diff --git a/src/ontology/duo.owl b/src/ontology/duo.owl deleted file mode 100644 index b44abc4..0000000 --- a/src/ontology/duo.owl +++ /dev/null @@ -1,2048 +0,0 @@ - - - - - - Stephanie Dyke - Giselle Kerry - Moran Ncabili - J. Neil Otte - Gregory Rushton - David An - Cooper Stansbury - Dylan Spalding - Melanie Courtot - - - - - - - - - - - - - DUO_preferred_label - - - - - - - - - - - - - - definition - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - is_restricted_to - A is restricted to B iff A is a consent code and B is an investigation and A may only participate in instances of a class C, of which B is an instance. - J. Neil Otte - E.g. A dataset is restricted to an instance of an investigation for a specific disease or at geographical location. - DUO:0000010 - is restricted to - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - A disease is a disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism. [url:http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf ] - DOID:4 - disease - - - - - - - - - consent code - A data item that is used to indicate consent permissions for datasets and/or materials, and relates to the purposes for which datasets and/or material might be removed, stored or used. - DUO:0000001 - consent code - - - - - - - - - consent code primary category - A categorical data item indicating the primary category the consent code belongs to according to Dyke et al. 2016. - DUO:0000002 - consent code primary category - - - - - - - - - consent code secondary category - A categorical data item indicating the secondary category the consent code belongs to according to Dyke et al. 2016. - DUO:0000003 - consent code secondary category - - - - - - - - - no restriction - This consent code primary category indicates there is no restriction on use. - DUO:0000004 - Note: the NRES alternative term may be confusing as in the UK it also stands for National Research Ethics Service - no restriction - - - - - - - - - general research use and clinical care - This primary category consent code indicates that use is allowed for health/medical/biomedical purposes and other biological research, including the study of population origins or ancestry. - DUO:0000005 - general research use and clinical care - - - - - - - - - health/medical/biomedical research and clinical care - This primary category consent code indicates that use is allowed for health/medical/biomedical purposes; does not include the study of population origins or ancestry. - health medical biomedical research and clinical care - DUO:0000006 - health or medical or biomedical research and clinical care - - - - - - - - - - - - - - - disease-specific research and clinical care - This primary category consent code indicates that use is allowed provided it is related to the specified disease. - DUO:0000007 - disease specific research and clinical care - - - - - - - - - population origins or ancestry research - This primary category consent code indicates that use of the data is limited to the study of population origins or ancestry. - population origins/ancestry research - DUO:0000011 - population origins or ancestry research - - - - - - - - - - - - - - - research-specific restrictions - This secondary category consent code indicates that use is limited to studies of a certain research type. - DUO:0000012 - research specific restrictions - - - - - - - - - research use only - This secondary category consent code indicates that use is limited to research purposes (e.g., does not include its use in clinical care). - DUO:0000014 - research use only - - - - - - - - - no general methods research - This secondary category consent code indicates that use includes methods development research(e.g., development of software or algorithms) only within the bounds of other use limitations. - DUO:0000015 - no general methods research - - - - - - - - - genetic studies only - This secondary category consent code indicates that use is limited to genetic studies only (i.e., no phenotype-only research) - DUO:0000016 - genetic studies only - - - - - - - - - data use requirements - Requirements indicate additional conditions set for use. - DUO:0000017 - data use requirements - - - - - - - - - not-for-profit use only - This requirement indicates that use is limited to not-for-profit organizations. - DUO:0000018 - not for profit use only - - - - - - - - - publication required - This requirement indicates that requestor agrees to make results of studies using the data available to the larger scientific community. - DUO:0000019 - publication required - - - - - - - - - collaboration required - This requirement indicates that the requestor must agree to collaboration with the primary study investigator(s). - DUO:0000020 - collaboration required - - - - - - - - - ethics approval required - This requirement indicates that the requestor must provide documentation of local IRB/ERB approval. - DUO:0000021 - ethics approval required - - - - - - - - - - - - - - - geographical restriction - This requirement indicates that use is limited to within a specific geographic region. - DUO:0000022 - geographical restriction - - - - - - - - - publication moratorium - This requirement indicates that requestor agrees not to publish results of studies until a specific date - publication embargo - DUO:0000024 - publication moratorium - - - - - - - - - time limit on use - This requirement indicates that use is approved for a specific number of months. - DUO:0000025 - time limit on use - - - - - - - - - user-specific restriction - This requirement indicates that use is limited to use by approved users. - DUO:0000026 - user specific restriction - - - - - - - - - project-specific restriction - This requirement indicates that use is limited to use within an approved project. - DUO:0000027 - project specific restriction - - - - - - - - - institution-specific restriction - This requirement indicates that use is limited to use within an approved institution. - DUO:0000028 - institution specific restriction - - - - - - - - - return to database/resource - This requirement indicates that the requestor must return derived/enriched data to the database/resource. - DUO:0000029 - RTN - return to database or resource - - - - - - - - - method development - An investigation concerning development of methods, algorithms, software or analytical tools. - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000031 - method development - - - - - - - - - population research - An investigation concerning a specific population group. - Should be paired with the an ontology term representing this population (e.g., xxx). - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000032 - population research - - - - - - - - - ancestry research - An investigation concerning ancestry or population origins. - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000033 - ancestry research - - - - - - - - - age category research - An investigation concerning specific age categories. - Should be paired with the an ontology term representing this population (e.g., xxx). - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000034 - age category research - - - - - - - - - gender category research - An investigation concerning specific gender categories. - Should be paired with the an ontology term representing this population (e.g., xxx). - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000035 - gender category research - - - - - - - - - research control - An investigation concerning use of data as reference or control material. - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000036 - research control - - - - - - - - - biomedical research - An investigation concerning health, medical, or biomedical research. - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000037 - biomedical research - - - - - - - - - genetic research - Biomedical research concerning genetics (i.e., the study of genes, genetic variations and heredity). - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000038 - genetic research - - - - - - - - - drug development research - Biomedical research concerning drug development. - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000039 - drug development research - - - - - - - - - disease category research - Biomedical research concerning specific a disease or diseases. - This definition is a placeholder as a result of meetings at ICBO2018. - DUO_0000040 - disease category research - - - - - - - - - GAZ:00000448 - geographic location - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - A category denoting a rather broad domain or field of interest, study, application, work, data, or technology. Topics have no clearly defined borders between each other. - topic:0003 - Topic - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -