Chris Mungall

Publication Activity (10 Years)

Years Active: 1996-2023
Publications (10 Years): 14

Top Topics

Semantically Enhanced

High Resolution

Top Venues

Nucleic Acids Res.

ICBO/BioCreative

J. Biomed. Semant.

Publications

Tudor Groza, J. Harry Caufield, Dylan Gration, Gareth Baynam, Melissa A. Haendel, Peter N. Robinson, Chris Mungall, Justin T. Reese
An evaluation of GPT models for phenotype concept recognition. CoRR (2023)
Laurel Cooper, Marie-Angélique Laporte, Justin Elser, Victoria Carollo Blake, Taner Z. Sen, Chris Mungall, Elizabeth Arnaud, Pankaj Jaiswal
The Plant Trait Ontology Links Wheat Traits for Crop Improvement and Genomics (short paper). ICBO/ODLS (2020)
Michelle G. Giglio, Rebecca Tauber, Suvarna Nadendla, James B. Munro, Dustin Olley, Shoshannah Ball, Elvira Mitraka, Lynn M. Schriml, Pascale Gaudet, Elizabeth T. Hobbs, Ivan Erill, Deborah A. Siegele, James C. Hu, Chris Mungall, Marcus C. Chibucos
ECO, the Evidence & Conclusion Ontology: community standard for evidence information. Nucleic Acids Res. 47 (Database-Issue) (2019)
Sebastian Köhler, Leigh Carmody, Nicole A. Vasilevsky, Julius O. B. Jacobsen, Daniel Danis, Jean-Philippe F. Gourdine, Michael A. Gargano, Nomi L. Harris, Nicolas Matentzoglu, Julie A. McMurry, David Osumi-Sutherland, Valentina Cipriani, James P. Balhoff, Tom Conlin, Hannah Blau, Gareth Baynam, Richard Palmer, Dylan Gratian, Hugh J. S. Dawkins, Michael Segal, Anna C. Jansen, Ahmed Muaz, Willie H. Chang, Jenna Bergerson, Stanley J. F. Laulederkind, Zafer Yüksel, Sergi Beltran, Alexandra F. Freeman, Panagiotis I. Sergouniotis, Daniel Durkin, Andrea L. Storm, Marc Hanauer, Michael Brudno, Susan M. Bello, Murat Sincan, Kayli Rageth, Matthew T. Wheeler, Renske Oegema, Halima Lourghi, Maria G. Della Rocca, Rachel Thompson, Francisco Castellanos, James Priest, Charlotte Cunningham-Rundles, Ayushi Hegde, Ruth C. Lovering, Catherine Hajek, Annie Olry, Luigi Notarangelo, Morgan Similuk, Xingmin Aaron Zhang, David Gómez-Andrés, Hanns Lochmüller, Hélène Dollfus, Sergio Rosenzweig, Shruti Marwaha, Ana Rath, Kathleen Sullivan, Cynthia L. Smith, Joshua D. Milner, Dorothée Leroux, Cornelius F. Boerkoel, Amy Klion, Melody C. Carter, Tudor Groza, Damian Smedley, Melissa A. Haendel, Chris Mungall, Peter N. Robinson
Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources. Nucleic Acids Res. 47 (Database-Issue) (2019)
Rebecca Tauber, James P. Balhoff, Eric Douglass, Chris Mungall, James A. Overton
Standardizing Ontology Workflows Using ROBOT. ICBO (2018)
Laurel Cooper, Austin Meier, Marie-Angélique Laporte, Justin Elser, Chris Mungall, Brandon T. Sinn, Dario Cavaliere, Seth Carbon, Nathan A. Dunn, Barry Smith, Botong Qu, Justin Preece, Eugene Zhang, Sinisa Todorovic, Georgios V. Gkoutos, John H. Doonan, Dennis W. Stevenson, Elizabeth Arnaud, Pankaj Jaiswal
The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics. Nucleic Acids Res. 46 (Database-Issue) (2018)
James P. Balhoff, Benjamin M. Good, Seth Carbon, Chris Mungall
Arachne: an OWL RL Reasoner Applied to Gene Ontology Causal Activity Models (and Beyond). ISWC (P&D/Industry/BlueSky) (2018)
Nicolas Matentzoglu, James Malone, Chris Mungall, Robert Stevens
MIRO: guidelines for minimum information for the reporting of an ontology. J. Biomed. Semant. 9 (1) (2018)
Edison Ong, Zuoshuang Xiang, Bin Zhao, Yue Liu, Yu Lin, Jie Zheng, Chris Mungall, Mélanie Courtot, Alan Ruttenberg, Yongqun He
Ontobee: A linked ontology data server to support ontology term dereferencing, linkage, query and integration. Nucleic Acids Res. 45 (Database-Issue) (2017)
Marina Lizio, Jayson Harshbarger, Imad Abugessaisa, Shuei Noguchi, Atsushi Kondo, Jessica Severin, Chris Mungall, David J. Arenillas, Anthony Mathelier, Yulia A. Medvedeva, Andreas Lennartsson, Finn Drabløs, Jordan A. Ramilowski, Owen J. L. Rackham, Julian Gough, Robin Andersson, Albin Sandelin, Hans Ienasescu, Hiromasa Ono, Hidemasa Bono, Yoshihide Hayashizaki, Piero Carninci, Alistair R. R. Forrest, Takeya Kasukawa, Hideya Kawaji
Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals. Nucleic Acids Res. 45 (Database-Issue) (2017)
Laurel Cooper, Austin Meier, Justin Elser, Justin Preece, Xu Xu, Ryan Kitchen, Botong Qu, Eugene Zhang, Sinisa Todorovic, Pankaj Jaiswal, Marie-Angélique Laporte, Elizabeth Arnaud, Seth Carbon, Chris Mungall, Barry Smith, Georgios V. Gkoutos, John H. Doonan
The Planteome Project. ICBO/BioCreative (2016)
Mélanie Courtot, James Malone, Chris Mungall
Ten Simple Rules for Biomedical Ontology Development. ICBO/BioCreative (2016)
Nicole A. Vasilevsky, Mark Engelstad, Erin Foster, Chris Mungall, Peter N. Robinson, Sebastian Köhler, Melissa A. Haendel
Enhancing the Human Phenotype Ontology for Use by the Layperson. ICBO/BioCreative (2016)
Marie-Angélique Laporte, Léo Valette, Laurel Cooper, Chris Mungall, Austin Meier, Pankaj Jaiswal, Elizabeth Arnaud
Comparison of Ontology Mapping Techniques to Map Plant Trait Ontologies. ICBO/BioCreative (2016)
Chris Mungall, Heiko Dietze, David Osumi-Sutherland
Use of OWL within the Gene Ontology. OWLED (2014)
Jorrit H. Poelen, James D. Simons, Chris Mungall
Global biotic interactions: An open infrastructure to share and analyze species-interaction datasets. Ecol. Informatics 24 (2014)
Anika Oellrich, Sebastian Köhler, Nicole L. Washington, Chris Mungall, Suzanna Lewis, Melissa A. Haendel, Peter N. Robinson, Damian Smedley
The influence of disease categories on gene candidate predictions from model organism phenotypes. J. Biomed. Semant. 5 (S-1) (2014)
Matthew H. Brush, Chris Mungall, Nicole L. Washington, Melissa A. Haendel
What's in a Genotype?: An Ontological Characterization for Integration of Genetic Variation Data. ICBO (2013)
Mikel Egaña Aranguren, Jesualdo Tomás Fernández-Breis, Erick Antezana, Chris Mungall, Alejandro Rodríguez González, Mark D. Wilkinson
OPPL-Galaxy, a Galaxy tool for enhancing ontology exploitation as part of bioinformatics workflows. J. Biomed. Semant. 4 (2013)
Ramona L. Walls, Hong Cui, James A. Macklin, Chris Mungall, Laurel Cooper, Dennis W. Stevenson, Pankaj Jaiswal
Mapping of glossary terms from the Flora of North America to the Plant Ontology enhances both resources. ICBO (2012)
Syed Hamid Tirmizi, Stuart Aitken, Dilvan A. Moreira, Chris Mungall, Juan F. Sequeda, Nigam H. Shah, Daniel P. Miranker
Mapping between the OBO and OWL ontology languages. J. Biomed. Semant. 2 (S-1) (2011)
Chris Mungall, David Anderson, Anita E. Bandrowski, Brian A. Canada, Andrew Chatr-aryamontri, Keith C. Cheng, P. Michael Conn, Kara Dolinski, Mark H. Ellisman, Janan T. Eppig, Jeffrey S. Grethe, Joseph W. Kemnitz, Shawn Iadonato, Stephen D. Larson, Charles Magness, Maryann E. Martone, Mike Tyers, Carlo Torniai, Olga G. Troyanskaya, Judith Turner, Monte Westerfield, Melissa A. Haendel
An Ontology-Based Approach to Linking Model Organisms and Resources to Human Diseases. ICBO (2011)
Sebastian Köhler, Sebastian Bauer, Chris Mungall, Gabriele Carletti, Cynthia L. Smith, Paul N. Schofield, Georgios V. Gkoutos, Peter N. Robinson
Improving ontologies by automatic reasoning and evaluation of logical definitions. BMC Bioinform. 12 (2011)
Chris Mungall
Posh - The Prolog OWL Shell. OWLED (2011)
Robert Hoehndorf, Colin R. Batchelor, Thomas Bittner, Michel Dumontier, Karen Eilbeck, Rob Knight, Chris Mungall, Jane S. Richardson, Jesse Stombaugh, Eric Westhof, Craig L. Zirbel, Neocles Leontis
The RNA Ontology (RNAO): An ontology for integrating RNA sequence and structure data. Appl. Ontology 6 (1) (2011)
Zuoshuang Xiang, Chris Mungall, Alan Ruttenberg, Yongqun He
Ontobee: A Linked Data Server and Browser for Ontology Terms. ICBO (2011)
Mélanie Courtot, Chris Mungall, Ryan Remy Brinkman, Alan Ruttenberg
Building the OBO Foundry - One Policy at a Time. ICBO (2011)
Erick Antezana, Aravind Venkatesan, Chris Mungall, Vladimir Mironov, Martin Kuiper
ONTO-ToolKit: enabling bio-ontology engineering via Galaxy. BMC Bioinform. 11 (S-12) (2010)
Vangelis Vassiliadis, Jan Wielemaker, Chris Mungall
Processing OWL2 Ontologies using Thea: An Application of Logic Programming. OWLED (2009)
Anna Maria Masci, Cecilia N. Arighi, Alexander D. Diehl, Anne E. Lieberman, Chris Mungall, Richard H. Scheuermann, Barry Smith, Lindsay G. Cowell
An improved ontological representation of dendritic cells as a paradigm for all cell types. BMC Bioinform. 10 (2009)
Daniel Schober, Barry Smith, Suzanna E. Lewis, Waclaw Kusnierczyk, Jane Lomax, Chris Mungall, Chris F. Taylor, Philippe Rocca-Serra, Susanna-Assunta Sansone
Survey-based naming conventions for use in OBO Foundry ontology development. BMC Bioinform. 10 (2009)
Chris Mungall
Experiences Using Logic Programming in Bioinformatics. ICLP (2009)
Syed Hamid Tirmizi, Stuart Aitken, Dilvan A. Moreira, Chris Mungall, Juan F. Sequeda, Nigam H. Shah, Daniel P. Miranker
OBO & OWL: Roundtrip Ontology Transformations. SWAT4LS (2009)
Mark Yandell, Barry Moore, Fidel Salas, Chris Mungall, Andrew MacBride, Charles White, Martin G. Reese
Genome-Wide Analysis of Human Disease Alleles Reveals That Their Locations Are Correlated in Paralogous Proteins. PLoS Comput. Biol. 4 (11) (2008)
Michael Bada, Chris Mungall, Lawrence Hunter
A Call for an Abductive Reasoning Feature in OWL-Reasoning Tools toward Ontology Quality Control. OWLED (2008)
Nicole L. Washington, M. Gibson, Chris Mungall, Michael Ashburner, Georgios V. Gkoutos, Monte Westerfield, Melissa A. Haendel, Suzanna E. Lewis
NLP and Phenotypes: using Ontologies to link Human Diseases to Animal Models. Ontologies and Text Mining for Life Sciences (2008)
Chris Mungall, David B. Emmert
A Chado case study: an ontology-based modular schema for representing genome-associated biological information. ISMB/ECCB (Supplement of Bioinformatics) (2007)
Chris Mungall
Representing Phenotypes in OWL. OWLED (2007)
Mark Yandell, Chris Mungall, Chris Smith, Simon Prochnik, Joshua S. Kaminker, George Hartzell, Suzanna Lewis, Gerald M. Rubin
Large-Scale Trends in the Evolution of Gene Structures within 11 Animal Genomes. PLoS Comput. Biol. 2 (3) (2006)
Jian Hu, Chris Mungall, Andy Law, Richard Papworth, J. Paul Nelson, Alison Brown, Irene Simpson, Shirley Leckie, David W. Burt, Alan L. Hillyard, Alan L. Archibald
The ARKdb: genome databases for farmed and other animals. Nucleic Acids Res. 29 (1) (2001)
Jian Hu, Chris Mungall, David Nicholson, Alan L. Archibald
Design and implementation of a CORBA-based genome mapping system prototype. Bioinform. 14 (2) (1998)
Jian Hu, David Nicholson, Chris Mungall, Alan L. Hillyard, Alan L. Archibald
WebinTool: A Generic Web to Database Interface Building Tool. DEXA Workshop (1996)