system\n\nUKB baseline self reported fields.\n", "implementation": "The earliest record across all sources is obtained.\n", "publications": [ { "doi": "https://doi.org/10.1038/s41598-025-05838-9", "details": "Torralbo, Ana and Davitte, Jonathan M. and Croteau-Chonka, Damien C. and Ytsma, Cai R. and Tomlinson, Christopher and Fitzpatrick, Natalie and Chung, Sheng-Chia and Fatemifar, Ghazaleh and Cortes, Adrian S. and Richardson, Tom G. and Barclay, Matthew and Carrasco Zanini Sanchez, Julia and Finan, Chris and Hemingway, Harry and Hingorani, Aroon D. and Kuan Po Ai, Valerie and Langenberg, Claudia and Lyratzopoulos, Georgios and Lumbers, Tom and Pietzner, Maik and Shah, Anoop Dinesh and Thygesen, Johan Hilge and Zelenka, Natalie and Whittaker, John C. and Ehm, Margaret G. and Denaxas, Spiros, A Computational Framework for Defining and Validating Reproducible Phenotyping Algorithms of 313 Diseases in the UK Biobank.", "primary": true } ], "validation": "Phenotypes underwent a multi\\-layered validation approach that included a) evaluating data source concordance, b) age\\-sex incidence and baseline prevalence patterns, c) an external comparison to a representative and unselected UK EHR dataset, d) modifiable risk factor associations, and e) genetic correlations with external genome\\-wide association studies (GWAS). Results showed consistent disease distributions by age and sex, high ranked correlation with general population prevalence estimates, confirmed risk factor associations, and significant genetic correlations with external GWAS.\n", "citation_requirements": null, "created": "2026-06-08T20:09:08.369919Z", "author": "Torralbo, A; Davitte, J M; Croteau-Chonka, D C; Ytsma, C; Tomlinson, C; Fitzpatrick, N K; Chung, S C; Fatemifar, G; Cortes, A S; Richardson, T G; Barclay, M; Carrasco Zanini, J; Finan, C; Hemingway, H; Hingorani, A; Kuan, V; Langenberg, C; Lyratzopoulos, G; Lumbers, R T; Pietzner, M; Shah, A D; Thygesen, J H; Zelenka, N; Whittaker, J C; Ehm, M G; Denaxas, S", "collections": [ { "name": "Phenotype Library", "value": 18 }, { "name": "UK Biobank", "value": 32 } ], "tags": null, "organisation": null, "world_access": 1, "updated": "2026-06-08T20:09:08.365645Z", "sex": [ { "name": "Both", "value": "3" } ], "type": [ { "name": "Disease or syndrome", "value": "2" } ], "trials": null, "ontology": [ { "name": "Infection of digestive system (disorder)", "value": 551221 } ], "phenoflowid": null, "data_sources": [ { "name": "UK Biobank", "value": 13, "uid": "6a9f93ad-2434-41d9-93bf-6e9d2eee04e5", "url": "https://healthdatagateway.org/en/dataset/700", "datasource_id": 700 }, { "name": "Patient Episode Dataset for Wales (PEDW)", "value": 40, "uid": "4c33a5d2-164c-41d7-9797-dc2b008cc852", "url": "https://healthdatagateway.org/en/dataset/318", "datasource_id": 318 }, { "name": "Scottish Cancer Registry (SMR06)", "value": 417, "uid": "ad36dc03-1856-44de-99b0-1af6f312d86b", "url": "https://healthdatagateway.org/en/dataset/79", "datasource_id": 79 }, { "name": "Cancer Registration Data", "value": 788, "uid": "6904a2ff-ab44-4dd6-b9ec-25d3cad29e43", "url": "https://healthdatagateway.org/en/dataset/880", "datasource_id": 880 } ], "endorsements": null, "project_name": null, "coding_system": [ { "name": "UKBioBank codes", "value": 12 }, { "name": "ICD10 codes", "value": 4 } ], "corresp_author": "Ana Torralbo", "event_date_range": null, "concept_information": [ { "concept_id": 10019, "concept_version_id": 17504, "concept_name": "Non-cancer illness code, self-reported", "coding_system": { "id": 12, "name": "UKBioBank codes", "description": "UKBioBank codes" }, "phenotype_id": "PH4163", "phenotype_version_id": 9381, "phenotype_name": "Infections of the digestive system", "code_attribute_header": [ "type" ], "codes": [ { "code": "1442", "description": "helicobacter pylori", "attributes": { "type": "any" } }, { "code": "1577", "description": "typhoid fever", "attributes": { "type": "any" } }, { "code": "1675", "description": "giardia / giardiasis", "attributes": { "type": "any" } } ] }, { "concept_id": 10020, "concept_version_id": 17505, "concept_name": "Diagnoses - main ICD10", "coding_system": { "id": 4, "name": "ICD10 codes", "description": "ICD10 Codes" }, "phenotype_id": "PH4163", "phenotype_version_id": 9381, "phenotype_name": "Infections of the digestive system", "code_attribute_header": [ "type" ], "codes": [ { "code": "A00", "description": "Cholera", "attributes": { "type": "any" } }, { "code": "A01", "description": "Typhoid and paratyphoid fevers", "attributes": { "type": "any" } }, { "code": "A02.0", "description": "Salmonella enteritis", "attributes": { "type": "any" } }, { "code": "A03", "description": "Shigellosis", "attributes": { "type": "any" } }, { "code": "A04", "description": "Other bacterial intestinal infections", "attributes": { "type": "any" } }, { "code": "A05", "description": "Other bacterial foodborne intoxications, not elsewhere classified", "attributes": { "type": "any" } }, { "code": "A06.0", "description": "Acute amoebic dysentery", "attributes": { "type": "any" } }, { "code": "A06.1", "description": "Chronic intestinal amoebiasis", "attributes": { "type": "any" } }, { "code": "A06.2", "description": "Amoebic nondysenteric colitis", "attributes": { "type": "any" } }, { "code": "A06.3", "description": "Amoeboma of intestine", "attributes": { "type": "any" } }, { "code": "A07", "description": "Other protozoal intestinal diseases", "attributes": { "type": "any" } }, { "code": "A08", "description": "Viral and other specified intestinal infections", "attributes": { "type": "any" } }, { "code": "A09", "description": "Other gastroenteritis and colitis of infectious and unspecified origin", "attributes": { "type": "any" } }, { "code": "A18.3", "description": "Tuberculosis of intestines, peritoneum and mesenteric glands", "attributes": { "type": "any" } }, { "code": "A21.3", "description": "Gastrointestinal tularaemia", "attributes": { "type": "any" } }, { "code": "A22.2", "description": "Gastrointestinal anthrax", "attributes": { "type": "any" } }, { "code": "B05.4", "description": "Measles with intestinal complications", "attributes": { "type": "any" } }, { "code": "B46.2", "description": "Gastrointestinal mucormycosis", "attributes": { "type": "any" } }, { "code": "B78.0", "description": "Intestinal strongyloidiasis", "attributes": { "type": "any" } }, { "code": "B81", "description": "Other intestinal helminthiases, not elsewhere classified", "attributes": { "type": "any" } }, { "code": "B82", "description": "Unspecified intestinal parasitism", "attributes": { "type": "any" } }, { "code": "B98.0", "description": "Helicobacter pylori [H.pylori] as the cause of diseases classified to other chapters", "attributes": { "type": "any" } }, { "code": "K23.0", "description": "Tuberculous oesophagitis", "attributes": { "type": "any" } }, { "code": "K23.1", "description": "Megaoesophagus in Chagas' disease", "attributes": { "type": "any" } }, { "code": "K63.0", "description": "Abscess of intestine", "attributes": { "type": "any" } }, { "code": "K93.0", "description": "Tuberculous disorders of intestines, peritoneum and mesenteric glands", "attributes": { "type": "any" } } ] }, { "concept_id": 10021, "concept_version_id": 17506, "concept_name": "Diagnoses - secondary ICD10", "coding_system": { "id": 4, "name": "ICD10 codes", "description": "ICD10 Codes" }, "phenotype_id": "PH4163", "phenotype_version_id": 9381, "phenotype_name": "Infections of the digestive system", "code_attribute_header": [ "type" ], "codes": [ { "code": "A00", "description": "Cholera", "attributes": { "type": "any" } }, { "code": "A01", "description": "Typhoid and paratyphoid fevers", "attributes": { "type": "any" } }, { "code": "A02.0", "description": "Salmonella enteritis", "attributes": { "type": "any" } }, { "code": "A03", "description": "Shigellosis", "attributes": { "type": "any" } }, { "code": "A04", "description": "Other bacterial intestinal infections", "attributes": { "type": "any" } }, { "code": "A05", "description": "Other bacterial foodborne intoxications, not elsewhere classified", "attributes": { "type": "any" } }, { "code": "A06.0", "description": "Acute amoebic dysentery", "attributes": { "type": "any" } }, { "code": "A06.1", "description": "Chronic intestinal amoebiasis", "attributes": { "type": "any" } }, { "code": "A06.2", "description": "Amoebic nondysenteric colitis", "attributes": { "type": "any" } }, { "code": "A06.3", "description": "Amoeboma of intestine", "attributes": { "type": "any" } }, { "code": "A07", "description": "Other protozoal intestinal diseases", "attributes": { "type": "any" } }, { "code": "A08", "description": "Viral and other specified intestinal infections", "attributes": { "type": "any" } }, { "code": "A09", "description": "Other gastroenteritis and colitis of infectious and unspecified origin", "attributes": { "type": "any" } }, { "code": "A18.3", "description": "Tuberculosis of intestines, peritoneum and mesenteric glands", "attributes": { "type": "any" } }, { "code": "A21.3", "description": "Gastrointestinal tularaemia", "attributes": { "type": "any" } }, { "code": "A22.2", "description": "Gastrointestinal anthrax", "attributes": { "type": "any" } }, { "code": "B05.4", "description": "Measles with intestinal complications", "attributes": { "type": "any" } }, { "code": "B46.2", "description": "Gastrointestinal mucormycosis", "attributes": { "type": "any" } }, { "code": "B78.0", "description": "Intestinal strongyloidiasis", "attributes": { "type": "any" } }, { "code": "B81", "description": "Other intestinal helminthiases, not elsewhere classified", "attributes": { "type": "any" } }, { "code": "B82", "description": "Unspecified intestinal parasitism", "attributes": { "type": "any" } }, { "code": "B98.0", "description": "Helicobacter pylori [H.pylori] as the cause of diseases classified to other chapters", "attributes": { "type": "any" } }, { "code": "K23.0", "description": "Tuberculous oesophagitis", "attributes": { "type": "any" } }, { "code": "K23.1", "description": "Megaoesophagus in Chagas' disease", "attributes": { "type": "any" } }, { "code": "K63.0", "description": "Abscess of intestine", "attributes": { "type": "any" } }, { "code": "K93.0", "description": "Tuberculous disorders of intestines, peritoneum and mesenteric glands", "attributes": { "type": "any" } } ] }, { "concept_id": 10022, "concept_version_id": 17507, "concept_name": "Underlying (primary) cause of death: ICD10", "coding_system": { "id": 4, "name": "ICD10 codes", "description": "ICD10 Codes" }, "phenotype_id": "PH4163", "phenotype_version_id": 9381, "phenotype_name": "Infections of the digestive system", "code_attribute_header": [ "type" ], "codes": [ { "code": "A00", "description": "Cholera", "attributes": { "type": "any" } }, { "code": "A01", "description": "Typhoid and paratyphoid fevers", "attributes": { "type": "any" } }, { "code": "A02.0", "description": "Salmonella enteritis", "attributes": { "type": "any" } }, { "code": "A03", "description": "Shigellosis", "attributes": { "type": "any" } }, { "code": "A04", "description": "Other bacterial intestinal infections", "attributes": { "type": "any" } }, { "code": "A05", "description": "Other bacterial foodborne intoxications, not elsewhere classified", "attributes": { "type": "any" } }, { "code": "A06.0", "description": "Acute amoebic dysentery", "attributes": { "type": "any" } }, { "code": "A06.1", "description": "Chronic intestinal amoebiasis", "attributes": { "type": "any" } }, { "code": "A06.2", "description": "Amoebic nondysenteric colitis", "attributes": { "type": "any" } }, { "code": "A06.3", "description": "Amoeboma of intestine", "attributes": { "type": "any" } }, { "code": "A07", "description": "Other protozoal intestinal diseases", "attributes": { "type": "any" } }, { "code": "A08", "description": "Viral and other specified intestinal infections", "attributes": { "type": "any" } }, { "code": "A09", "description": "Other gastroenteritis and colitis of infectious and unspecified origin", "attributes": { "type": "any" } }, { "code": "A18.3", "description": "Tuberculosis of intestines, peritoneum and mesenteric glands", "attributes": { "type": "any" } }, { "code": "A21.3", "description": "Gastrointestinal tularaemia", "attributes": { "type": "any" } }, { "code": "A22.2", "description": "Gastrointestinal anthrax", "attributes": { "type": "any" } }, { "code": "B05.4", "description": "Measles with intestinal complications", "attributes": { "type": "any" } }, { "code": "B46.2", "description": "Gastrointestinal mucormycosis", "attributes": { "type": "any" } }, { "code": "B78.0", "description": "Intestinal strongyloidiasis", "attributes": { "type": "any" } }, { "code": "B81", "description": "Other intestinal helminthiases, not elsewhere classified", "attributes": { "type": "any" } }, { "code": "B82", "description": "Unspecified intestinal parasitism", "attributes": { "type": "any" } }, { "code": "B98.0", "description": "Helicobacter pylori [H.pylori] as the cause of diseases classified to other chapters", "attributes": { "type": "any" } }, { "code": "K23.0", "description": "Tuberculous oesophagitis", "attributes": { "type": "any" } }, { "code": "K23.1", "description": "Megaoesophagus in Chagas' disease", "attributes": { "type": "any" } }, { "code": "K63.0", "description": "Abscess of intestine", "attributes": { "type": "any" } }, { "code": "K93.0", "description": "Tuberculous disorders of intestines, peritoneum and mesenteric glands", "attributes": { "type": "any" } } ] }, { "concept_id": 10023, "concept_version_id": 17508, "concept_name": "Contributory (secondary) causes of death: ICD10", "coding_system": { "id": 4, "name": "ICD10 codes", "description": "ICD10 Codes" }, "phenotype_id": "PH4163", "phenotype_version_id": 9381, "phenotype_name": "Infections of the digestive system", "code_attribute_header": [ "type" ], "codes": [ { "code": "A00", "description": "Cholera", "attributes": { "type": "any" } }, { "code": "A01", "description": "Typhoid and paratyphoid fevers", "attributes": { "type": "any" } }, { "code": "A02.0", "description": "Salmonella enteritis", "attributes": { "type": "any" } }, { "code": "A03", "description": "Shigellosis", "attributes": { "type": "any" } }, { "code": "A04", "description": "Other bacterial intestinal infections", "attributes": { "type": "any" } }, { "code": "A05", "description": "Other bacterial foodborne intoxications, not elsewhere classified", "attributes": { "type": "any" } }, { "code": "A06.0", "description": "Acute amoebic dysentery", "attributes": { "type": "any" } }, { "code": "A06.1", "description": "Chronic intestinal amoebiasis", "attributes": { "type": "any" } }, { "code": "A06.2", "description": "Amoebic nondysenteric colitis", "attributes": { "type": "any" } }, { "code": "A06.3", "description": "Amoeboma of intestine", "attributes": { "type": "any" } }, { "code": "A07", "description": "Other protozoal intestinal diseases", "attributes": { "type": "any" } }, { "code": "A08", "description": "Viral and other specified intestinal infections", "attributes": { "type": "any" } }, { "code": "A09", "description": "Other gastroenteritis and colitis of infectious and unspecified origin", "attributes": { "type": "any" } }, { "code": "A18.3", "description": "Tuberculosis of intestines, peritoneum and mesenteric glands", "attributes": { "type": "any" } }, { "code": "A21.3", "description": "Gastrointestinal tularaemia", "attributes": { "type": "any" } }, { "code": "A22.2", "description": "Gastrointestinal anthrax", "attributes": { "type": "any" } }, { "code": "B05.4", "description": "Measles with intestinal complications", "attributes": { "type": "any" } }, { "code": "B46.2", "description": "Gastrointestinal mucormycosis", "attributes": { "type": "any" } }, { "code": "B78.0", "description": "Intestinal strongyloidiasis", "attributes": { "type": "any" } }, { "code": "B81", "description": "Other intestinal helminthiases, not elsewhere classified", "attributes": { "type": "any" } }, { "code": "B82", "description": "Unspecified intestinal parasitism", "attributes": { "type": "any" } }, { "code": "B98.0", "description": "Helicobacter pylori [H.pylori] as the cause of diseases classified to other chapters", "attributes": { "type": "any" } }, { "code": "K23.0", "description": "Tuberculous oesophagitis", "attributes": { "type": "any" } }, { "code": "K23.1", "description": "Megaoesophagus in Chagas' disease", "attributes": { "type": "any" } }, { "code": "K63.0", "description": "Abscess of intestine", "attributes": { "type": "any" } }, { "code": "K93.0", "description": "Tuberculous disorders of intestines, peritoneum and mesenteric glands", "attributes": { "type": "any" } } ] } ], "status": 1, "doi": "https://doi.org/10.48533/fp6a-9930", "is_deleted": false, "publish_status": 2, "owner": "ieuan.scanlon", "template": { "id": 2, "name": "BHF Data Science Centre Phenotype", "description": "BHF Data Science Centre Phenotype definitions that describe a list of clinical codes, algorithms using clinical codes, or set of clinical trials. Visit the BHF Data Science Centre website to learn more: https://bhfdatasciencecentre.org", "version_id": 1 }, "versions": [ { "version_id": 9381, "version_name": "Infections of the digestive system", "version_date": "2026-06-08T20:09:08.375299Z", "is_published": true, "is_latest": true } ] } ]