ICBO 2022

Table of Contents

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• Exploring the Ontology of Pandemic A.1-10 PDF
  C. Maria Keet
• Coordinating Coronavirus Research: The Virus Infectious Disease Ontology B.1-14 PDF
  Lindsay G. Cowell, Sebastian Deusing, Barry Smith 0001, Yongqun He, Shane Babcock, Regina Hurley, Eric Merrell, John Beverley
• Classifying Animal Breeds with the Vertebrate Breed Ontology (VBO) C.1-7 PDF
  Melissa A. Haendel, Zhi-Liang Hu, Frank W. Nicholas, Nicole A. Vasilevsky, Chris Mungall, Gregoire Leroy, Kathleen R. Mullen, Imke Tammen, Sabrina Toro, Nicolas Matentzoglu, Halie Rando
• An Ontological Approach to Developing a Unified and Interdisciplinary Framework for Aging D.1-11 PDF
  Jean-François Ethier, Fumiaki Toyoshima, Adrien Barton
• Ontology Representation for Cholangiocarcinoma E.1-7 PDF
  Alexander D. Diehl, Anuwat Pengput
• The Gaps in the Terminological Representation of the ACORN Social Determinants of Health Survey F.1-10 PDF
  Keith E. Campbell, Diane Montella, Melissa P. Resnick, Frank LeHouillier, Wilmon McCray, Jonathan R. Nebeker, Peter L. Elkin, Steven H. Brown
• Using Ontologies to Enhance Data on Intimate Partner Violence G.1-6 PDF
  S. Clint Dowland, William R. Hogan
• An Ontology for Healthcare Systems H.1-9 PDF
  François Goyer, Jean-François Ethier, Adrien Barton, Paul Fabry
• Ubergraph: Integrating OBO Ontologies into a Unified Semantic Graph I.1-9 PDF
  Nicolas Matentzoglu, Anita R. Caron, Ugur Bayindir, David Osumi-Sutherland, Chris Mungall, James P. Balhoff
• Development of an Image Data Set Class: Its Role in Biomedical Imaging and Neuroimaging Research J.1-9 PDF
  Alexander Bartnik, Alexander D. Diehl, Alan Ruttenberg, William D. Duncan, Michael G. Dwyer, Mackenzie T. Smith, Lucas M. Serra
• Knowledge of the Ancestors: Intelligent Ontology-aware Annotation of Biological Literature using Semantic Similarity K.1-10 PDF
  Prashanti Manda, Somya D. Mohanty, Pratik Devkota
• Performance Summary Display Ontology: Feedback Intervention Content, Delivery, and Interpreted Information L.1-10 PDF
  Colin Gross, Cooper Stansbury, John Rincon, Zach Landis-Lewis
• Environmental Health Language Collaborative (EHLC): a Route to Environmental Health Science Data Harmonization M.1-6 PDF
  Anna Maria Masci, Rima Habre, Stephanie Holmgren, Rebecca R. Boyles, Charles Schmitt, Anne E. Thessen, Carmen J. Marsit
• OMOP-2-OPMI: Ontologization of OMOP CDM Using OPMI to Support Clinical Data interoperability and analysis N.1-11 PDF
  Yongqun He, Long Tran
• An Ontological Representation of Money with a View Toward Economic Determinants of Health O.1-9 PDF
  William R. Hogan, Matthew Diller
• AlphaFold, AI and Ontologies P.1-3 PDF
  Barry Smith 0001
• The Coevolution of Ontologies and Knowledge-based Analytics in Bioinformatics Q.1-4 PDF
  Robert Hoehndorf
• From Survey to Ontology, the Challenges and Opportunities in Ontologizing Questions and Answers R.1-R.1 PDF
  Melissa A. Haendel, Anne E. Thessen, Shahim Essaid, Lauren E. Chan, Stephanie S. Hong, Jimmy Phuong
• Development of Axiomatization for the Cholangiocarcinoma Ontology Using Common Logic Interchange Format S.1-S.1 PDF
  Anuwat Pengput, Alexander D. Diehl
• Collaborative Development of a Process Chemistry Domain Ontology, PROCO T.1-T.1 PDF
  Anna Dunn, Zachary E. X. Dance, Wes Schafer, Vincent Antonucci, Yongqun Oliver He, Jan Nespor
• NIDM-Experiment: An Ontology for Annotating Neuroscientific Data U.1-3 PDF
  Satrajit S. Ghosh, Karl G. Helmer, Jean-Baptiste Poline, Theo G. M. van Erp, David B. Keator, Derek Chaplin, Nazek Queder, Camille Maumet
• Shaping the Semantics of Healthy and Sustainable Food Systems: a Participatory Metaframework-based Approach V.1-2 PDF
  Matthew C. Lange, Andrea Borghini, Nicola Piras, Giorgio A. Ubbiali
• Ontological Analysis of Collection Improves Classification of Cardinality Phenotypes W.1-2 PDF
  Sarah M. Alghamdi, Robert Hoehndorf
• Enhancing Childhood Nutrition Data with Open Biomedical Ontologies X.1-X.1 PDF
  Alexander D. Diehl, Linda Larson-Prior, Alexander P. Cox, Aaron S. Kemp, Jonathan P. Bona
• Building a Radiation Therapy Ontology Y.1-Y.1 PDF
  Jonathan P. Bona, Charles Mayo, Peter Gabriel, Mark Phillips (disambiguation), Andre Dekker
• Building an Application Ontology and Knowledge Graph for Rare Disease Patient-Level Data Z.1-Z.1 PDF
  Emily Hartley, James A. Overton, Daniel Olson, Ian Braun, Nicolas Matentzoglu, Ramona L. Walls
• The Protein Conformation Ontology AA.1-AA.1 PDF
  Lauren Wishnie, Morgan Mitchell, Alexander D. Diehl
• Ontological Representation and Analysis of the Molecular Interactions Related to COVID-19-associated Acute Kidney Injury BB.1-BB.1 PDF
  Ghida Arnous, Yongqun He
• Knowledge Systematization for Cellular Senescence Processes by Homeostasis Imbalance Process Ontology CC.1-CC.1 PDF
  Yuki Yamagata, Shuichi Onami, Hiroshi Masuya
• OBO Academy: Training Materials for Bioontologists DD.1-DD.1 PDF
  Nicolas Matentzoglu, Sabrina Toro, Rebecca C. Jackson, Shawn Zheng Kai Tan, James A. Overton, Bradley Varner, David Osumi-Sutherland, Nicole A. Vasilevsky
• The Ontology of Adverse Events in 2022 EE.1-EE.1 PDF
  Qiuyue Yang, Jiangan Xie, Xue Zhang (disambiguation), Yongqun He, Jun Su (disambiguation)
• Toward an Occupation Ontology, OccO FF.1-FF.1 PDF
  Eric Merrell, Yongqun He, John Beverley, Damion M. Dooley, Sam Smith
• Ontology Integration for Discovering Bioresources Contributing to Medical Science Research GG.1-GG.1 PDF
  Daiki Usuda, Hiroshi Masuya, Toyoyuki Takada, Yuki Yamagata, Tatsuya Kushida
• The OntoDev Suite of Ontology and Data Integration Tools HH.1-HH.1 PDF
  James A. Overton
• A Data Structure for the Implementation of Referent Tracking Systems II.1-II.1 PDF
  Lauren Wishnie, Alexander D. Diehl
• Translating Medical Vocabularies via the Unified Medical Language Systems JJ.1-2 PDF
  Ramona L. Walls, Ian Braun, William T. Roddy, Terrence McHugh, Smith Heavner, Diane Corey, Daniel Olson, Emily Hartley
• Summarising scRNAseq Expression Data in FlyBase KK.1-4 PDF
  Damien Goutte-Gattat
• COB: A Core Ontology for Biology and Biomedicine LL.1-LL.1 PDF
  Nomi L. Harris, Björn Peters, William D. Duncan, Chris Mungall, James A. Overton, Rebecca C. Jackson, Nicolas Matentzoglu, Randi Vita
• Data Harmonization through Use of Community Standards in the Common Fund Data Ecosystem MM.1-7 PDF
  Arthur Brady, Philippe Rocca-Serra, Owen White, Mark A. Musen, Michelle G. Giglio, Jonathan C. Silverstein, Karl Czajkowski, Raja Mazumder, Bernard de Bono, Amanda Charbonneau, Jeremy Yang, Thomas H. Gillespie, Daniel Clark, Jeffrey S. Grethe, Suvarna Nadendla
• Investigating Ontology Use in Artificial Intelligence and Machine Learning for Biomedical Research - A Preliminary Report from A Literature Review NN.1-4 PDF
  Ansu Chatterjee, Asiyah Yu Lin, Jaleal Sanjak, Andrey I. Seleznev, Lalisa "Mariam" Lin, Paulene Grier, Christopher Travieso, Tianming "Danny" Ning