Michael Bada

According to our database, Michael Bada authored at least 26 papers between 1999 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

Creating an ignorance-base: Exploring known unknowns in the scientific literature.

Mayla R. Boguslav, Nourah M. Salem, Elizabeth K. White, Katherine J. Sullivan, Michael Bada, Teri L. Hernandez, Sonia M. Leach, Lawrence E. Hunter

J. Biomed. Informatics, 2023

An Open-Source Knowledge Graph Ecosystem for the Life Sciences.

Tiffany J. Callahan, Ignacio J. Tripodi, Adrianne L. Stefanski, Luca Cappelletti, Sanya Bathla Taneja, Jordan M. Wyrwa, Elena Casiraghi, Nicolas A. Matentzoglu, Justin T. Reese, Jonathan C. Silverstein, Charles Tapley Hoyt, Richard D. Boyce, Scott A. Malec, Deepak R. Unni, Marcin P. Joachimiak, Peter N. Robinson, Christopher J. Mungall, Emanuele Cavalleri, Tommaso Fontana, Giorgio Valentini, Marco Mesiti, Lucas A. Gillenwater, Brook E. Santangelo, Nicole A. Vasilevsky, Robert Hoehndorf, Tellen D. Bennett, Patrick B. Ryan, George Hripcsak, Michael G. Kahn, Michael Bada, William A. Baumgartner Jr., Lawrence E. Hunter

CoRR, 2023

2022

Biolink Model: A Universal Schema for Knowledge Graphs in Clinical, Biomedical, and Translational Science.

Deepak R. Unni, Sierra A. T. Moxon, Michael Bada, Matthew H. Brush, Richard M. Bruskiewich, Paul A. Clemons, Vlado Dancík, Michel Dumontier, Karamarie Fecho, Gustavo Glusman, Jennifer J. Hadlock, Nomi L. Harris, Arpita Joshi, Tim E. Putman, Guangrong Qin, Stephen A. Ramsey, Kent A. Shefchek, Harold Solbrig, Karthik Soman, Anne E. Thessen, Melissa A. Haendel, Chris Bizon, Christopher J. Mungall

CoRR, 2022

2021

Concept recognition as a machine translation problem.

Mayla Boguslav, Negacy D. Hailu, Michael Bada, William A. Baumgartner Jr., Lawrence E. Hunter

BMC Bioinform., 2021

2019

CRAFT Shared Tasks 2019 Overview - Integrated Structure, Semantics, and Coreference.

William A. Baumgartner Jr., Michael Bada, Sampo Pyysalo, Manuel R. Ciosici, Negacy D. Hailu, Harrison Pielke-Lombardo, Michael Regan, Lawrence Hunter

Proceedings of The 5th Workshop on BioNLP Open Shared Tasks, 2019

2018

OWL-NETS: Transforming OWL representations for improved network inference.

Tiffany J. Callahan, William A. Baumgartner Jr., Michael Bada, Adrianne L. Stefanski, Ignacio Tripodi, Elizabeth K. White, Lawrence E. Hunter

Proceedings of the Biocomputing 2018: Proceedings of the Pacific Symposium, 2018

2017

Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles.

K. Bretonnel Cohen, Arrick Lanfranchi, Miji Joo-young Choi, Michael Bada, William A. Baumgartner Jr., Natalya Panteleyeva, Karin Verspoor, Martha Palmer, Lawrence E. Hunter

BMC Bioinform., 2017

Gold-standard ontology-based anatomical annotation in the CRAFT Corpus.

Michael Bada, Nicole A. Vasilevsky, William A. Baumgartner Jr., Melissa A. Haendel, Lawrence E. Hunter

Database J. Biol. Databases Curation, 2017

Semantic Relations in Compound Nouns: Perspectives from Inter-Annotator Agreement.

Prabha Yadav, Elisabetta Jezek, Pierrette Bouillon, Tiffany J. Callahan, Michael Bada, Lawrence E. Hunter, K. Bretonnel Cohen

Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017

2016

Gold-Standard Ontology-Based Annotation of Concepts in Biomedical Text in the CRAFT Corpus: Updates and Extensions.

Michael Bada, Nicole A. Vasilevsky, Melissa A. Haendel, Lawrence Hunter

Proceedings of the Joint International Conference on Biological Ontology and BioCreative, 2016

2015

KaBOB: ontology-based semantic integration of biomedical databases.

Kevin M. Livingston, Michael Bada, William A. Baumgartner Jr., Lawrence E. Hunter

BMC Bioinform., 2015

2014

Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters.

Christopher S. Funk, William A. Baumgartner Jr., Benjamin Garcia, Christophe Roeder, Michael Bada, K. Bretonnel Cohen, Lawrence E. Hunter, Karin Verspoor

BMC Bioinform., 2014

2013

Representing annotation compositionality and provenance for the Semantic Web.

Kevin M. Livingston, Michael Bada, Lawrence E. Hunter, Karin Verspoor

J. Biomed. Semant., 2013

2012

A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools.

Karin Verspoor, Kevin Bretonnel Cohen, Arrick Lanfranchi, Colin Warner, Helen L. Johnson, Christophe Roeder, Jinho D. Choi, Christopher S. Funk, Yuriy Malenkiy, Miriam Eckert, Nianwen Xue, William A. Baumgartner Jr., Michael Bada, Martha Palmer, Lawrence E. Hunter

BMC Bioinform., 2012

Concept annotation in the CRAFT corpus.

Michael Bada, Miriam Eckert, Donald Evans, Kristin Garcia, Krista Shipley, Dmitry Sitnikov, William A. Baumgartner Jr., K. Bretonnel Cohen, Karin Verspoor, Judith A. Blake, Lawrence E. Hunter

BMC Bioinform., 2012

Efforts toward a More Consistent and Interoperable Sequence Ontology.

Michael Bada, Karen Eilbeck

Proceedings of the 3rd International Conference on Biomedical Ontology (ICBO 2012), 2012

2011

Cross-product extensions of the Gene Ontology.

Christopher J. Mungall, Michael Bada, Tanya Z. Berardini, Jennifer I. Deegan, Amelia Ireland, Midori A. Harris, David P. Hill, Jane Lomax

J. Biomed. Informatics, 2011

Desiderata for ontologies to be used in semantic annotation of biomedical documents.

Michael Bada, Lawrence Hunter

J. Biomed. Informatics, 2011

2010

An Overview of the CRAFT Concept Annotation Guidelines.

Michael Bada, Miriam Eckert, Martha Palmer, Lawrence Hunter

Proceedings of the Fourth Linguistic Annotation Workshop, 2010

2008

Identification of OBO nonalignments and its implications for OBO enrichment.

Michael Bada, Lawrence Hunter

Bioinform., 2008

A Call for an Abductive Reasoning Feature in OWL-Reasoning Tools toward Ontology Quality Control.

Michael Bada, Chris Mungall, Lawrence Hunter

Proceedings of the Fifth OWLED Workshop on OWL: Experiences and Directions, 2008

2007

Enrichment of OBO ontologies.

Michael Bada, Lawrence Hunter

J. Biomed. Informatics, 2007

2006

Evaluation of Lexical Methods for Detecting Relationships Between Concepts from Multiple Ontologies.

Helen L. Johnson, K. Bretonnel Cohen, William A. Baumgartner Jr., Zhiyong Lu, Michael Bada, Todd Kester, Hyunmin Kim, Lawrence Hunter

Proceedings of the Biocomputing 2006, 2006

2004

A short study on the success of the Gene Ontology.

Michael Bada, Robert Stevens, Carole A. Goble, Yolanda Gil, Michael Ashburner, Judith A. Blake, J. Michael Cherry, Midori A. Harris, Suzanna Lewis

J. Web Semant., 2004

Using Reasoning to Guide Annotation with Gene Ontology Terms in GOAT.

Michael Bada, Daniele Turi, Robin McEntire, Robert Stevens

SIGMOD Rec., 2004

1999

RiboWeb: An Ontology-Based System for Collaborative Molecular Biology.

Russ B. Altman, Michael Bada, Xiaoqian J. Chai, Michelle Whirl Carrillo, Richard O. Chen, Neil F. Abernethy

IEEE Intell. Syst., 1999