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The goal of DDI project is to develop an ontology for the description of drug discovery investigations. DDI aims to follow to the OBO (Open Biomedical Ontologies) Foundry principles, uses relations laid down in the OBO Relation Ontology, and be compliant with Ontology for biomedical investigations (OBI).

Da Qi, Larisa Soldatova, Ross King, Andrew Hopkins, Richard Bickerton

Beta cell genomics database provides searches and tools to explore detailed information about genes, transcripts, gene interactions, genomic regions, and beta cell related functional genomics studies.

Beta Cell Biology Consortium

The BioAssay Ontology (BAO) is an NIH-funded project to develop standard terminologies and a formal, extensible, knowledge-based description of biological assays and assay data (the ontology). Biocuration is a component of the BAO project to systematically annotate biological assays such as those in PubChem with standardized terminology describing assay concepts defined in the ontology. The BAO project also develops software tools to query and explore data sets in the context of the ontology.

The Bioinformatics Web Services ontology (OBIws) is an ontology that extends the Ontology for Biomedical Investigations (OBI) to build an Ontology that supports consistent annotation of Bioinformatics Web services.

Jie Zheng, Alok Dhamanaskar

The Blood Ontology is a set of co-related ontologies being created to gather and represent data about blood according to well-founded ontological principles.

HTLV Interdisciplinar Research Group

The Darwin Core is body of standards. It includes a glossary of terms (in other contexts these might be called properties, elements, fields, columns, attributes, or concepts) intended to facilitate the sharing of information about biological diversity by providing reference definitions, examples, and commentaries. The Darwin Core is primarily based on taxa, their occurrence in nature as documented by observations, specimens, and samples, and related information.

TDWG Darwin Core Task Group

The project is the Decision Support System for the Elderly. It uses the Geriatrics ontology on top of BFO to define classes and properties.

Shubhnkar Upadhyay(shubhnkar123988@nitp.ac.in), Kumar Abhishek(kumar.abhishek@nitp.ac.in)

The eagle-i project is building a searchable network of research resources at research institutions nationwide. We are developing an application ontology for indexing and querying, and this effort is being guided by discussions within the ontology community aimed at promoting interoperability. We will be inventorying laboratories, services, instruments, services, reagents, organisms, persons, protocols, human studies (metadata), tissue/biological sample repositories and training opportunities. The eagle-i application ontology is being used to drive our data tool and search applications, and is available in beta form from google code:http://code.google.com/p/eagle-i/

Melissa Haendel, Carlo Torniai

Project that develops an ontology to support the research within the European NanoSafety Cluster.

Egon Willighagen

ImmPort, the Immunology Database and Analysis Portal, is a one stop shop to access reference and experiment data for immunologists. ImmPort provides advanced information technology support in the production, analysis, archiving, and exchange of scientific data for the diverse community of life science researchers supported by NIAID/DAIT.

Richard H. Scheuermann, et al.

The mission of the Influenza Research Database (IRD) is to provide a resource for the influenza virus research community that will facilitate an understanding of the influenza virus and how it interacts with the host organism, leading to new treatments and preventive actions. This resource will contain avian and non-human mammalian influenza surveillance data, human clinical data associated with virus extracts, phenotypic characteristics of viruses isolated from extracts, and all genomic and proteomic data available in public repositories for influenza viruses. The resource will link host surveillance and clinical data to sequence and phenotypic data for all well characterized influenza virus strains. Data obtained from public data sources for well characterized virus strains will be supplemented with IRD generated data. The IRD will provide a suite of tools for analysis of all types of influenza data and a personal work bench on which each scientist can store lists of important data selected from that available on IRD.

Richard H. Scheuermann, et al.

The Knowledge Grid is infrastructure to support community-based knowledge management and sharing within the context of the Learning Health System

Dr. Charles P. Friedman, Dr. Allen Flynn

The Mental Functioning Ontology is an ontology for mental functioning, including mental processes such as cognition and traits such as intelligence, and related diseases and disorders. It is developed in the context of the Ontology for General Medical Science and the Basic Formal Ontology. The project is being developed in collaboration between the University of Geneva, Switzerland, and the University at Buffalo, USA.

Janna Hastings, Werner Ceusters, Barry Smith, Kevin Mulligan

NEMO is developing ontologies for representation and integration of event-related brain potentials (ERPs). To support this work, we are developing an integrated tool environment for storage and management of ERP data, ontologies, and ontology-based markup and analysis of data.

NEMO core (Gwen Frishkoff, Robert Frank, Paea LePendu, Haishan Liu, Dejing Dou, Allen Malony, Jason Sydes, Nathan Dunn); NEMO ERP Consortium (Gwen Frishkoff, Tim Curran, Dennis Molfese, John Connolly, Kerry Kilborn, Chuck Perfetti)

The NGSOnto ontology aims at capturing the workflow of all the processes involved , in order to ensure the reproducibility of the entire process, through the use of a controled and specific vocabulary.

Ontology based web service for COG enrichment study by using Fisher's exact test.

Yu Lin, Yongqun He, Zuoshuang Xiang

This ontology has been created to provide a consensus representation of salient electronic health record (EHR) data and in order to serve interoperability of the associated data and information systems which deal with obstetric and neonatal care.

fernandafarinelli@eci.ufmg.br

OntoDM is a general-purpose ontology for the domain of data mining. The ontology includes the information processing processes that occur in the domain of data mining, participants in the processes and their specifications. OntoDM is highly transferable and extendable due to its adherence to accepted standards, and compliance with existing ontology resources. The generality in scope allows wide number of applications of the ontology, such as semantic annotation of data mining scenarios, ontology based support for QSARs, etc.

Pance Panov, Saso Dzeroski, Larisa Soldatova

As a precursor aiming to explore the method on discovery, selection, evaluation, conservation, and recycling construction of OA resources, GoOA provides a one-stop platform for the OA journal articles discovery. Plant Diversity Ontology(PDO) constructed by National Science Library of Chinese Academy of Sciences has been applied to support concept retrieval and concept extension for GoOA.

openresources@mail.las.ac.cn

Open PHACTS (Open Pharmacological Concepts Triple Store) is a knowledge management project of the Innovative Medicines Initiative (IMI), a unique partnership between the European Community and the European Federation of Pharmaceutical Industries and Associations (EFPIA).

The Plant Ontology is a controlled vocabulary (ontology) that describes plant anatomical and morphological structures and growth and developmental stages for all plants. The goal of the PO is to establish a semantic framework for meaningful cross-species queries across gene expression and phenotype datasets from plant genomics and genetics experiments.

The aim of the SKELETOME project is to develop a community-driven, ontology-based knowledge curation platform for the skeletal dysplasia domain.

Tudor Groza

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Igor Willighagen, Richard H. Scheuermann, et al. Gwen Frishkoff, Robert Frank, Paea LePendu, Haishan, Pance Panov, Saso Dzeroski

Database and analysis resource for human pathogenic viruses, including sequence, surveillance and host response data.

Richard H. Scheuermann, et al.