@conference {W11-07, title = {W11-07: IC3-Foods: An infrastructure for the next generation internet of food systems, food, and health.}, booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)}, series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)}, year = {2016}, month = {11/30/16}, publisher = {CEUR-ws.org Volume 1747}, organization = {CEUR-ws.org Volume 1747}, abstract = {IC3-FOODS, The International Conference/Consortium/Center for Food Ontology, Operability, Data and Semantics, is a new effort at UC Davis, assembling ontological and semantic infrastructure components for next generation internet of food and health. It consists of 3 specific efforts: i) The International Conference for FOODS assembles stakeholders desiring to integrate data and informatics systems currently residing along the Environment<=>Ag<=>Food<=>Diet<=>Health knowledge spectrum, into the: ii) International Consortium of FOODS, which maintains membership of representative stakeholders from academia, industry and (non-)governmental organizations to guide research priorities and development trajectories carried out by: iii) The International Center for FOODS, whose mission consists of hosting the IConference--FOODS, administering the I-Consortium-FOODS, and designing, assembling, and coordinating ontological and infrastructure underpinnings for the emerging semantic web of ag, food, diet, and health.}, url = {http://icbo.cgrb.oregonstate.edu/}, author = {Matthew Lange} } @conference {W11-02, title = {W11-02: International Efforts in Creating Food Vocabularies}, booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)}, series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)}, year = {2016}, month = {11/30/16}, publisher = {CEUR-ws.org Volume 1747}, organization = {CEUR-ws.org Volume 1747}, abstract = {A standardised system for classifying and describing food makes it easier to compare data from different sources and perform more detailed types of data analyses. As such, there have been many agency-specific, project-specific and international efforts to create food vocabularies fit for different purposes. Here we describe the different existing and ongoing efforts.}, url = {http://icbo.cgrb.oregonstate.edu/}, author = {Robert Hoehndorf and Matthew Lange} } @conference {IP28, title = {IP28: uc_FIDO: unambiguous characterization of food interactions with drugs ontology}, booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)}, series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)}, year = {2016}, month = {11/30/16}, publisher = {CEUR-ws.org Volume 1747}, organization = {CEUR-ws.org Volume 1747}, abstract = {

uc_FIDO is an ontology that unambiguously characterizes food interactions with drugs in the human body. This ontology is part of a group of food ontologies describing food and the human experience at the International Center for Food Ontology Operability, Data and Semantics (IC-FOODS) at UC Davis. The first of its kind, uc_FIDO characterizes relations between food, medicine, and human health. uc_FIDO brings together several existing ontologies related to anatomy, metabolic pathways, biological processes, drug ingredients and food structures. Through these ontologies, uc_FIDO annotates relationships between food and drug bioactives, human physiological conditions, and biological reaction pathways. Relationships that link together fully characterize various food interactions with drugs and their effects. The current dearth of ontologies for characterizing foods limits advancement of informatics solutions for improving health. As ontologies of foods are developed, it becomes necessary to describe ingredients, bioactive molecules, potential toxins, and other molecules in food interacting with drugs and the human body.

}, url = {http://ceur-ws.org/Vol-1747/IP28_ICBO2016.pdf}, author = {Constantine Spyrou and Matthew Lange} } @conference {IP15, title = {IP15: uc_Milk: An ontology for scientifically-based unambiguous characterization of mammalian milk, their composition and the biological processes giving rise to their creation}, booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)}, series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)}, year = {2016}, month = {11/30/16}, publisher = {CEUR-ws.org Volume 1747}, organization = {CEUR-ws.org Volume 1747}, abstract = {

Recent efforts in biological ontology go to great lengths to unambiguously categorize biological entities and phenomena of the natural world, as well as their relationships with each other. This paper illustrates the importance of unambiguously characterizing mammalian milk because milk is a complex mixture of many chemical components and thus represents a key role in infant nourishment and development. In addition to the build of a computable knowledge base around mammalian milk, ontological modeling of this aspect of biology and chemistry enable increased understanding of mammalian milk composition and the biological structures and biochemical processes giving rise to their creation. Utilizing unambiguous vocabularies to compare human milk with other mammalian milks relative to the biological and behavioral survival challenges facing varied mammalian organisms and the phenotypic qualities each milk confers, is a fundamental goal of this project.

}, url = {http://ceur-ws.org/Vol-1747/IP15_ICBO2016.pdf}, author = {Emeline Colet and Matthew Lange} } @conference {IP14, title = {IP14: Towards designing an ontology encompassing the environment-agriculture-food-diet-health knowledge spectrum for food system sustainability and resilience.}, booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)}, series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)}, year = {2016}, month = {11/30/16}, publisher = {CEUR-ws.org Volume 1747}, organization = {CEUR-ws.org Volume 1747}, abstract = {

Feeding 9 billion people is not solely a matter of food, health, nutrition, and the environment. Promoting human health by increasing the sustainability and resilience of food systems requires integrating information from a broad range of disciplines from human nutrition/health systems and agricultural/natural systems to social, financial, physical and political systems. Ontologies serve to specify common terminologies for critical concepts and relationships within these systems, however very few ontologies have been developed with this interdisciplinary focus. Biological ontologies, whether focused on human physiology, soil quality, or nutritional value are only part of the story when it comes to determining linkages throughout the food system that help determine human health and well-being. We seek to build an ontology of food and food systems that encompasses the relevant sustainability issues in their entirety. We have already built an ontology of sustainable sourcing of agricultural raw materials issues and indicators, but aim to expand our ontology to include attributes of resilience, and other issues along the environment-agriculture-food-diet-health knowledge spectrum. Additionally, we aim to create this ontology with the intention of quick usability for the food system decision-maker.

}, url = {http://ceur-ws.org/Vol-1747/IP14_ICBO2016.pdf}, author = {Ruthie Musker and Matthew Lange and Allan Hollander and Patrick Huber and Nathaniel Springer and Courtney Riggle and James Quinn and Thomas Tomich} } @conference {IP13, title = {IP13: uc_Eating: Ontology for unambiguous characterization of eating and food habits}, booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)}, series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)}, year = {2016}, month = {11/30/16}, publisher = {CEUR-ws.org Volume 1747}, organization = {CEUR-ws.org Volume 1747}, abstract = {

The uc_Eating ontology is a standardized unambiguous characterization system for modeling human food habits and eating processes. The uc_Eating ontology along with the physiological, environmental, behavioral, and food ontologies it maps to, provide an infrastructure for annotating the relationships between food, food consumption, eating behaviors, and environments creating a foundation for computable knowledge bases around food and beverage consumption scenarios, their observation, interrogation, and manipulation at biological, behavioral, and environmental levels.

}, url = {http://ceur-ws.org/Vol-1747/IP13_ICBO2016.pdf}, author = {Kimiya Taji and Matthew Lange} } @conference {IP11, title = {IP11: Uc_Sense: An Ontology for Scientifically-based Unambiguous Characterization of Sensory Experiences}, booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)}, series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)}, year = {2016}, month = {11/30/16}, publisher = {CEUR-ws.org Volume 1747}, organization = {CEUR-ws.org Volume 1747}, abstract = {

Recent efforts in biological ontology go to great lengths to unambiguously categorize biological entities and phenomena of the natural world, as well as their relationships with each other. This paper illustrates the importance of unambiguously characterizing the perception of entities relative to biological apparati required for specific modes of sensing, physiological conduction of sensed experiences, along with subjective interpretation and communication of sensed experiences. In addition to building a computable knowledge base around existing sensory science, ontological modelling of this aspect of biology will enable an increased understanding about alternate perceptions of identical stimuli. Leveraging this understanding to modulate desired behavior toward increased health and happiness outcomes is a fundamental goal of this project.

}, url = {http://ceur-ws.org/Vol-1747/IP11_ICBO2016.pdf}, author = {Aaron Baer and Matthew Lange} } @conference {BIT104, title = {BIT104: Cardiovascular Health and Physical Activity: A Model for Health Promotion and Decision Support Ontologies}, booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)}, series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)}, year = {2016}, month = {11/30/16}, publisher = {CEUR-ws.org Volume 1747}, organization = {CEUR-ws.org Volume 1747}, abstract = {

Current cardiovascular disease decision support systems (DSS) rely primarily on ontologies that characterize and quantify disease, recommending appropriate pharmacotherapy (PT) and/or surgical interventions (SI). PubMed and Google Scholar searches reveal no specific ontologies or literature related to DSS for recommending physical activity (PA) and diet interventions (DI) for cardiovascular health and fitness (CVHF) improvement. This dearth of CVHF-PA/DI structured knowledge repositories has resulted in a scarcity of user-friendly tools for scientifically validated information retrieval about CVHF improvement. Advancement of health science depends on timely development and implementation of health (rather than disease) ontologies. We developed a time-efficient workflow for constructing/maintaining structured knowledge repositories capable of providing informational underpinnings for CVHF- PA/DI ontologies and DSS that support health promotion, including precise, personalized exercise prescription. This workflow creates conceptual lattices about effects of varied PA on CVHF. These conceptual maps lay the foundation for accelerated creation of health-focused ontologies, which ultimately equip DSS with CVHF knowledge related PA and DI.

}, url = {http://ceur-ws.org/Vol-1747/BIT104_ICBO2016.pdf}, author = {Vimala Ponna and Aaron Baer and Matthew Lange} }