Projects

Browse a selection of projects that use BioPortal resources

Project	Description	Contacts	Institutions	Ontologies
Harmonising phenomics information for a better interoperability in the RD field Home Page	are disease (RD) research is a field of medicine increasingly reliant on information technology. Low-cost whole-genome sequencing has revolutionized the...	ordo.orphanet@inserm.fr	ERA-NET Cofund action N° 643578	3
A Treatment For Covid Home Page	The following project leverages the CODO ontology, to provide treatment for a patient suffering from COVID. First and foremost, an...	alessandro.magliacane@hotmail.com	Università della Campania Luigi Vanvitelli	2
A Visualization Tool for Refining Mappings between Biomedical Ontologies Home Page	Ontology alignment, the task of identifying mappings between ontologies, is a key task for knowledge sharing between applications that use...	Watson W.K. Chua, Jung-jae Kim, Bui Duc Hieu	Nanyang Technological University	2
Access of OntoKBCF via a CCR-based EHR prototype Home Page	This is an exploration of introducing molecular genetic information into a simulated clinical setting- a Continuity of Care Record (CCR)...	Xia Jing, Stephen Kay, Nicholas Hardiker, Tom Marley, James Cimino	The University of Salford, NIH	1
ACCORDYS Home Page	In the context of prenatal diagnosis of fetal malformation, knowledge of "similar'' and resolved cases (i.e. previous cases with a...	Jean Charlet, Xavier Aim, Andreea Bodnari, Jean-Michel Daube, Louise Delger, Ferdinand Dhombres, Egle Eensoo, Marie Gonzals, Brigitte Grau, Cyril Grouin, Marie-Christine Jaulent, Thomas Lavergne, Anne-Laure Ligozat, Jrme Mainka, Aurlie Nvol, Yves	Inserm, Paris, France	1
ACEnano Home Page	ACEnano ("Analytical and Characterisation Excellence in nanomaterial risk assessment: a tiered approach") aims to develop a widely implementable and robust...	acenano@edelweissconnect.com		1
ACS-registry Home Page	ACS registry definitions	Gert-Jan Vos MD, PhD	AZN	1
AdaptEHR Home Page	Adaptive EHR (AdaptEHR) is built upon a context-based framework, integrating data from different sources in the patient record and subsequently...		University of California, Los Angeles	3
Adaptive Automated Scientific Laboratory Home Page	The goal of AdaLab (an Adaptive Automated Scientific Laboratory) framework for semi-automated and automated knowledge discovery by teams of human...	Larisa Soldatova	Brunel University	2
ADHD Ontology Home Page	Concepts and rules for the psychological assessment and management of ADHD. Heuristic knowledge for effective psycho-social interventions.	Joachim Diederich	Psychology Network Pty Ltd	0
Adolescent Brain Cognitive Development Study Home Page	The Data Analysis and Informatics Core (DAIC) of the ABCD project is using the RxNORM ontology in REDCap to collect a medication inventory of all its 10,000 participants.	Hauke Bartsch	UC San Diego	1
Adverse Event Reporting Ontology Home Page	The Adverse Event Reporting Ontology (AERO) is an ontology aimed at providing logical representation of adverse events guidelines, increasing quality and accuracy of reported events.	Melanie Courtot		6
agriGO Home Page	The agriGO is an integrated web-based GO analysis toolkit for the agricultural community, using the advantages of our previous GO enrichment tool (EasyGO), to meet analysis demands from new technologies and research objectives.		China Agricultural University	1
AmiGO Home Page	AmiGO is the official web-based set tools for searching and browsing the Gene Ontology database, which consists of a controlled...		Gene Ontology Consortium	1
An integrated approach to the challenge of sustainable food systems: adaptive and mitigatory strategies to address climate change and malnutrition (SYSTEMIC) WP5 Home Page	"The SYSTEMIC network (an integrated approach to the challenge of sustainable food systems: adaptive and mitigatory strategies to address climate...	dupamato@fcna.up.pt		2
An Ontology for Drug Discovery Investigations Home Page	The goal of DDI project is to develop an ontology for the description of drug discovery investigations. DDI aims to...	Da Qi, Larisa Soldatova, Ross King, Andrew Hopkins, Richard Bickerton	Aberystwyth University	5
Anatomic ontology for human lung maturaton Home Page	Anatomic Ontology for Alveolar Development and Maturation in the Human Lung	Helen Pan	RTI International	1
Animal QTL Database Home Page	Animal QTLdb is a database for QTL and SNP/gene association data from chicken, pig, cattle, goat, sheep, horse, and rainbow trout.	bioinfo-team@animalgenome.org	Iowa State University	4
Animal Trait Correlation Database Home Page	CorrDB is a database for heritability and trait correlation data from cattle, chicken, goat, horse, pig, and sheep.	bioinfo-team@animalgenome.org	Iowa State University	4
Annotation on First Authors' Review Articles Home Page	A directory-based search system for review articles written by their first authors. This service is in Japanese, and users can...		DBCLS	1
AnoBase Home Page	AnoBase is a database containing genomic/biological information on anopheline mosquitoes, with an emphasis on Anopheles gambiae, the world's most important...			2
AQUAEXCEL Home Page	AQUAEXCEL aims to integrate key aquaculture research infrastructures across Europe, in order to promote their coordinated use and development.		FP7, Capacities; Research Infrastructures	0
Armadyllo QData Commons Home Page	Armadyllo is an patient-centric open community-curated registry of tools for RD and orphan disease research. We aim to explore mtDNA...	Sophia Boettcher	NA	0
ARRS GoldMiner Home Page	ARRS GoldMiner is a biomedical image search engine.	C. Kahn	American Roentgen Ray Society	3
Ascidian Anatomy and Development Ontology Home Page	The first ontologies describing the anatomy and the development of ascidians.	contact@bioself.fr		10
Assay Annotation Home Page	Excel template uses BAO to annotated data into PubChem's Deposition System. The template provides dropdown lists for fields where the value is allowed (controlled vocabulary).	S. Schurer, U. Vempati, S. Canny, M. Southern	TSRI and UM	1
AstraZeneca HTS annotation Home Page	As a part of the AstraZeneca in kind contribution to the IMI OpenPhacts project, AstraZeneca HTS data is annotated according to the BAO ontology.	L. Zander Balderud, O. Engkvist, M. Bjreland, N. Blomberg	AstraZeneca R&D	1
AWIC Tree Home Page	Animal Use Alternatives Thesaurus Terminology			0
BAOSearch Home Page	BAOSearch is a web-based application for querying, browsing and downloading small molecule biological screening results, including high-throughput screening (HTS) data.BAOSearch...	Mader C, Datar N, Abeyruwan S, Koleti A, Venkatapuram S, Chung C, Puram D, Vempati U, Sakurai K, Przydzial M, Lemmon V, Visser U, Schurer S.	University of Miami	1
Beta Cell Genomics database Home Page	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	University of Pennsylvania	24
Bgee Home Page	Bgee is a database to compare expression patterns between animals. We create homology relationships between anatomical ontologies, and store this...	Robinson-Rechavi lab	Universite de Lausanne	10
Bio.Tools Home Page	Bio.Tools is an open community-curated registry of bioinformatics tools and data resources. It is developed and maintained within the ELIXIR Europe project, in collaboration with the global bioinformatics community.	registry-core@elixir-dk.org	ELIXIR-EXCELERATE WP1, ELIXIR Denmark, ELIXIR France, ELIXIR Norway, ELIXIR Estonia, ELIXIR Czechia, Debian Med community, SEQwiki community, and other communities	1
Bio2RDF Home Page	The Bio2RDF project transforms silos of life science data into a globally distributed network of linked data for biological knowledge discovery.	Michel Dumontier, Peter Ansell, Francois Belleau, Allison Callahan, Jacques Corbeil, Jose Cruz-Toledo, Alex De Leon, Steve Etlinger, James Hogan, Nichealla Keath, Jean Morissette, Marc-Alexandre Nolin, Nicole Tourigny, Philippe Rigault and, Paul Roe	Multi	1
BioAssay Express Home Page	BioAssay Express allows to explore the similarity of assays within and between organizations. browse and group assays based upon meaningful,...	Alex M. Clark, Nadia K. Litterman, Janice E. Kranz, Peter Gund, Kellan Gregory, Barry A. Bunin	Collaborative Drug Discovery	3
BioAssay Ontology Home Page	The BioAssay Ontology (BAO) is an NIH-funded project to develop standard terminologies and a formal, extensible, knowledge-based description of biological...		University of Miami	6
Biochemical Substructure Ontology Home Page	Biochemical Substructure Ontology			0
Bioconductor Home Page	Bioconductor is an open source, open development software project to provide tools for the analysis and comprehension of high-throughput genomic data. It is based primarily on the R programming language.			1
biocVI Home Page	Document Triage: Identify relevant PubMed citations describing genetic mutations affecting protein-protein interactions, and Relation Extraction: Extract experimentally verified PPI affected by the presence of a genetic mutation.			1
Biodiversity Ontology Home Page	OntoBio is a biodiversity ontology developed by INPA and being jointly expanded by us at ICMC-USP. Its main objective is...	Flor Karina Mamani	University of São Paulo (USP), National Institute for Amazonian Research (INPA)	0
BioImage Informatics Index Home Page	BIII (BioImage Informatics Index, biii.eu) is an open community registry of tools, workflows, and training materials for bioimage analysis, developed...	wg4-edam_ontology@irbbarcelona.org.glip.com, matus.kalas@uib.no	NEUBIAS (Network of EUropean BioImage AnalystS)	1
BioImaging Search Engine Home Page	BISE (BioImaging Search Engine, biii.eu) is an open community registry of tools, workflows, and training materials for bioimage analysis, developed...	wg4-edam_ontology@irbbarcelona.org.glip.com, matus.kalas@uib.no	NEUBIAS (Network of EUropean BioImage AnalystS)	1
Bioinformatics Web Service Ontology Home Page	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	University of Pennsylvania, University of Georgia	4
BioInterchange Home Page	Interchange data using the Resource Description Framework (RDF) and let BioInterchange automagically create RDF triples from your TSV, XML, GFF3,...			1
BioInterchange 2.0 Home Page	BioInterchange 2.0 normalizes your genomic datasets in one canonical data model. That means that data analysis algorithms can be implemented...	kim@codamono.com	CODAMONO, Toronto, Ontario, Canada	1
BioLit Home Page	A web database of open access articles with metadata	Lynn Fink	UCSD	0
Biological Observation Matrix Linked Data Home Page	A mapping from BIOM (HDF5) to Linked Data, with an example dataset and HDF52RDF converter. The long-term aim is to be able to publish big metagenomic data in a Semantic Web friendly way	mikel.egana@ehu.es	UPV/EHU	1
Biomedical Image Ontology Home Page	BIM is an open biomedical image feature ontology, it provides semantic vocabularies to represent the biomedical images and their features....	ahmad chan	university of New Brunswick	0
Biomedical Semantic QA Home Page	Biomedical Semantic QA	mmfalrod@gmail.com	ULisboa	3
BioPAX Home Page	The goal of the BioPAX group is to develop a common exchange format for biological pathways data.The BioPAX project began...			0
BioSimulations Home Page	BioSimulations is a free platform for sharing and re-using biomodels, simulations, and visualizations.	info@biosimulations.org	Center for Reproducible Biomedical Modeling	3
BioSimulators Home Page	BioSimulators is a free collection of containerized biosimulation tools that provide consistent interfaces and a guide to choosing a simulator.	info@biosimulators.org	Center for Reproducible Biomedical Modeling	3
Biositemaps Home Page	The Biositemaps Working Group of the NIH Roadmap National Centers of Biomedical Computing (NCBC) (www.ncbcs.org) has developed technologies to address...		NIH/NCBC	1
BioXSD Home Page	BioXSD defines exchange formats of basic bioinformatics types of data. It is a rich, but not too complicated XML-Schema-based format...	Matus Kalas, Edita Karosiene, Pal Puntervoll, Sveinung Gundersen, Jon Ison, Christophe Blanchet, Kristoffer Rapacki, Inge Jonassen ...	University of Bergen, Danish Technical University, CNRS, EBI ...	1
Blood Ontology Home Page	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	Federal University of Minas Gerais, Hemominas Foundation	7
BNDMR Home Page	The french national database to gather rare disease information for all french citizens and all rare diseases.	Remy Choquet, Paul Landais, Albane de Carrara, Meriem Maaroufi, Claude Messiaen, Yannick Fonjallaz, Minh Macabiau, Jean-Philippe Necker	French ministry of health	1
Botryllus schlosseri anatomy and development ontology Home Page	The first ontology describing the anatomy and the development of Botryllus schlosseri. Working group : Lucia Manni, Fabio Gasparini, Kohji Hotta, Katherine J. Ishizuka J, Lorenzo Ricci, Stefano Tiozzo, Ayelet Voskoboynik, Delphine Dauga	Delphine DAUGA, contact@bioself-communication.com		0
Brain Safe Home Page	Research	Robert	GHU	1
breast tissue cell lines Home Page	Contains a comprehensive list of cell lines derived from breast tissue, both normal and pathological. The ontology in built...	Usha Mahadevan & Arathi Raghunath	Molecular Connection Pvt. Ltd.	0
caB2B Home Page	caB2B, or cancer Bench-to-Bedside, is a tool that enables querying for cancer related information hosted anywhere on caGrid. It...		National Cancer Institute	1
Can suicide theory guided natural language processing of clinical progress notes improve existing prediction models of Veteran suicide mortality? Home Page	This project intends to extract from clinical progress notes factors that are central to the 3-step theory of suicide (3ST),...	esther.meerwijk@va.gov	VA Palo Alto Health Care System	1
Cancer ImmunOnthology Home Page	Onthology focusing on cancer-immune system interactions			0
Care Coordination of Older Adults: Process, Outcomes, and Cost Home Page	Develop care coordination ontology that describes the activities used by nurses to coordinate care among patients. Then using Natural Language...	Lori Popeyjoy (PopejoyL@missouri.edu), Mohammed Khalilia, Mihail Popescu, Colleen Galambos, Vanessa Lyons, Marilyn Rantz, Lanis Hicks, Frank Stetzer	University of Missouri	1
CARRE Home Page	Personalized patient empowerment and shared decision support for cardiorenal disease and comorbidities		The CARRE Project	0
CBO Home Page	Create Cell Behavior Ontology			1
CEDAR FAIR Funder Form Home Page	This is a metadata form (for the FAIR Funder Implementation Study) that relies on EDAM's list of research topics.	John Graybeal	Stanford Center for Biomedical Informatics Research	1
Cell cycle events Home Page	Notable Cell Cycle events that can be tested with HTS-HCS modes		unc chapel hill	3
Cell line ontology Home Page	Ontologies provide a common platform of controlled vocabulary for researchers who need to share information across a particular domain, inclusive...	Usha Mahadevan	Molecular Connections Pvt. Ltd.	3
Cellosaurus Home Page	The Cellosaurus is an online knowledge base on cell lines, which attempts to document all cell lines used in biomedical research.	Cellosaurus@sib.swiss	SIB - Swiss Institute of Bioinformatics	5
Center for Enhanced Data Annotation and Retrieval Home Page	CEDAR makes data submission smarter and faster, so biomedical researchers and analysts create and use better metadata. Through better interfaces,...	John Graybeal		0
CGAP GO Browser Home Page	With the CGAP GO browser, you can browse through the GO vocabularies, and find human and mouse genes assigned to each term.GO data updated every few months.		Cancer Genome Anatomy Project	1
ChEMBL-RDF Home Page	RDF version of the CC-BY-SA ChEMBL database developed at the EBI in the group of John Overington.		Maastricht University	2
Chemical Information Ontology Home Page	The Chemical Information Ontology (CHEMINF) is an ontology to represent chemical structure and to richly describe chemical properties, whether intrinsic, observed or computed.	Leonid Chepelev, Michel Dumontier, Janna Hastings, Egon Willighagen	multi	1
Children's Health Exposure Analysis Resource Home Page	CHEAR is intended to: Expand the number of studies that include environmental exposure analysis, Implement the exposome concept in children’s...			15
Chinese Diabetes Mellitus Ontology Home Page	CDMO is an OWL 2 ontology designed to cover the diabetes mellitus knowledge represented in chinese language. It's top level was adapted from SNOMED-CT, and strive for mapping with other medical ontologies, such as SNOMED-CT, HPO, DOID, DRON.	Yun Liu, liuyun@njmu.edu.cn; Jie Hu, hujie@njmu.edu.cn	Department of Medical Informatics, Nanjing Medical University, Nanjing, Jiangsu, China	0
Chinese Visible Human Database Home Page	The images of CVH will be annotated by using of ontology.Then the CVH database will be built.	yangxl@pumc.edu.cn	Peking Union Medical College	1
CHO Bioprocess Ontology Home Page	Eventually meant to be used for text mining efforts to sort through literature	coherron@udel.edu		0
Classificação Estatística Internacional de Doenças, versão 10 (CID10) Home Page	Mapping ICD 10 ontology to portuguese version Classificação Estatística Internacional de Doenças, versão 10 (CID10)	Paulo Bandiera-Paiva	Universidade Federal de São Paulo	1
ClassifyDICOMSeries Home Page	The ClassifyDICOMSeries project is using BioPortals to lookup DICOM related terms for biomedical imaging.	Hauke Bartsch	Haukeland University Hospital	2
Clinical Genomicist Workstation Home Page	The advent of genome-wide profiling technologies and their routine use in basic science and translational research is now promoting their...			1
Clinical Narrative Temporal Relation Ontology Home Page	CNTRO2.0 is an OWL ontology that can model temporal information found not only in structured databases, but also in natural-language based clinical reports.		Mayo Clinic	0
Clinical Study Ontology Home Page	Ontology for general clinical studies.		The Rockefeller University	0
COBrA Home Page	COBrA is a Java-based ontology editor for bio-ontologies that distinguishes itself from other editors by supporting the linking of concepts...			1
Common Workflow Language Home Page	The Common Workflow language is a multi-vendor working group consisting of various organizations and individuals that have an interest in...			1
COMODI Home Page	An ontology to characterise differences in versions of computational models in biology			2
Comparative Toxicogenomics Database Home Page	A public database that enhances understanding about the effects of environmental chemicals on human health. Integrated GO data and a...			1
Computational Biology Institute of Montpellier Home Page	Modeling, processing and analysis of large scale data in biology, health, agronomy and environment	Pierre Larmande (pierre.larmande@ird.fr)	University of Montpellier - LIRMM - CNRS	7
Country Ontology Home Page	The ontology for all country in the world	Narong B.	University of Utah	2
COVID Rapid Acceleration of Diagnostics (RADX) Data Hub Home Page	The NIH Rapid Acceleration of Diagnostics Data Hub (RADx® Data Hub) supports researchers in accessing curated and de-identified COVID-19 data, allowing them to find, aggregate, and perform data analyses in a cloud-enabled platform.	radx-datahub@nih.gov	Stanford Center for BioMedical Informatics, RENCI, Booz Allen Hamilton, NIH	1
Creating big data for brain diseases research Home Page	Automatic retrieving of relevant clinical information from EMRs from patients with MS	Pablo Villoslada	IDIBAPS, Barcelona	1
CTSA Inventory Resource Web Presence Home Page	The CTSA Inventory Resource Web Presence (CIRWP) is a federated, inter-institutional project to facilitate resource discovery. The CIRWP project contains...			1
Darwin Core Home Page	The Darwin Core is body of standards. It includes a glossary of terms (in other contexts these might be called...	TDWG Darwin Core Task Group	Biodiversity Information Standards (TDWG)	1
Data collection in the general pediatric clinic for students of the 5th year of medicine at the Escola Paulista de Medicina/Unifesp Home Page	At the end of the internship, the students of the 5th year make a presentation on morbidity with data from consultations carried out at the General Pediatrics Clinic. We are using the REDCap for data entry.	Meide Silva Ancao, Paulo Bandiera Paiva	Escola Paulista de Medicina - Unifesp	1
Database of Experimental Biomaterials and their Biological Effect Home Page	The Database of Experimental Biomaterials and their Biological Effect (DEBBIE) is a new open access tool which will enable a...	osnat.hakimi@upc.edu	Universitat Politecnica de Catalunya	1
DataFlex Home Page	Zur Lsung der komplexen Problemstellung von Datenmanagement wurde im Rahmen ihrer Grundlagenforschung das neuartige OpEN.SC-Datenmanagementprinzip (ODMP) fr den Bereich von...	Thomas Schrader	Charit Berlin	1
DECIDE Home Page	DECIDE, a five-year Horizon 2020 project, will develop data-driven decision support tools that offer robust and early signals of disease...	saba.noor@ugent.be	Ghent university	0
DECIDE Home Page	Decide	sabanoor@ugent.be	Gent University	0
DECIDE Project EU2020 Home Page	DECIDE, a five-year Horizon 2020 project, will develop data-driven decision support tools that offer robust and early signals of disease...	sabanoor@ugent.be	Ghent University	1
Decision Support System for the Elderly Home Page	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)	National Institute of Technology, Patna	1
diabeted diagnosis ontology Home Page	developing a diabetes diagnosis ontology for diagnosing complications		SLIIT	0
dictyBase Home Page	An Online Informatics Resource for Dictyostelium.			1
DisGeNET-RDF Home Page	RDF version of the DisGeNET database, which is a database that integrates gene-disease associations from several public, expert, curated data...	Laura I. Furlong (lfurlong@imim.es), Núria Queralt-Rosinach (nqueralt@imim.es)	GRIB-IMIM-UPF	11
Dispedia Home Page	Dispedia is a framework for information brokering and knowledge management in the complex field of rare diseases. On the one...	Romy Elze, Michael Martin, Lars Eidam, Marcus Nitzschke	Institut fr Angewandte Informatik e.V.	3
Drug Repositioning Home Page	Identifying Drug Repositioning Targets in Domain Neglected Disease	Eduardo Barçante	FIOCRUZ	1
Drug Target Ontology Home Page	Drug Target Ontology (DTO) is being developed at the University of Miami in the research group of Stephan Schürer. DTO...	Stephan Schurer	University of Miami	1
DSS Home Page	Decision Support for Arthropod-borne Infectious Diseases. The Ontology portion of our project is still under construction.	David Penhall, Saul Lozano-Fuentes	Colorado State University	2
Dynamic enhancement of drug product labels Home Page	Demonstrate a novel approach to updating and expanding upon information present in drug product labels that is useful for determining...	Scientific Discourse Task Force	W3C Health Care and Life Sciences Interest Group	1
DynGO Home Page	DynGO is a client-server application that provides several advanced functionalities in addition to the standard browsing capability. DynGO allows users...			1
eagle-i Home Page	The eagle-i project is building a searchable network of research resources at research institutions nationwide. We are developing an application...	Melissa Haendel, Carlo Torniai	Consortium	15
Educatioal Medical Materials Annotator Home Page	A work in progress for discovering relations between distributed educational medical materials harvested from the web	r.qadan-al-fayez@warwick.ac.uk	Warwick university	1
EFO Home Page	The Experimental Factor Ontology (EFO) is an application focused ontology modelling the experimental factors in ArrayExpress. The ontology has...	James Malone, Helen Parkinson	EBI	1
Electronic Medical Record Search Engine Home Page	EMERSE (Electronic Medical Record Search Engine) was designed to help everyday users work with the free text documents (i.e., clinical...	EMERSE-team@umich.edu	University of Michigan North Campus	0
Electronic Trial Master File Home Page	The electronic trial master file (eTMF) content model ontology is designed to support clinical trial content management interoperability. ...	Jennifer Alpert Palchak	CareLex - a Non-profit for Content Archive Resource Exchange	2
Electrophysiology Ontology Home Page	The Electrophysiology (EP) Ontology is part of Project 2 of the Cardiovascular Research Grid (CVRG), an NHLBI funded effort to...	Dr. Raimond L. Winslow, Stephen J. Granite	The Johns Hopkins University	6
eleMAP Home Page	Organized by the National Human Genome Research Institute (NHGRI) with additional funding from the National Institute of General Medical Sciences,...			0
EMBOSS Home Page	The European Molecular Biology Open Software Suite (EMBOSS) is a well established, high quality package of open source software tools for molecular biology.	Peter Rice, Alan Bleasby, Jon Ison, Mahmut Uludag	EMBL-EBI	1
eNanoMapper Home Page	Project that develops an ontology to support the research within the European NanoSafety Cluster.	Egon Willighagen	eNanoMapper Consortium	10
Epidemic Marketplace Home Page	The Epidemic Marketplace is a data integration platform where epidemiological data and related resources are stored, managed and made available, fostering collaboration.		Fundacao da Faculdade de Ciencias da Universidade de Lisboa	12
Epidemiology Term Annotation Home Page	This script will map commonly used epidemiology variables to SNOMED or LOINC concepts			2
Epilepsiae Home Page	EPILEPSIAE- Evolving Platform for Improving the Living Expectations for Patients Suffering from IctAl Events is developing the European Database on...	partners from 4 countries	EU FP7	1
eSysbio Home Page	eSysbio is a project for developing an online workbench for collaborative computational biology research. It provides a secure Web-based workspace...	Kidane Tekle, Hakon Sagehaug, Matus Kalas, Siv Midtun Hollup, Michael Dondrup, Anne-Kristin Stavrum, Pawel Sztromwasser, Armin Topfer, Kjell Petersen, Inge Jonassen, Pal Puntervoll	University of Bergen	2
eTOX Home Page	eTOX is a temporary consortium established in 2010 to share and use toxicology data. It is a pre-competitive collaboration which...	Philippe MARC	Innovative Medicines Initiative IMI	4
European Nutritional Phenotype Assessment and Data Sharing Initiative Home Page	The main objective of ENPADASI project is to deliver an open access research infrastructure that will contain data from a...	Jildau Bouwman	a multidisciplinary consortium of scientists from 50 research centres in 9 countries across Europe.	1
EutilsRDF Home Page	Project to produce RDF output for some NCBI E-utilities	Chris Maloney		0
Evaluation of LOINC Document Ontology Home Page	Use of LOINC Document Ontology to facilitate NLP projects, Health Information Exchange and secondary use of data		National Institute of Health Clinical Center	1
Evidence Ontology Home Page	The Evidence Ontology (ECO) is a controlled vocabulary that describes types of scientific evidence within the realm of biological research...	Marcus Chibucos & Michelle Giglio	Institute for Genome Sciences	3
Fantom5 Nanopublications Home Page	Fantom5 cage cluster as an nanopublications		LUMC. Leiden, The Netherlands	2
Fern Ontology Home Page	Fern Ontology (FO) is a controlled and structured vocabulary of fern specific anatomy and lifecycle.		DBCLS	1
FGED-MGED Ontology Home Page	The Functional Genomics Data (FGED) Society has incorporated the MGED Ontology (MO) into OBI for use in annotating functional genomics studies especially with the MAGE-TAB format.			2
Fishmap Home Page	FishMap is a unified and centralized resource for storage, retrieval, and display of genomic information of zebrafish.			1
FIT_Thom Home Page	Formal Inherence Theory of Predication from a Scholastic point of view.	Andre Stander	University of Pretoria	0
FlyBase Home Page	The FlyBase project is carried out by a consortium of Drosophila researchers and computer scientists at:Harvard University, University of Cambridge (UK), Indiana University and the University of New Mexico.	The FlyBase Consortium		8
FlyGlycoDB Home Page	Glyco-genes of Drosophila, their activities, mutants, protein class, etc.	Kiyoko F. Aoki-Kinoshita, Shoko Nishihara, Yuki Ushioda	Soka University	0
Fundamental Biology of Sudden Cardiac Death and Its Application to Identify Patients at Risk Home Page	This study examines the role of genetic, protein and electrocardiographic markers measured longitudinally in predicting the risk of SCD and overall mortality in patients with implantable defibrillators placed for primary prevention.	Gordon Tomaselli (PI)	Johns Hopkins Hospital, Washington Hospital Center, Virginia College of Medicine	1
G PROTEIN-COUPLED RECEPTOR BIOASSAYS Home Page	The G protein-coupled receptors (GPCRs) ontology (http://www.bioassayontology.org/bao_gpcr) describes pharmacology, biochemistry and physiology of these important and therapeutically promising class of...	Przydzial M, Bhhatarai B, Koleti A, Schurer S.	University of Miami	4
Gemma Home Page	Gemma is a web site, database and a set of tools for the meta-analysis, re-use and sharing of genomics data,...	Dr. Paul Pavlidis	University of British Columbia	9
Gene Ontology Browsing Utility Home Page	Gene Ontology Browsing Utility (GOBU). GOBU is a Java-based software program for integrating biological annotation catalogs under an extendable software...			1
Gene Ontology Consortium Home Page	The GO Consortium is the set of model organism and protein databases and biological research communities actively involved in the development and application of the Gene Ontology.	Gene Ontology Consortium		1
Gene Ontology For Functional Analysis Home Page	Gene Ontology For Functional Analysis (GOFFA) is a tool developed for ArrayTrack that takes a list of genes and identifies...			1
Gene Ontology Normal Usage Tracking System Home Page	This Gene Ontology Normal Usage Tracking System (GONUTS) is a wiki where users of the Gene Ontology can contribute and...			1
GeneInfoViz Home Page	GeneInfoViz is a web based tool for batch retrieval of gene function information, visualization of GO structure and construction of...			1
GeneLab Home Page	Omics database for space biology research		NASA	1
GeneTools Home Page	GeneTools is a collection of web-based tools that brings together information from a broad range of resources, and provides this...		Norwegian University of Science and Technology	1
GenNav Home Page	GenNav searches GO terms and annotated gene products, and provides a graphical display of a term's position in the GO DAG.			1
GFBio Home Page	GFBio ontologies			0
gilsnowmed Home Page	Snomed filtering	Ryan Swenson	Gilead	1
Glycoconjugate Ontology Home Page	Glycoconjugate Ontology (GlycoCoO) is a standard ontology for glycoconjugate data (glycoprotein/glycolipid structures, publication information, biological source information, experimental data).	yamadaissaku@gmail.com	GlyCoCoO Project	2
GlycoRDF Home Page	GlycoRDF is a standard representation for storing Glycomcis data in RDF.	rene@ccrc.uga.edu or kkiyoko@soka.ac.jp	Glycoinformatics Consortium (GLIC)	1
GOblet Home Page	GOblet is a software package that performs annotation based on GO terms for anonymous cDNA or protein sequences. It uses...			1
GoFish Home Page	The GoFish program, available as a Java applet online or to download, allows the user to construct arbitrary Boolean queries...		University of Toronto; Ontario; Canada, Harvard Medical School; Massachusetts; USA	1
GOProfiler Home Page	GOProfiler provides a summary of the GO annotations available in AgBase. The user provides a species (taxon id) and GOProfiler...			1
GOSlimViewer Home Page	GOSlimViewer is used to summarize the GO function associated with a data set using prepared GO Slim sets. The input is a tab separated list of gene product IDs and GO IDs.			1
Gramene Home Page	As an information resource, Gramene's purpose is to provide added value to data sets available within the public sector, which...			6
GRANATUM Home Page	The vision of the GRANATUM project is to bridge the information, knowledge and collaboration gap among biomedical researchers in Europe...			1
Health Ontology Mapper Home Page	HOMs open source components provide a key framework for mapping data, requesting data and delivering data to and from data...	Rob Wynden, Prakash Lakshminarayanan, Ketty Mobed	UCSF	0
Hierarchical Event Descriptors Home Page	HED is a hierarchical vocabulary for annotating what happens during an experiment.	kay.robbins@utsa.edu	University of Texas at San Antonio	0
HINCare Home Page	We aim to provide a software platform to suggest and match potential helpers from social network and recommend them to the elderly care organizations involved.	tobias.grubenman@live.com	The University of Hong Kong	1
HiTS Home Page	QB3’s discovery research informatics are centralized within SMDC via HiTS, an in-house web application (Grails 2.4.5) on top of a...	Julia Davies, Michelle Arkin	UCSF	3
HIV Home Page	This is an ontology about HIV	Martin Schiller	University of Nevada Las Vegas	0
HPO - ORDO Ontological Module Home Page	Orphanet provides phenotypic annotations of the rare diseases in the Orphanet nomenclature using the Human Phenotype Ontology (HPO). HOOM is...	Ana Rath, ordo.orphanet@inserm.fr	Inserm	2
HuBMAP CCF EUI Home Page	The CCF EUI represents data across multiple scales, supporting navigation by multiple coordinate systems, including spatial, physiologic, and organ-based browsing....	katy@indiana.edu, bherr@indiana.edu	Indiana University	3
Human Protein Ontology Home Page	This project aims at developing a protein ontology of human proteins for different semantic queries. Proteins are categorized based on...	Arathi Raghunath, Bharat Bhat, Jignesh Bhate, Usha Mahadevan	Molecular Connections Pvt. Ltd	0
HumanGeneCodonOntology Home Page	The ontology contains the information of the frequency of usage and the relative frequency of usage of codons of human genes, to be used by the Project of HIV Ontology.	hanfeib@gmail.com	BMKI Lab	0
Hypertrophic Cardiomyopathy consortium Home Page	The Hypertrophic Cardiomyopathy Consortium is a network of investigators focused on the research, diagnosis, and treatment of HCM. The Consortium...	Theodore Abraham, MD	Johns Hopkins University	1
iBeetle Home Page	The iBeetle projects is a large scale RNAi screening project in the red flour beetle Tribolium castaneum. Using the RNA...	Gregor Bucher, Martin Klinger	Georg-August University Goettingen, Friedrich-Alexander University Erlangen-Nrnberg	1
ICDmap Home Page	map between snomed and icd10			2
iCyrus Home Page	iCyrus is a Linked biomedical images API	ahmad chan , ahmadchan@gmail.com	University of New Brunswick Canada	1
iCyrus: A Semantic BioMedical Images API Home Page	A Semantic BioMedical Images API	Ahmad Chan and Chris J.O Baker	university of New Brunswick	0
IDMP Home Page	IDMP vocabularies			0
Image & Data Quality Assessment Home Page	An ontology for assessment of image and data quality		University of Applied Sciences Brandenburg	0
Immune Epitope Database Home Page	The IEDB contains data related to antibody and T cell epitopes for humans, non-human primates, rodents, and other animal species.	IEDB Contacts	La Jolla Institute for Allergy & Immunology	1
Immunology Database and Analysis Portal Home Page	ImmPort, the Immunology Database and Analysis Portal, is a one stop shop to access reference and experiment data for immunologists....	Richard H. Scheuermann, et al.	U.T. Southwestern Medical Center	5
Improving the Automatic Classification of Histological Images using an Ontology of the Human Cardiovascular System Home Page	A method that improves the previous automatic classification using the knowledge contained in the human histological ontology created. This solution increase hits rates and decrease misses of the automatic classification process.	claudia.mazo@correounivalle.edu.co	Universidad del Valle	1
Influenza Ontology Home Page	The Influenza Ontology is an application ontology covering the numerous aspects of influenza virus research and surveillance. The influenza ontology extends the Infectious Disease Ontology (IDO).	R. Burke Squires, Lynn Schriml, Joanne Luciano	NIAID BCBB, Univ of Maryland, MITRE	8
Influenza Research Database Home Page	The mission of the Influenza Research Database (IRD) is to provide a resource for the influenza virus research community that...	Richard H. Scheuermann, et al.	J. Craig Venter Institute	8
Integrative Genomics Home Page	Integration of high-dimensional genomic and phenomic data is challenged with scalability and semantic robustness for intuitive querying. To address these...	James Chen, Arka Pattanayak, Chaitanya Shivade	The Ohio State University	5
Integrative Tools for Protozoan Parasite Research Home Page	The Integrative Tools for Protozoan Parasite Research project is using OBI to develop forms to capture structured meta-data about studies...	Christian Stoeckert	University of Pennsylvania	1
Interactive Argumentation Support for the Scientific Domain of Invasion Biology Home Page	Developing a precise argument is not an easy task. In real-world argumentation scenarios, arguments presented in texts (e.g. scientific publications)...	Tina Heger and Alsayed Algergawy	FSU Jena, Freie Universität Berlin, Institute of Biology, Berlin, Germany, University of Bielefeld,	1
Interestingness in Data Home Page	Ontology-based Interestingness in COVID-19 Data. submitted to : 15th International Conference on Metadata and Semantics Research. (Under review)	Abhilash C B	IIIT Dharwad	1
InterNano Home Page	InterNano supports the information needs of the nanomanufacturing community by bringing together resources about the advances in applications, devices, metrology,...	Jessica Adamick, Jeff Morse, Bob Stevens, Mark Tuominen	University of Massachusetts Amherst	0
InterNano Nanomanufacturing Library Home Page	The InterNano Nanomanufacturing Library is a searchable and openly accessible database of nanomanufacturing research, government reports on nanomanufacturing, and federally-funded education and outreach efforts for nanomanufacturing.	Jessica Adamick, Jeff Morse, Bob Stevens, Mark Tuominen	University of Massachusetts Amherst	0
International Fanconi Anemia Registry Home Page	The International Fanconi Anemia Registry (IFAR) was started in 1982 at The Rockefeller University by Dr. Arleen Auerbach. The...	Erica Sanborn, Agata Smogorzewska, Arleen Auerbach, Francis Lach, Edward Barbour, Shamim Mollah, Sajin Balakrishnan, Ummey Johra	Rockefeller University	5
ISA software suite Home Page	An open source ISA software suite and an extensible hierarchical data structure implemented by a growing number of international public...	International collaborative effort	Multiple institutions; leads at University of Oxford, UK	36
Kamonwan Home Page	data management unit		chulabhorn royal academy	0
Kino Home Page	Kino is an integrated suite of tools that enables scientists to annotate biological related web-based documents. It can annotate documents...	Amit Sheth, Ajith Ranabahu, Maryam Panahiazar	Ohio Center of Excellence in Knowledge-enabled Computing (Kno.e.sis)	7
Knowledge Grid Home Page	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	University of Michigan	3
LEcture Rapide en Urgence du Dossier Informatisé du patient Home Page	Home page in french.		ASIP SANTÉ	2
Lexigram Home Page	Lexigram builds simple, scalable medical entity and context extraction APIs for use with patient data, especially tailored to data scientists and developers	Paul Alexander (paul@lexigram.io)		9
LinkedDesign Home Page	Linked Knowledge in Manufacturing, Engineering and Design for Next-Generation Production			0
Linking Open Data for Rare Diseases Home Page	An integrated ORPHA browser enrich with HPO data and OMIM disease descriptions. The application features: 1. A RDF...	remy.choquet@aphp.fr	AP-HP	4
LogMap Home Page	Logic-based and Scalable Ontology Matching. LogMap is a highly scalable ontology matching system with `built-in' reasoning and diagnosis capabilities. Currently,...	Ernesto Jimenez Ruiz and Bernardo Cuenca Grau	University of Oxford	4
Maggot Home Page	Sharing descriptive Metadata is the first essential step towards the so-called Open Scientific Data. With this in mind, Maggot was...	Daniel Jacob	INRAE	9
Maize Genetics and Genomics Database Home Page	MaizeGDB is a community-oriented, long-term, federally funded informatics service to researchers focused on the crop plant and model organism Zea mays.	carson.andorf@ars.usda.gov	USDA ARS	4
Manatee Home Page	Manatee is a web-based gene evaluation and genome annotation tool; Manatee can store and view annotation for prokaryotic and eukaryotic...		J. Craig Venter Institute, University of Maryland School of Medicine	1
Mapping of Norwegian national quality registries- Variabelbibliotek for medisinske kvalitetsregistre Home Page	Norway has 52 national quality registers with over 5000 different variables, which each has their own value set. This is a mapping between similar variables and to other ontologies.	Linn Brandt - brandtlinn@gmail.com	Norwegian Institute of Public Health	5
MASYMOS Home Page	MASYMOS is a Neo4J instance containing SBML and CellML Models as well as simulation descriptions in SED-ML and frequently used bio-ontologies (GO, ChEBI, KiSAO, SBO). All data is represented as a Graph and can be queried using Cypher.	Dagmar Waltemath, Ron Henkel	University of Rostock	4
MBGD SPARQL Search Home Page	SPARQL interface to the RDF version of Microbial Genome Database for Comparative Analysis (MBGD)	Hirokazu Chiba, Hiroyo Nishide, Ikuo Uchiyama	National Institute for Basic Biology	4
Mental Functioning Ontology Home Page	The Mental Functioning Ontology is an ontology for mental functioning, including mental processes such as cognition and traits such as...	Janna Hastings, Werner Ceusters, Barry Smith, Kevin Mulligan	University of Geneva, University at Buffalo	2
MeRy-B Home Page	MeRy-B is a plant metabolomics platform allowing the storage and visualisation of Nuclear Magnetic Resonance (NMR) metabolic profiles from plants. This database is involved in the ISA commons project (isacommons.org).	Daniel Jacob, Catherine Deborde, Annick Moing	INRA & Univ. Bordeaux	21
MGI GO Browser Home Page	With the MGI GO Browser, you can search for a GO term and view all mouse genes annotated to the...		Mouse Genome Informatics, The Jackson Laboratory	1
miRNAO Home Page	An application ontology for microRNAs.			0
Mobile Pediatric Consultation and Monitoring System (mPCMS) Home Page	“This research project was funded in 2014 by the National Science Foundation- The Scientific and Technological Research Council of Turkey...	Assoc.Prof.Dr.Duygu Celik Ertugrul	Eastern Mediterranean University	1
Mobile RadLex Home Page	A mobile browser of RadLex for the Android Phone. Free to download on the Android Market. :D	Mantas		1
Mouse Genome Informatics Home Page	MGI is the international database resource for the laboratory mouse, providing integrated genetic, genomic, and biological data to facilitate the...			1
Multiscale Ontology for Skin Physiology Home Page	The purpose of this project is to investigate the representation of physiological processes in the skin across levels of spatial scale.	Tariq Abdulla	Loughborough University	0
NanbyoData Home Page	NanbyoData is a portal to the latest information on rare and intractable diseases called Nanbyo.	fujiwara@dbcls.rois.ac.jp	Database Center for Life Science	4
nano-TAB Home Page	The nano-TAB standard specifies the format for representing and sharing information about nanomaterials, small molecules and biological specimens along with...			1
NanoCommons Home Page	NanoCommons will deliver a sustainable and openly accessible nanoinformatics framework (knowledgebase and integrated computational tools, supported by expert advice, data...			1
NanoSolveIT Home Page	NanoSolveIT aspires to introduce a ground-breaking in silico Integrated Approach to Testing and Assessment (IATA) for the environmental health and...			1
NBTontology Home Page	The NBTontology is used to describe Neurophysiological Biomarkers in the Neurophysiological Biomarker Toolbox (NBT)			0
Network Ontology Analysis Home Page	Network Ontology Analysis (NOA) is a freely available collection of Gene Ontology tools aiming to analyze functions of gene network...		Chinese Academy of Sciences	1
NeuMORE Home Page	Develop an ontology in recovery domain.		University of South Alabama	1
Neural ElectroMagnetic Ontologies Home Page	NEMO is developing ontologies for representation and integration of event-related brain potentials (ERPs). To support this work, we are developing...	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)	University of Oregon & Georgia State University	22
Neurocarta Home Page	Neurocarta is a knowledgebase that consolidates information on genes and phenotypes across multiple resources and allows tracking and exploring of...	Dr. Paul Pavlidis	University of British Columbia	3
Neuroimaging Data Model Home Page	The Neuroimaging Data Model (NIDM) is a collection of specification documents that define extensions the the W3C PROV standard for...	Nolan Nichols	INCF	6
NeuroLOG Home Page	Neurolog was a 4 years scientific project (2007-2010) funded by the french ANR (National Agency for Research) under contract number...	Johan Montagnat	collaborative research project	3
Neuronal Morphologies and Species Metadata Classification System Home Page	This is species taxonomy for the data curated in NeuroMorpho.Org. The existing ontologies are re-used as needed as the new...	spolavar@gmu.edu	George Mason University	4
Neuroscience Information Framework Home Page	The Neuroscience Information Framework (NIF; http://nif.nih.gov) is a dynamic inventory of Web-based neuroscience resources, data, and tools accessible via any...	Maryann Martone, Jeffrey Grethe, Amarnath Gupta, Gordon Shepherd, Giorgio Ascoli, Paul Sternberg, David Van Essen		9
NGS Ontology Home Page	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.		Instituo de Medicina Molecular	5
NLP for the prediction of chemotherapy response Home Page	NLP for the prediction of chemotherapy response	adrien.coulet@inria.fr	Inserm, Inria, AP-HP	4
Nomenclature for Anatomic Pathology Home Page	Unifying Nomenclature for Anatomic Pathology in Italy	Arrigo Bondi	SIAPEC-IAP	5
Nursing domain expert processes Home Page	This is a group of four ontologies which have been acquired from nursing domain experts. The experts describe their specific practice area.	Phil Shields	Victoria University	4
OBO-Edit Home Page	OBO-Edit is an open source, platform-independent application written in Java for viewing and editing any OBO format ontologies. OBO-Edit is...		Gene Ontology Consortium	1
oebDatasets Home Page	a dataset ontology			0
OMA SPARQL endpoint Home Page	The SPARQL endpoint of the Orthologous Matrix (OMA) database. The RDF serialisation of the OMA Hierarchical Orthologous Groups is based on the ORTH ontology v2 specification.		SIB	1
One health surRveillance Initiative on harmOnization of data collection and interpretatioN Home Page	The ORION project aims at establishing and strengthening inter-institutional collaboration and transdisciplinary knowledge transfer in the area of surveillance data...		German Federal Institute for Risk Assessment (BfR); Swedish National veterinary Institute (SVA); and partners	1
Onto-Compare Home Page	Microarrays are at the center of a revolution in biotechnology, allowing researchers to screen tens of thousands of genes simultaneously....		Wayne State University	1
Onto-Design Home Page	Many Laboratories chose to design and print their own microarrays. At present, the choice of the genes to include on...		Wayne State University	1
Onto-Express Home Page	The typical result of a microarray experiment is a list of tens or hundreds of genes found to be differentially...		Wayne State University	1
OntoCAT Home Page	High level abstraction API (Java/REST/R) for interacting with ontology resources including local ontology files in standard OWL and OBO formats (via OWL API) and public ontology repositories: EBI Ontology Lookup Service (OLS) and NCBO BioPortal.	Tomasz Adamusiak, Helen Parkinson, Natalja Kurbatova, Misha Kapushesky, Morris Swertz	EMBL-EBI, University of Groningen	0
OntoCOG Home Page	Ontology based web service for COG enrichment study by using Fisher's exact test.	Yu Lin, Yongqun He, Zuoshuang Xiang	University of Michigan	2
Ontology Evolution Explorer Home Page	The Ontology Evolution Explorer (OnEx) is a web-based system for exploring ontology changes. It provides access to several versions of...		University of Leipzig	1
Ontology for Floss Home Page	Ontologies for learning patterns in Floss	mukala@di.unipi.it	University of Pisa	0
Ontology for the obstetric and neonatal domain Home Page	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	Federal University of Minas Gerais	7
Ontology of Data Mining Home Page	OntoDM is a general-purpose ontology for the domain of data mining. The ontology includes the information processing processes that occur...	Pance Panov, Saso Dzeroski, Larisa Soldatova	Jozef Stefan Institute	7
Ontology Project Progress and Future Plans Home Page	Ontology will face more technical challenges and need more academic support. Therefore, Ontology will start a research institute plan, recruiting...	Lettita	Research Institute and Academic Plans	0
Ontology-based knowledge base model-OntoKBCF Home Page	This is a knowledge base model including both molecular genetic information and health information of cystic fibrosis. Another main component...	Xia Jing, Stephen Kay, Nicholas Hardiker, Tom Marley	The University of Salford	1
OntoMaton Home Page	OntoMaton is a google spreadsheet application allowing for ontology search and tagging directly within google spreadsheets. More information can be found here: https://github.com/ISA-tools/OntoMaton	ISA team	Oxford University	0
OntoVisT Home Page	OntoVisT is a general purpose ontological visualization tool. Ontologies have emerged as a fast growing research topic in the area...		Jawaharlal Nehru University	1
Open Access Journals Integrated service System Project (GoOA) Home Page	As a precursor aiming to explore the method on discovery, selection, evaluation, conservation, and recycling construction of OA resources, GoOA...	openresources@mail.las.ac.cn	National Science Library,Chinese Academy of Sciences	5
Open European Nephrology Science Center Home Page	Das Open European Nephrology Science Center (OpEN.SC) ist ein europisches Leistungszentrum fr Forschungsinformationen in der Nephrologie und Transplantationsmedizin. In Zusammenarbeit...	Thomas Schrader	University of Applied Sciences Brandenburg & Charit Berlin	1
Open PHACTS Home Page	Open PHACTS (Open Pharmacological Concepts Triple Store) is a knowledge management project of the Innovative Medicines Initiative (IMI), a unique...			8
OrphaOnto Home Page	Orphanet is the reference information portal on rare diseases and orphan drugs for healthcare professionals and for general audience. Orphanet...	Ferdinand Dhombres, Pierre-Yves Vandenbussche, Ana Rath, Marc Hanauer, Annie Olry, Bruno Urbero, Rmy Choquet, and Jean Charlet	Inserm, Paris, France	0
Panacea Home Page	Panacea aims to build an intelligent recommendation system to effectively propose drug therapies that will support and facilitate health professionals,...	5	Ergobyte Informatics S.A.	2
ParameciumDB Home Page	ParameciumDB is a new model organism database associated with the genome sequencing project. Built with core components of the Generic...			1
Parkinson's Disease Ontology Home Page	Here, we introduce the Parkinson’s disease ontology (PDO) as a comprehensive semantic framework covering the whole breadth of the Parkinson’s...	Dr. Erfan Younesi	Fraunhofer SCAI	0
Pathway Portal Home Page	The Pathway Portal is a multi-tier approach offering dynamic graphic representation of pathways along with associated annotations, integration with other...	Victoria Petri	Medical College of Wisconsin	1
Patient/Research Participant Permissions Ontology Home Page	An ontology to capture patients' and research participants' research permissions, consents and routine care permissions.		MUSC	1
Pediatric Terminology Home Page	Terms associated with pediatrics, representing information related to child health and development from pre-birth through 21 years of age.	Ranjana Srivastava, Daniel Lyman	National Institute of Child Health and Human Development	1
Performed Music Ontology Home Page	Part of the Linked Data for Production grant, a BIBFRAME extension ontology for performed music.		Stanford	1
Personalised Guidance Services for Optimising lifestyle in teenagers through awareness, motivation and engagement Home Page	PEGASO project, under the EU 7th Framework Programme (Grant No: 610727), aims at promoting a sustainable change towards healthy lifestyles...			0
PhenoMiner Home Page	PhenoMiner integrates rat phenotype measurement data	Rajni Nigam, Mary Shimoyama, Melinda Dwinell	RGD	4
Phenoscape Home Page	What are the developmental and genetic bases of evolutionary differences in morphology across species? Currently it is difficult to approach...	Paula Mabee, Monte Westerfield, Todd Vision, Hilmar Lapp, Wasila Dahdul, James Balhoff, Peter Midford	National Evolutionary Synthesis Center, University of South Dakota, University of Oregon, University of North Carolina at Chapel Hill	9
PID PhenomeR Home Page	PID phenomer is a web-based integrated platform for collection, mapping, storage and visualization of observed phenotypic terms for primary immunodeficiency diseases (PIDs).			0
Ping Home Page	Try to develop COVID-19 risk detection system for older people in residential aged care using ontology and machine learning technology	ping@uow.edu.au	University of Wollongong	3
Plant Ontology Home Page	The Plant Ontology is a controlled vocabulary (ontology) that describes plant anatomical and morphological structures and growth and developmental stages...		Oregon State University	18
PMF_Foodmatrix Home Page	Foodmatrix Ontology of "Open food safety model repository"			2
PractiKPharma Home Page	PractiKPharma (Practice-based evidences for actioning Knowledge in Pharmacogenomics) aims at validating, or moderating, PGx state-of-the-art (SOTA) knowledge on the basis...	Adrien Coulet (last name at loria dot fr) and collaborators	LORIA, HEGP, CHU-St Etienne, LIRMM	14
Preeclampsia Ontology Home Page	The PEO incorporates a wide range of key concepts and terms of PE from clinical and biomedical research in structuring the knowledge base that is specific to PE.		Tohoku University	1
Prospective Risk Analysis in Medical Environments Home Page	It is the ontology embedding PRIME (Prospective Risk Analysis in Medical Environments) in related issues of patient safety research and...	thomas.schrader@computer.org	Technische Hochschule Brandenburg	1
Proteasix Home Page	Proteasix Ontology (PxO) is a new application ontology that supports the Proteasix tool (http://www.proteasix.org/). Proteasix is an open-source peptide-centric tool...	Robert Stevens ‎[robert.stevens@manchester.ac.uk]‎	University of Manchester (UK)	0
Protein ANnotation Diagram ORiented Analysis Home Page	With PANDORA, you can search for any non-uniform sets of proteins and detect subsets of proteins that share unique biological...		Hebrew University of Jerusalem	1
Protein Ontology Project Home Page	PO integrates protein data formats and provide a structured and unified vocabulary to represent proteins. PO provides integration of heterogeneous protein and biological data sources.	Amandeep S. Sidhu	BIOMAP Project Lab	0
Prov Home Page	The outcome of the W3C Prov group	Helena F. Deus	DERI	0
PubCaseFinder Home Page	PubCaseFinder is a phenotype-driven differential-diagnosis system.	fujiwara@dbcls.rois.ac.jp	Database Center for Life Science	4
PubChem Home Page	Chemical biology resource providing biological activities of small molecules and substances.		NCBI	7
Pull the Covid-19 replicative catalytic core apart Home Page	The PullCovAppart project is the result of an original collaboration between biologists (Isabelle Imbert, India L’Hote, Marion Peltret, Emeline Grellet)...	isabelle.imbert@univ-amu.fr	LITIS/LIS/AFMB	1
QuickGO Home Page	QuickGO is a fast web-based browser for Gene Ontology terms and annotations, which is provided by the UniProtKB-GOA group at...		European Bioinformatics Institute	1
R.T. National Drug File Research Home Page	Sustantial assistance documentation solutions. Strategic composed software interconnecting social services internship.	6013078734	PMGROUP	1
Radiation Oncology Ontology Home Page	The Radiation Oncology Ontology project aims to develop an ontology convering the field of radiation oncology.			0
Radiology Gamuts Ontology Home Page	Imaging findings, interventions, and associated disorders for radiological diagnosis.	C. Kahn	University of Pennsylvania	6
Radiology Quiz Home Page	A randomized multiple choice quiz which tests the players knowledge of different relationships from the RadLex Ontology.	Mantas J	MantasCode	1
RadoNorm: Towards effective radiation protection based on improved scientific evidence and social considerations – focus on Radon and NORM Home Page	The key aim of RadoNorm is to provide answers to open questions related to radon and naturally occurring radioactive materials...	PNS12@cam.ac.uk	Coordinator: Bundesamt fuer Strahlenschutz	1
RCD Home Page	to see RCD ontology			1
RDNav Home Page	A tool to help physicians to code with orphanet classifications.	Remy Choquet, Yannick Fonjallaz, Albane de Carrara	APHP, Paris, France	0
Reaction Ontology Home Page	Enzyme Reaction Ontology (ERNO)			0
Reference Sequence Annotation Home Page	Provide ontologies to describe sequence annotations, reference sequences, and how to link annotations across references.	Zuotian Tatum, Andrew Gibson, Jeroen F.J. Laros, Marco Roos, Mark Thompson	Leiden University Medical Center	0
Register of CDZ Home Page	Used in collection of medical and hospital information		UZIS	0
Registry of Vascular Anomalies Home Page	The Registry of Vasculair Anomalies is a FAIR registry for patients with vascular anomalies.			1
Rehabilita, Disruptive Technologies for the Rehabilitation of the Future Home Page	The project wants to enhance rehabilitation transforming it to a more personalized, ubiquitous and evidence-based rehabilitation.	Laia Subirats (laia.subirats@gmail.com), Luigi Ceccaroni and Mireia Calvo	Eurecat - Technology Centre of Catalonia	6
Reporting Identifications in MS-based Proteomics Experiments Home Page	specification of cross-linking reagents in mass spectrometry cross-linking results	psidev-pi-dev@lists.sourceforge.net	HUPO-PSI	2
Reporting MS-based Proteomics and Metabolomics Results Home Page	derivatization reagents in GC-MS / LC_MS are documented by XLMOD CV terms		HUPO-PSI	2
Resource of Asian Primary Immunodeficiency Diseases Home Page	Resource of Asian primary immunodeficiency diseases (RAPID) is a web-based integrated compendium of molecular alterations in primary immunodeficiency disease genes and other pertinent information.	RCAI Immunogenomics group, Immunoinformatics group and IOB group	The Institute of Physical and Chemical Research (RIKEN) Yokohama, Japan & Institute of Bioinformatics (IOB), Bangalore, India	1
Retrospective Analytics System Home Page	The Retrospective Analytics System (RAS) is based on semantic and linguistic information technologies. It empowers German clinics and offices to...	Dr.-Ing. Benedikt Kämpgen	Empolis Information Management GmbH	5
RightField Home Page	RightField is an open-source tool for adding ontology term selection to Excel spreadsheets. For each annotation field, RightField can specify...	Stuart Owen, Katy Wolstencroft, Matthew Horridge, Carole Goble	University of Manchester	1
RiskGONE Home Page	RiskGONE (Science-based Risk Governance of Nano-Technology) is an EU H2020 project aiming at providing solid procedures for consistent risk governance of engineered nanomaterials.			1
runBioSimulations Home Page	runBioSimulations is a free tool for executing a wide range of simulations.	info@biosimulations.org	Center for Reproducible Biomedical Modeling	3
SADI Home Page	SADI is a framework to create Semantic Web services using OWL classes as service inputs and outputs	Christopher Baker, Melanie Courtot, Jose Cruz-Toledo, Michel Dumontier, Steve Etlinger, Nichealla Keath, Artjom Klein, Luke McCarthy, Silvane Paixao, Ben Vandervalk, Natalia Villanueva-Rosales, Mark Wilkinson	Multi	1
Safety and Toxicity of Excipients for Paediatrics (STEP) Database Home Page	The Safety and Toxicity of Excipients for Paediatrics (STEP) Database is a user-designed resource that compiles the safety and...	International collaborative effort, admin@eupfi.org	European Paediatric Formulation Initiative (EuPFI)	3
SBGN Home Page	Systems Biology Graphical Notation (SBGN), is a visual language developed by a community of biochemists, modelers and computer scientists to allow the represention of networks of biochemical interactions in a standard, unambiguous manner.	SBGN Editors	COMBINE	1
SBML Home Page	The SBML (systems biology markup language) is a machine-readable, standard exchange format for computational models. It is developed collaboratively with the modelling community to meet their evolving needs.	SBML Editors	COMBINE	1
SBO Home Page	Systems Biology Ontology			0
Schizosaccharomyces pombe Home Page	This database contains all S. pombe (fission yeast) known and predicted protein coding genes, pseudogenes, transposons, tRNAs, rRNAs, snRNAs, snoRNAs...			1
Screening Nonrandomized Studies for Inclusion in Systematic Reviews of Evidence Home Page	The EDDA Study Designs and Publications terminology supports information extraction and summarization of documents screened by systematic reviewers. The focus is on reviews where nonrandomized and observational studies are eligible for inclusion.	Tanja Bekhuis, PhD, MS, MLIS	University of Pittsburgh School of Medicine	1
SED-ML Home Page	The Simulation Experiment Description Markup Language (SED-ML) is an XML-based format for encoding simulation experiments, following the requirements defined in...	SED-ML editors	COMBINE	1
SEEK Home Page	A suite of tools for the management and sharing of Systems Biology resources, such as data, models, SOPs and publications	Stuart Owen, Katy Wolstencroft, Olga Krebbs, Quyen Nguyen, Franco du Preeze, Jacky Snoep, Wolfgang Mueller, Carole Goble	University of Machester / HITS, Heidelberg	1
Semantic Enrichment of Biomedical Images Home Page	http://ceur-ws.org/Vol-1320/paper_8.pdf	ahmadchan@gmail.com	University of New Brunswick	1
Semantic Indexing of French Biomedical Data Resources Home Page	The SIFR project proposes to investigate the scientific and technical challenges in building ontology-based services to leverage biomedical ontologies and terminologies in indexing, mining and retrieval of French biomedical data.	Clement Jonquet (jonquet@lirmm.fr)	University of Montpellier - LIRMM	10
Semantic Mining of Activity, Social, and Health data Home Page	The SMASH (Semantic Mining of Activity, Social, and Health data) project develops an ontology to describe concepts and relationships of...	Dejing Dou	University of Oregon	1
semanticscience integrated ontology Home Page	The semanticscience integrated ontology (SIO) provides a simple, integrated upper level ontology (types, relations) for diverse knowledge representation across physical, processual and informational entities.	Michel Dumontier	Carleton University	0
SemGen Home Page	SemGen is a software tool for automating the modular composition and decomposition of biosimulation models. It uses BioPortal web services to provide model annotators access to reference ontology terms.	Maxwell Neal, Daniel Cook, John Gennari	University of Washington	9
Semtools Home Page	The Semantic Tools for Data Management (Semtools) project is tackling critical issues in the management and use of heterogeneous scientific...	Leinfelder, Jones, Schildhauer, O'Brien, Bowers	NCEAS - UCSB	1
SEQwiki Home Page	The SEQanswers wiki (SEQwiki) is a wiki database that provides an extensive catalogue of tools, technologies and tutorials for high-throughput sequencing (HTS), including information about HTS service providers.	Jing-Woei Li1, Keith Robison, Marcel Martin, Andreas Sjdin, Bjrn Usadel, Matthew Young, Eric C. Olivares, and Dan M. Bolser	NA	1
SGD Home Page	SGD(TM) is a scientific database of the molecular biology and genetics of the yeast Saccharomyces cerevisiae, which is commonly known as baker's or budding yeast.			1
Signaling ADEs from social media Home Page	Detect signals of ADEs from social media			2
Simulation Delivery and Documentation Deviations Home Page	The taxonomy was developed to facilitate quality assurance in the delivery of high-fidelity simulation (HFS) scenarios (mannequin-based medical simulations). It...	mcivorwr@anes.upmc.edu	University of Pittsburgh Medical Center and the Winter Institute for Simulation Education and Research (WISER)	0
SKELETOME Home Page	The aim of the SKELETOME project is to develop a community-driven, ontology-based knowledge curation platform for the skeletal dysplasia domain.	Tudor Groza	School of ITEE, The University of Queensland	6
Socrates MD Home Page	...	Jeremy Race	Socrates MD, Inc.	8
Software Tool for Rapid Annotation of Proteins Home Page	The Software Tool for Rapid Annotation of Proteins saves you time by automatically annotating a protein list with information that...		Boston University School of Medicine	1
Solving the Unsolved Rare Diseases Home Page	"Solve-RD - solving the unsolved rare diseases" is a research project funded by the European Commission for five years (2018-2022)....			3
Sorcero Health Equity Analytics Home Page	Working with AWS Health Equity Program to build cross-ontology knowledge structures for Health Equity	Richard Graves	Sorcero	3
STATistics Ontology Home Page	STATO is a general-purpose STATistics Ontology. Its aim is to provide coverage for processes such as statistical tests, their conditions...	Alejandra Gonzalez-Beltran, Philippe Rocca-Serra	University of Oxford	0
Stroke Ontology Home Page	An ontology for stroke			0
Stroke ontology Home Page	STO covers the knowledge domain of stroke based on expert views and translational continuum of stroke research.			0
Suicide Ontology Home Page	An ontology for suicidology. based on human based text mining	alexander garcia	AGC	1
SYSNPs Home Page	SYSNPs allows the user to compile information about all the SNPs in any human gene or genome region of interest...		Institut de Biologia Evolutiva	1
Systematic process based on ontological modeling applied to risk stratification in mental health for qualitative and quantitative analysis Home Page	Anxiety affects millions of people around the world. The systematization of different sets of data extracted from instruments that evaluate...	Evaldo de Oliveira da Silva e Marcello Peixto Bax	Universidade Federal de Minas Gerais e Centro Universitário UniAcademia	1
TAIR Home Page	The Arabidopsis Information Resource (TAIR) collects information and maintains a database of genetic and molecular biology data for Arabidopsis thaliana, a widely used model plant.			1
TAIR Keyword Browser Home Page	TAIR Keyword Browser searches and browses for Gene Ontology, TAIR Anatomy, and TAIR Developmental stage terms, and allows you to...		The Arabidopsis Information Resource	1
Tao Hoang Home Page	Detect signals of adverse drug events from social media	hoatn002@mymail.unisa.edu.au	University of South Australia	1
TerminologyLinkingService Home Page	Terminology Linking Service			3
text mining psychiatric clinical notes Home Page	n/a			2
The CardioVascular Research Grid Home Page	The aim of the CardioVascular Research Grid (CVRG) project is to create an infrastructure for sharing cardiovascular data and data...	Raimond Winslow, PhD	Johns Hopkins University, Emory University,	1
The Cigarette Smoke Exposure Ontology Home Page	The CSEO has potential to become a widely used standard within the academic and industrial community. Mainly because of the...			0
The Cognitive Atlas Home Page	The Cognitive Atlas is a collaborative knowledge building project that aims to develop an ontology of mental processes and relate them to the mental tasks that are used to measure them.	Russell Poldrack	Stanford	4
The Comparative Data Analysis Ontology Home Page	The objective of this project is to develop an ontology for the description of information relevant to experiments in evolutionary...	Arlin Stoltzfus, Julie Thompson, Francisco Prosdocimi, Brandon Chisham, Enrico Pontelli	NMSU, NIST, University of Strasbourg	0
The Drug Interaction Knowledge Base Home Page	The Drug Interaction Knowledge Base (DIKB) is a clinically-oriented, evidence-based, knowledge base designed to support pharmacoepidemiology and clinical decision support....	Richard D Boyce	University of Pittsburgh	1
The Exploration Of Data Dynamics Of COVID-19 Home Page	The contents of researches include: data streams or circles, knowledge Integration, the certainty or uncertainty etc. in COVID-19 fields.	Hanfeib@gmail.com	BMKI Lab,	1
The Human BioMolecular Atlas Program(HuBMAP) Home Page	HuBMAP, a project by the NIH, aims to map healthy cells in the human body through advanced molecular and cellular...		NIH	1
The Human Phenotype Ontology Home Page	The human phenotype ontology (HPO) intends to offer a tool that will allow large-scale computational analysis of the human phenome....			1
The MACiE Database, a database of enzyme reaction mechanisms Home Page	MACiE, which stands for Mechanism, Annotation and Classification in Enzymes is a database of enzyme reaction mechanisms, the amino acids and small molecules involved and the roles these components play in the enzyme's mechanism.	Gemma Holliday	EMBL-EBI, UCSF	2
The Monarch Initiative Home Page	Enabling navigation across a rich landscape of phenotypes, diseases, models, and genes for translational research.	Melissa Haendel, Chris Mungall, Maryann Martone, Harry Hochhesier, Damian Smedley, Peter Robinson		10
The Ontological Discovery Environment Home Page	A web-based environment that discovers ontological structure from empirical data.	Elissa Chesler, Erich Baker, Michael Langston, Jeremy Jay	The Jackson Laboratory	5
The Ontology And The Preliminary Researches On The Data-dynamics Of COVID-19 Home Page	A pilot project for the generalized dynamics and the pattern medicines on the COVID-19	hanfeib@gmail.com	BMKI Lab	1
The Potential Drug-drug Interaction and Potential Drug-drug Interaction Evidence Ontology Home Page	DIDEO is an ontology representing potential drug-drug interactions and their evidence based on a realism-oriented approach.	Mathias Brochhausen, Richard D. Boyce	University of Arkansas for Medical Sciences, University of Pittsburgh, University of Florida, University of Arizona	0
The Structure Function Linkage Database Home Page	The Structure-Function Linkage Database (SFLD) is a hierarchical classification of enzymes that relates specific sequence-structure features to specific chemical capabilities....	Patricia Babbitt & Gemma Holliday	UCSF	2
Time Event Ontology Home Page	The Time Event Ontology (TEO) is an OWL ontology designed for representing the temporal relations among events and time stamps.	Cui Tao	UTHeath	0
Tk-GO Home Page	Tk-GO is a GUI wrapping the basic functions of the GO AppHandle library from BDGP. GO terms are presented in...		Illuminae	1
Tools for Comparative Phenomics Home Page	Here, we provide a number of tools for the integration, analysis and exploration of phenotypes across species. We currently provide...			2
Toxicological ontology Home Page	toxicological ontology		OpenTox FP7 EU project	0
UF REDCap Home Page	REDCap is a mature, secure web application for building and managing online surveys and databases. Using REDCap's stream-lined process for...	Taryn Stoffs, Corinne Holman	University of Florida	0
Upper-level Cancer Ontology Home Page	Providing an upper-level ontology for cancer.	Andre Stander	University of Pretoria	0
UW Health HIMC Home Page	Health Information Management Center within UW Health.	Nathan S. Wilson, Keith M Wanta	University of Wisconsin	0
Vector Surveillance and Management Ontology Home Page	Produce candidate ontologies for vector surveillance and vector management with incorporation into a computer system	Saul Lozano-Fuentes, Lars Eisen	Colorado State University	0
VectorBase Home Page	VectorBase is one of four Bioinformatics Resource Centers funded by NIAID to provide web-based resources to scientific community conducting basic and applied research on arthropod vectors of human pathogens.	Daniel Lawson	University of Notre Dame, EMBL-EBI, Imperial College	6
Vertebrate Bridging Ontology Home Page	An ontology of homologies between anatomical structures across species within the subphylum Vertebrata	Ravensara Travillian	European Bioinformatics Institute	0
VIrtual Fly Brain Home Page	A data integration hub for Drosophila neuroanatomy. Functionality includes:- Query brain regions for innervating neurons classes and 3D neuron images.- Query brain regions and neurons for expressed trangenes and phenotypes.			1
Virtual Imaging Platform project Home Page	The Virtual Imaging Platform project (VIP) is a french project supported by ANR (ANR-09-COSI-03 grant) aiming at sharing medical image...	Tristan Glatard	collaborative research project	8
Virus Pathogen Resource Home Page	Database and analysis resource for human pathogenic viruses, including sequence, surveillance and host response data.	Richard H. Scheuermann, et al.	J. Craig Venter Institute	7
ViSion™ Multimedia Structured Reporting Home Page	ViSion™ is a multimedia structured reporting solution for image-based medical disciplines that captures key images and voice descriptions, tags images with metadata using an ontology, and generates a multimedia report of image findings.	David J. Vining, MD	VisionSR, Inc.	0
Visualization Tool for Refining Mappings between Biomedical Ontologies Home Page	The task of identifying mappings between ontologies, is a key task for knowledge sharing between applications that use different ontologies....	Samuel	Biomedical Ontologies Departement	0
VIVO Home Page	VIVO is an open source semantic web application originally developed and implemented at Cornell. When installed and populated with researcher...	(see project homepage)	(see project homepage)	1
Wandora Home Page	Wandora is a general purpose information extraction, management and publishing application based on Topic Maps and Java. Wandora has graphical...		Grip Studios Interactive	1
wFleaBase Home Page	wFleaBase is a repository of data and an electronic information service provided for the Daphnia Genomics Consortium (DGC) and the general scientific community.			1
WikiPathways Home Page	Pathway repository	https://groups.google.com/forum/#!forum/wikipathways-discuss	Maastricht University + Gladstone Institute	2
WormBase Home Page	WormBase is an international consortium of biologists and computer scientists dedicated to providing the research community with accurate, current, accessible...			1
WPHH (WSMIO) Home Page	The Web security Data Model specification describing a structured model and format to enable annotations to be shared and reused...			2
XEML Interactive Designer Home Page	XEML Lab has been created to assist plant biologists in designing and documenting simple or sophisticated experiments in a machine...		Max Planck Institute of Molecular Plant Physiology	5
Xenbase Home Page	The Xenopus model organism database.	xenbase@ucalgary.ca	University of Calgary/ Cincinnati Children's Hospital Medical Center	3
ZFIN Home Page	The zebrafish model organism database.	zfinadmn@zfin.org	University of Oregon	3