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https://ceur-ws.org/Vol-2708/preface.pdf
JOWO 2020
The Joint Ontology Workshops
Proceedings of the Joint Ontology Workshops 2020
Episode VI: The Bolzano Summer of Knowledge
Virtual & Bozen-Bolzano, Italy, August 31st to October 7th, 2020
Edited by
Karl Hammar | Oliver Kutz | Anastasia Dimou | Torsten Hahmann
Robert Hoehndorf | Claudio Masolo | Randi Vita
and for
DeepOntoNLP | FOUST IV
ROBONTICS | SKALE | WOMoCoE
S. B. Abbès, P. Calvez, R. Hantach (DeepOntoNLP)
T. P. Sales, D. Porello (FOUST IV)
D. Beßler, S. Borgo, M. Diab, A. Gangemi,
A. Olivares-Alarcos, M. Pomarlan, R. Porzel (RobOntics)
M. G. Skjæveland, D. P. Lupp, I. Horrocks,
J. W. Klüwer, C. Kindermann (SKALE)
S. Borgo, L. Bozzato, T. Mossakowski, L. Serafini (WOMoCoE)
http://www.iaoa.org/jowo/2020/
PREFACE
JOWO – The Joint Ontology Workshops
These proceedings include the papers presented at JOWO 2020, the sixth edition
of the Joint Ontology WOrkshops (JOWO). JOWO is a venue of workshops that,
together, address a wide spectrum of topics related to ontology research, ranging
from cognitive science to knowledge representation, natural language processing,
artificial intelligence, logic, philosophy, and linguistics.
JOWO’s mission is to provide a platform for the diverse communities interested
in building, reasoning with, and applying formalised ontologies both in theory
and applications.
The previous editions of the JOWO series were the following:
• The first JOWO edition was ‘Episode I: The Argentine Winter of Ontology’,
held in Buenos Aires, Argentina, in co-location with the 24th International
Joint Conference on Artificial Intelligence (IJCAI 2015). The proceedings of
JOWO 2015 appeared as volume 1517 of CEUR.1
• The second JOWO edition was ‘Episode II: The French Summer of Ontology’,
held in Annecy, France, in co-location with the 9th International Conference
on Formal Ontology in Information Systems (FOIS 2016). The proceedings of
JOWO 2016 appeared as volume 1660 of CEUR.2
• The third JOWO edition was ‘Episode III: The Tyrolean Autumn’, hosted by
the Free University of Bozen-Bolzano in Bolzano, Italy, in September 21–23,
2017. The proceedings of JOWO 2017 appeared as volume 2050 of CEUR.3
• The fourth JOWO edition was ‘Episode IV: The South African Spring (JOWO
2018 @ FOIS 2018)’, held in Cape Town, South Africa, in co-location with
the 10th International Conference on Formal Ontology in Information Systems
(FOIS 2018). The proceedings of JOWO 2018 appeared as volume 2205 of
CEUR.4
• The fifth JOWO edition was ‘Episode V: The Styrian Autumn of Ontology
(JOWO 2019)’, held in Graz, Austria, on September 23–25, 2019. The proceed-
ings of JOWO 2019 appeared as volume 2518 of CEUR.5
JOWO 2020 comprised a confederation of nine ontology workshops, covering a
broad spectrum of contemporary applied ontology research, including its foun-
dational aspects (FOUST IV), its methodology, evaluation and collaboration
(WOMoCoE, COB) and scalable ontology tooling supporting industrial uptake
(SKALE). The JOWO workshops also discussed and contributed to the appli-
1 See http://ceur-ws.org/Vol-1517/.
2 See http://ceur-ws.org/Vol-1660/.
3 See http://ceur-ws.org/Vol-2050/.
4 See http://ceur-ws.org/Vol-2205/.
5 See http://ceur-ws.org/Vol-2518/.
1
cation of and intersection between ontology and other technologies, including
deep learning (DeepOntoNLP), robotics (RobOntics), agriculture and nutrition
(IFOW), the life sciences (CELLS, VDOS).
The proceedings of five of those workshops are presented in this volume, while
the remaining four will publish proceedings through, e.g., journal special issues.
A total of 43 papers were submitted for this volume, of which 32 were accepted.
JOWO workshops published in this volume:
• DeepOntoNLP: Deep Learning meets Ontologies and Natural Language Pro-
cessing – 1st International Workshop6
• FOUST IV: 4th Workshop on Foundational Ontologies7
• RobOntics: International Workshop on Ontologies for Autonomous Robotics8
• SKALE: Workshop on Scalable Knowledge Graph Engineering9
• WOMoCoE: 5th International Workshop on Ontology Modularity, Contextu-
ality, and Evolution10
JOWO workshops published separately:
• CELLS: 4th International Cells in Experimental Life Science Workshop11
• COB: A Core set of Open Biological and Biomedical Ontology (OBO) Foundry
Terms
• IFOW: Integrated Food Ontology Workshop12
• VDOS: 9th International Workshop on Vaccine and Drug Ontology Studies 13
6 See https://www.dl-onto-nlp-fois2020.ml.
7 See https://foust.inf.unibz.it/foust4.
8 See https://robontics2020.github.io.
9 See https://skale-workshop.gitlab.io.
10 See https://womocoe20.fbk.eu.
11 See https://sites.google.com/view/cells-2020-workshop/home.
12 See https://foodon.org/icbo-2020-food-workshop/.
13 See https://sites.google.com/site/vdosworkshop/VDOS-2020.
2
Acknowledgements
We would like to thank all authors and speakers for their contributions, and
the programme committee members and additional reviewers for their timely
reviewing. Moreover, we would like to thank the International Association for
Ontology and its Applications (IAOA)14 for providing support and facilities.
JOWO Chairs
Anastasia Dimou Ghent University, Belgium
Karl Hammar Jönköping University, Sweden
Torsten Hahmann University of Maine, USA
Claudio Masolo Laboratory for Applied Ontology, ISTC-CNR, Italy
Randi Vita La Jolla Institute for Immunology, USA / OBO Foundry
Robert Hoehndorf King Abdullah University of Science and Technology (KAUST),
Saudi Arabia
Local Chair
Oliver Kutz Free University of Bozen-Bolzano, Italy
Proceedings Chair
Karl Hammar Jönköping University, Sweden
Web Chair
Selja Seppälä University College Cork, Ireland
JOWO Steering Committee
Stefano Borgo Laboratory for Applied Ontology, ISTC-CNR, Italy
Oliver Kutz Free University of Bozen-Bolzano, Italy
Frank Loebe University of Leipzig, Germany
Fabian Neuhaus Otto-von-Guericke-University of Magdeburg, Germany
14 See http://iaoa.org.
3
JOWO 2020 Workshops
DeepOntoNLP
Deep Learning meets Ontologies and Natural Language Processing –
1st International Workshop
Programme Chairs
Sarra Ben Abbès Engie, France
Rim Hantach Engie, France
Philippe Calvez Engie, France
Programme Committee
Lynda Temal ENGIE, France
Nada Mimouni CNAM, France
Rafika Boutalbi Trinov, France
Deep Learning (DL) meets Natural Language Processing (NLP) to solve human
language problems for further applications, such as information extraction, ma-
chine translation, search and summarization. Previous works has attested the
positive impact of domain knowledge on data analysis and vice versa, for example
pre-processing data, searching data, redundancy and inconsistency data, knowl-
edge engineering, domain concepts and relationships extraction, etc. Ontology is a
structured knowledge representation that facilitates data access (data sharing and
reuse) and assists the DL process as well. DL meets recently ontologies and tries
to model data representations with many layers of non-linear transformations.
The combination of DL, ontologies and NLP might be beneficial for different
tasks:
• Deep Learning for Ontologies: ontology population, ontology extension, ontol-
ogy learning, ontology alignment and integration,
• Ontologies for Deep Learning: semantic graph embeddings, latent semantic
representation, hybrid embeddings (symbolic and semantic representations),
• Deep Learning for NLP: summarization, translation, named entity recognition,
question answering, document classification, etc.
• NLP for Deep Learning: parsing (part-of-speech tagging), tokenization, sen-
tence detection, dependency parsing, semantic role labeling, semantic depen-
dency parsing, etc.
4
FOUST IV
4th Workshop on Foundational Ontologies
Programme Chairs
Tiago Prince Sales Free University of Bozen-Bolzano, Italy
Daniele Porello Laboratory for Applied Ontology, ISTC-CNR, Trento, Italy
Programme Committee
Adrien Barton Institut de Recherche en Informatique de Toulouse, CNRS, France
Antony Galton University of Exeter, UK
Barry Smith University of Buffalo, USA
C. Maria Keet University of Cape Town, South Africa
Emilio Sanfilippo Le Studium, Institute for Advanced Studies, France
Fabian Neuhaus University of Magdeburg, Germany
Frank Loebe University of Leipzig, Germany
Giancarlo Guizzardi Free University of Bozen-Bolzano, Italy
João Paulo Almeida Federal University of Espı́rito Santo, Brazil
Laure Vieu Institut de Recherche en Informatique de Toulouse, CNRS, France
Mattia Fumagalli Free University of Bozen-Bolzano, Italy
Michael Grüninger University of Toronto, Canada
Nicola Guarino Laboratory for Applied Ontology, ISTC-CNR, Italy
Oliver Kutz Free University of Bozen-Bolzano, Italy
Pierre Grenon University College London, UK
Riichiro Mizoguchi Japan Advanced Institute of Science and Technology, Japan
Roberta Ferrario Laboratory for Applied Ontology, ISTC-CNR, Italy
Stefano Borgo Laboratory for Applied Ontology, ISTC-CNR, Italy
Foundational ontology is about categories of reality or thought which are common
to all or almost all subject-matters. Commonly considered examples of such cat-
egories include ‘object’, ‘quality’, ‘function’, ‘role’, ‘process’, ‘event’, ‘time’, and
‘place’. There are several foundational ontologies that provide a systematic for-
mal representation of these categories, their relationships, and interdependencies.
Amongst existing foundational ontologies, there is both a substantial measure
of agreement and some dramatic disagreements. There is currently no uniform
consensus concerning how a foundational ontology should be organised, how far
its ‘reach’ should be (e.g., is the distinction between physical and non-physical
entities sufficiently fundamental to be included here?), and even what role it
should play in relation to more specialised domain ontologies.
The main use of foundational ontologies is as a starting point for the development
of domain ontologies and application ontologies. A foundational ontology provides
an ontology engineer with a conceptual framework that enables her to analyse a
given domain, identify the entities in the domain as specialisations of the generic
categories in the foundational ontology, and often reuse relationships (e.g., part-
hood) from the foundational ontology. The utilisation of foundational ontologies
for the development of domain and application ontologies has two main benefits.
5
Firstly, the ontology engineer can reuse an existing set of well-studied ontological
distinctions and design principles instead of having to develop an ad-hoc solution.
Secondly, if two domain ontologies are based on the same foundational ontology,
it is easier to integrate them.
FOUST is an ontology workshop series that offers researchers in foundational
ontology an opportunity to present their results. This includes work on specific
areas of foundational ontology as well as work on a particular foundational ontol-
ogy. Topics covered in this edition of FOUST include, amongst others, processes,
events, functions, roles, and identity criteria.
6
RobOntics
International Workshop on Ontologies for Autonomous Robotics
Programme Chairs
Daniel Beßler University of Bremen, Germany
Stefano Borgo Laboratory for Applied Ontology, ISTC-CNR, Italy
Mohammed Diab Universitat Politècnica de Catalunya, Spain
Aldo Gangemi University of Bologna and ISTC-CNR, Italy
Alberto Olivares-Alarcos Institut de Robòtica i Informàtica Industrial (CSIC-
UPC), Spain
Mihai Pomarlan University of Bremen, Germany
Robert Porzel University of Bremen, Germany
Programme Committee
John Bateman University of Bremen, Germany
Michael Beetz University of Bremen, Germany
Julita Bermejo Universidad Isabel I, Spain
Katrien Beuls Free University of Brussels, Belgium
Carlos Hernández Corbato Delft University of Technology, Netherlands
Paul Van Eecke Free University of Brussels, Belgium
Kerstin Fischer University of Southern Denmark, Denmark
Sebastian Höffner University of Bremen, Germany
Oliver Kutz Free University of Bolzano, Italy
Antonio Lieto University of Turin, Italy
Chris Nowak Defence Science and Technology Group, Australia
Alessandro Oltramari Bosch Research, USA
Daniele Porello Laboratory for Applied Ontology, ISTC-CNR, Italy
Jan Rosell Universitat Politècnica de Catalunya, Spain
Ricardo Sanz Bravo Universidad Politécnica de Madrid, Spain
Paulo Jorge Sequeira Gonçalves Polytechnic Institute of Castelo Branco, Portugal
Luc Steels Free University of Brussels, Belgium
Elisa Tosello University of Padova, Italy
Remi Van Trjp Sony Computer Science Laboratory Paris, France
ROBONTICS focuses on the area of robot autonomy enabled by knowledge-driven
approaches, and in particular formal ontologies. It aims to foster interaction across
robotics, ontology, and knowledge representation and reasoning, to match open
problems to promising approaches, and to review progress in knowledge-driven
robotics.
A partial list of topics of interest includes:
• Foundational issues: which ontological approaches are better suited for au-
tonomous robotics? how should notions such as capability or context be mod-
elled?
• Robustness: how can ontologies help robots cope with the variety and relatively
fluid structure of human environments?
7
• Ontologies in the perception-action loop: how might ontologies be used to rec-
ognize action possibilities?
• Interactivity: how should conversations be formalized, in particular the giving
of instructions?
• Normed behavior: how can we represent, and then have a robot act according
to, norms on behavior?
• Explainability: what is an explanation, and how can one be generated from a
collection of knowledge items?
8
SKALE
Workshop on Scalable Knowledge Graph Engineering
Programme Chairs
Martin G. Skjæveland University of Oslo, Norway
Daniel P. Lupp University of Oslo, Norway
Ian Horrocks University of Oxford, UK
Johan W. Klüwer DNV GL, Norway
Christian Kindermann University of Manchester, UK
Programme Committee
Aidan Hogan DCC, Universidad de Chile
Alan Ruttenberg
Alba Fernandez Universidad Politécnica de Madrid
Alessandro Adamou The Open University
Anastasia Dimou Ghent University
Bijan Parsia The University of Manchester
Boris Motik University of Oxford
Ernesto Jimenez-Ruiz City, University of London
Eva Blomqvist Linköping University
Evgeny Kharlamov Bosch; University of Oslo
Francisco Martin-Recuerda DNV GL
Frank Van Harmelen Vrije Universiteit Amsterdam
Gezim Sejdiu University of Bonn
Giancarlo Guizzardi Federal University of Espirito Santo & UFES
Ioan Toma STI Innsbruck
Jeff Z. Pan University of Aberdeen
Jens Wissmann Festo AG & Co. KG
Juan Sequeda data.world
Laurent Pierre Electricité De France
Mariano Rodrı́guez Muro Google
Markus Krötzsch TU Dresden
Martin Giese University of Oslo
Maxime Lefrançois MINES Saint-Etienne
Ognjen Savkovic Free University of Bolzano
Oscar Corcho Universidad Politécnica de Madrid
Paul Groth University of Amsterdam
Peter Haase metaphacts
Petr Kremen Czech Technical University in Prague
Rafael S. Gonçalves Stanford University
Roman Kontchakov Birkbeck, University of London
Steffen Staab IPVS, Universität Stuttgart, DE and WAIS, University of
Southampton, UK
Uli Sattler University of Manchester
York Sure-Vetter Karlsruhe Institute of Technology
While the use of knowledge bases is rapidly gaining industrial interest, ontologies
are by and large still a fringe technology in most industries. A major impedi-
9
ment for industrial uptake is often attributed to the lack of scalable knowledge
engineering tools and methodologies. Moreover, the development, maintenance,
and use of knowledge bases and the tools and methods that are built to support
these tasks usually require considerable specialist training. Enterprises that wish
to explore the benefits of using semantic technologies will likely lack the necessary
competence and will find that there are a few off-the-shelf ontologies, tools, and
methodologies that fit their existing system architecture and information flow.
The SKALE workshop wants to attract and stimulate novel research and inno-
vative advances of semantic technologies with the aim of making these technolo-
gies more easily accessible to and useful for modern data-driven industries. The
workshop also wants to investigate where the real world problems are, and where
and what are the current show-stoppers for efficient large-scale deployments of
ontology-based information systems?
10
WOMoCoE
5th International Workshop on Ontology Modularity, Contextuality,
and Evolution
Programme Chairs
Stefano Borgo Laboratory for Applied Ontology, ISTC-CNR, Italy
Loris Bozzato Fondazione Bruno Kessler, Italy
Till Mossakowski Otto-von-Guericke University Magdeburg, Germany
Luciano Serafini Fondazione Bruno Kessler, Italy
Programme Committee
Valeria De Paiva Samsung Research America and University of Birmingham, UK
José M. Giménez-Garcı́a Université Jean Monnet Saint-Étienne, France
Adila A. Krisnadhi University of Indonesia, Indonesia
Raphael Peñaloza University of Milano-Bicocca, Italy
Patrick Rodler Alpen-Adria Universität Klagenfurt, Austria
Vojtěch Svátek Univ. Economics Prague, Czech Republic
George Vouros University of Piraeus, Greece
In the area of ontologies for Knowledge representation and reasoning, knowledge
is rarely considered as a monolithic and static structure: partitioning knowledge
into distinct modular structures is central to organize knowledge bases, from their
design to their management, from their maintenance to their use in knowledge
sharing. Moreover, keeping knowledge in separate modules is essential for rep-
resenting and for reliable and effective reasoning in changing situations. Finally,
evolution of knowledge resources, in terms of updates by newly acquired knowl-
edge, is an important factor influencing the meaningfulness of stored knowledge
over time.
Considering these emerging needs, the International Workshop on Ontology Mod-
ularity, Contextuality, and Evolution (WOMoCoE) offers the ground to practi-
tioners and researchers to discuss current work on practical and theoretical as-
pects of modularity, contextuality and evolution of ontology based knowledge
resources.
WOMoCoE 2020, the 5th edition of the Workshop on Ontology Modularity, Con-
textuality, and Evolution, takes place (as a virtual workshop) in Bolzano on Sept.
16, 2020 within the framework of the 6th Joint Ontology WOrkshops (JOWO
2020) and the 22nd International Conference on Knowledge Engineering and
Knowledge Management (EKAW 2020).
The workshop schedule included the oral presentation of the accepted contribu-
tions included in this volume. As in the past, in order to foster active, broad
and cross-disciplinary interactions, much time is dedicated to the discussion of
the papers. Each submitted paper was reviewed by at least three members of the
program committee.
11
CELLS
The 4th International Cells in Experimental Life Science Workshop
Programme Chairs
Alexander D. Diehl University at Buffalo, USA
Sirarat Sarntivijai ELIXIR, UK
Yongqun “Oliver” He University of Michigan, USA
The rapid advancement of experimental technologies for understanding cellular
biology has led to challenges in keeping up with the volume and format of the
data being produced and its distillation into new biological knowledge. Current
high throughput methods such as single cell RNA sequencing and flow and mass
cytometry are producing a large amount of data related to existing and novel cell
types in health and disease. At the same time, experimental approaches such as
microscopy, genomics, and metabolomics are expanding understanding of cellular
functioning in relation to neighboring cells and the whole organism. Ontologies
are being increasingly used as a tool for integrating and analyzing these diverse
data types. The Cell Ontology (CL) and Cell Line Ontology (CLO) have long
been established as reference ontologies in the OBO framework for representing
cell type information, but additional ontologies such as the Gene Ontology, Pro-
tein Ontology, and the Ontology for Biomedical Investigation are also important
for representing not only experimental data about cell types but also the meth-
ods used to produce that data. There is a continuing need for improve auto-
mated analysis techniques to link data about cells with appropriate ontologies.
The CELLS 2020 workshop will focus on two themes: (i) challenges in the knowl-
edge representation of newly-discovered and known cell types, and (ii) challenges
in the knowledge representation of cells in disease states. This workshop will pro-
vide a venue for panel discussions of innovative solutions as well as the challenges
in the development and application of biomedical ontologies to represent and an-
alyze in vivo and in vitro cell- and cell line-related knowledge and data, including
stem cell technologies. The workshop will cover the extension of CL and CLO
for ontological representation of cell types and cell lines in new methodologies
and experiments. It will also cover the applications and challenges in real-world
use cases which may require other ontological adaptations beyond CL and CLO.
Selected submissions will be featured in a BMC Bioinformatics thematic CELLS
issue, as those from previous CELLS workshops have been.
12
COB
A Core set of Open Biological and Biomedical Ontology (OBO)
Foundry Terms
Programme Chair
Randi Vita La Jolla Institute for Immunology, USA
The Open Biological and Biomedical Ontology (OBO) project is a collective of
ontology developers that are committed to collaboration and adherence to shared
principles. The OBO Foundry mission is to develop a family of interoperable on-
tologies that are both logically well-formed and scientifically accurate. Partici-
pants voluntarily adhere to and contribute to the development of an evolving set
of principles including open use, collaborative development, non-overlapping and
strictly-scoped content, and common syntax and relations. The OBO Foundry
provides services to the community such as hosting persistent URLs and ontology
files, recording metadata for all ontologies in the OBO registry, as well as support-
ing discussion forums and regular calls between participants. We have developed a
set of key top-level ontology terms that unify the many OBO Foundry ontologies,
termed COB. COB simplifies the identification of terms, organizes terms, and
helps users navigate across OBO projects. It includes logic that links OBO on-
tologies together, allowing interoperability problems to be detected and corrected.
It also allows users to see related ontology terms from multiple ontologies at the
same time. This helps users understand how OBO ontologies and their terms are
related, as well as aiding developers to ensure interoperability. The purpose of
this workshop is to continue active development of COB, taking advantage of
the ICBO meeting to gather together, in person, representatives from the diverse
OBO Foundry ontologies. As COB is still in development, we are eager to obtain
feedback from the ontology community. We want to collect actionable suggestions
on how OBO ontologies work or do not work for users, and what users most want
to see included in COB.
13
IFOW
Integrated Food Ontology Workshop
Programme Chairs
Damion Dooley University of British Columbia, Canada
Emma Griffiths Simon Fraser University, Canada
Hande Kucuk McGinty Collaborative Drug Discovery, USA
Robert Warren Myra Analytics, Canada
Programme Committee
Leigh Carmody Robinson Lab / Jackson Laboratory, USA
Melissa Haendel Oregon State University, USA
Lauren Chan Oregon State University, USA
Lynn Schriml University of Maryland, USA
Duccio Cavalieri University of Florence, Italy
Tarini Naravane University of California, Davis, USA
Damion Dooley University of British Columbia, Canada
Robert Warren Myra Analytics, Canada
Jessica Singer Myra Analytics, Canada
Controlled vocabulary standardization efforts covering agricultural and food do-
mains are evolving since their inception decades ago thanks to the mandates and
continued support of institutional caretakers. Popular examples are FoodEx2, the
European Food Safety Authority (EFSA) food classification and description sys-
tem, the Global Language of Business GS1 product categorization scheme, the
EUROFIR promoted LanguaL food composition thesaurus, the UN Food and
Agriculture Organization’s AGROVOC SKOS-based vocabulary, and its support
of the International Network of Food Data Systems (INFOODS) vocabulary for
food nutrition testing. These vocabularies are used in a growing interconnected
food database landscape but suffer from format issues like textual or spreadsheet
formats, unresolvable identifiers, and inconsistent category semantics. Ontologies
are new entrants into the food domain, bringing a wave of Semantic Web tech-
nology and philosophy to bear on the issue of data sharing and modeling of food-
related activity and research which are becoming critical in the face of rapid
change to our environment and anthroposphere. Examples range from BBC’s
Food Ontology, driving its culinary media universe, to recently published research
laboratory initiated ontologies like OBOFoundry members FoodOn, the Food
Biomarker Ontology (FOBI), and the Ontology for Nutritional Studies (ONS),
and related ontologies like the Medical Action Ontology (MAxO) and the En-
vironmental Conditions, Treatments and Exposures ontology (ECTO) that are
under development. Underpinning these mid-level, model-focused ontologies are
environmental, chemical, biological, anatomical, disease and phenotype ontolo-
gies. Academic, agricultural and public health agencies are considering the ben-
efits and complexities of adopting ontology in their research and data manage-
14
ment and reporting infrastructure. How can ontologies interface to legacy datasets
and online databases described by existing vocabularies? What vocabulary, tool
ecosystem and data models are needed to correlate agricultural treatments, nu-
tritional data, eating patterns, biomarkers, pathogens, and phytochemical levels
with disease and health phenotypes? This workshop seeks to define the cover-
age of the different ecological, agricultural, nutritional, dietary, public health, one
health surveillance, food security, and trade domains that food-related ontologies
are modeling, and the use of data translation tools for bringing legacy data into
the ontology fold.
15
VDOS
9th International Workshop on Vaccine and Drug Ontology Studies
Programme Chairs
Cui Tao University of Texas, USA
Yongqun “Oliver” He University of Michigan, USA
Junguk Hur University of North Dakota, USA
Programme Committee
Guoqian Jiang Mayo Clinic, USA
Jie Zheng University of Pennsylvania, USA
Richard Boyce University of Pittsburgh, USA
Asiyah Yu Lin Food and Drug Administration (FDA), USA
Yuji Zhang University of Maryland, USA
Drugs and vaccines have contributed to dramatic improvements in public health
worldwide. Over the last decades, there have been efforts in the biomedical on-
tology community that represent various areas associated with drugs includ-
ing vaccines that extend existing health and clinical terminology systems (e.g.,
SNOMED, RxNorm, NDF- RT, and MedDRA), vernacular medical terminolo-
gies, and their applications to research and clinical data. This workshop will pro-
vide a platform for discussing innovative solutions as well as the challenges in the
development and application of biomedical ontologies to representing and ana-
lyzing drugs and vaccines, their administration, immune responses induced, ad-
verse events, and similar topics. The workshop will cover two main areas: (i) on-
tology representation of vaccines, drugs, and vaccine/drug-related domains (e.g.,
adverse events), and (ii) applications of the ontologies in real world situations
– administration, adverse events, etc. Examples of biomedical subject matter in
the scope of this workshop: drug components (e.g., drug active ingredients, vac-
cine antigens, and adjuvants), administration details (e.g., dosage, administra-
tion route, and frequency), gene immune responses and pathways, drug-drug or
drug-food interactions, and adverse events. Both research and clinical subjects
will be covered. We will also focus on computational methods used to study these,
for example, literature mining of vaccine/drug-gene interaction networks, path-
way analysis, meta-analysis of host immune responses, and time event analysis of
the pharmacological effects. We encourage submissions related to the COVID-19
pandemic. Drugs and vaccines are critical to fight against the COVID-19. We
welcome papers in the domain of drugs and vaccines against COVID-19.
16
17