Matthew H. Brush

Publication Activity (10 Years)

Years Active: 2011-2022
Publications (10 Years): 18

Top Topics

Semantically Enhanced

Biomedical Ontologies

Semantic Representation

Top Venues

ICBO/BioCreative

Database J. Biol. Databases Curation

Publications

Nicolas Matentzoglu, James P. Balhoff, Susan M. Bello, Chris Bizon, Matthew H. Brush, Tiffany J. Callahan, Christopher G. Chute, William D. Duncan, Chris T. A. Evelo, Davera Gabriel, John Graybeal, Alasdair J. G. Gray, Benjamin M. Gyori, Melissa A. Haendel, Henriette Harmse, Nomi L. Harris, Ian Harrow, Harshad Hegde, Amelia L. Hoyt, Charles Tapley Hoyt, Dazhi Jiao, Ernesto Jiménez-Ruiz, Simon Jupp, Hyeongsik Kim, Sebastian Köhler, Thomas Liener, Qinqin Long, James Malone, James A. McLaughlin, Julie A. McMurry, Sierra Moxon, Monica C. Munoz-Torres, David Osumi-Sutherland, James A. Overton, Bjoern Peters, Tim E. Putman, Núria Queralt-Rosinach, Kent A. Shefchek, Harold Solbrig, Anne E. Thessen, Tania Tudorache, Nicole A. Vasilevsky, Alex H. Wagner, Christopher J. Mungall
A Simple Standard for Sharing Ontological Mappings (SSSOM). Database J. Biol. Databases Curation 2022 (2022) (2022)
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 T. Thessen, Melissa A. Haendel, Chris Bizon, Christopher J. Mungall
Biolink Model: A Universal Schema for Knowledge Graphs in Clinical, Biomedical, and Translational Science. CoRR (2022)
Nicolas Matentzoglu, James P. Balhoff, Susan M. Bello, Chris Bizon, Matthew H. Brush, Tiffany J. Callahan, Christopher G. Chute, William D. Duncan, Chris T. A. Evelo, Davera Gabriel, John Graybeal, Alasdair J. G. Gray, Benjamin M. Gyori, Melissa A. Haendel, Henriette Harmse, Nomi L. Harris, Ian Harrow, Harshad Hegde, Amelia L. Hoyt, Charles Tapley Hoyt, Dazhi Jiao, Ernesto Jiménez-Ruiz, Simon Jupp, Hyeongsik Kim, Sebastian Köhler, Thomas Liener, Qinqin Long, James Malone, James A. McLaughlin, Julie A. McMurry, Sierra A. T. Moxon, Monica C. Munoz-Torres, David Osumi-Sutherland, James A. Overton, Bjoern Peters, Tim E. Putman, Núria Queralt-Rosinach, Kent A. Shefchek, Harold Solbrig, Anne E. Thessen, Tania Tudorache, Nicole A. Vasilevsky, Alex H. Wagner, Christopher J. Mungall
A Simple Standard for Sharing Ontological Mappings (SSSOM). CoRR (2021)
Randi Vita, Jie Zheng, Rebecca C. Jackson, Damion M. Dooley, James A. Overton, Mark A. Miller, Daniel C. Berrios, Richard H. Scheuermann, Yongqun He, Hande Küçük-McGinty, Mathias Brochhausen, Aisyah Yu Lin, Sagar B. Jain, Marcus C. Chibucos, John Judkins, Michelle G. Giglio, Irene Y. Feng, Gully Burns, Matthew H. Brush, Bjoern Peters, Christian J. Stoeckert Jr.
Standardization of assay representation in the Ontology for Biomedical Investigations. Database J. Biol. Databases Curation 2021 (2021)
Sierra A. T. Moxon, Harold Solbrig, Deepak R. Unni, Dazhi Jiao, Richard M. Bruskiewich, James P. Balhoff, Gaurav Vaidya, William D. Duncan, Harshad Hegde, Mark Miller, Matthew H. Brush, Nomi L. Harris, Melissa A. Haendel, Christopher J. Mungall
The Linked Data Modeling Language (LinkML): A General-Purpose Data Modeling Framework Grounded in Machine-Readable Semantics. ICBO (2021)
Kent A. Shefchek, Nomi L. Harris, Michael A. Gargano, Nicolas Matentzoglu, Deepak R. Unni, Matthew H. Brush, Dan Keith, Tom Conlin, Nicole A. Vasilevsky, Xingmin Aaron Zhang, James P. Balhoff, Larry Babb, Susan M. Bello, Hannah Blau, Yvonne M. Bradford, Seth Carbon, Leigh Carmody, Lauren E. Chan, Valentina Cipriani, Alayne Cuzick, Maria G. Della Rocca, Nathan A. Dunn, Shahim Essaid, Petra Fey, Christian A. Grove, Jean-Philippe F. Gourdine, Ada Hamosh, Midori A. Harris, Ingo Helbig, Maureen E. Hoatlin, Marcin P. Joachimiak, Simon Jupp, Kenneth B. Lett, Suzanna E. Lewis, Craig McNamara, Zoë May Pendlington, Clare Pilgrim, Tim E. Putman, Vida Ravanmehr, Justin T. Reese, Erin Rooney Riggs, Sofia M. C. Robb, Paola Roncaglia, James Seager, Erik Segerdell, Morgan Similuk, Andrea L. Storm, Courtney Thaxon, Anne E. Thessen, Julius O. B. Jacobsen, Julie A. McMurry, Tudor Groza, Sebastian Köhler, Damian Smedley, Peter N. Robinson, Christopher J. Mungall, Melissa A. Haendel, Monica C. Munoz-Torres, David Osumi-Sutherland
The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species. Nucleic Acids Res. 48 (Database-Issue) (2020)
Jean-Philippe F. Gourdine, Matthew H. Brush, Nicole A. Vasilevsky, Kent A. Shefchek, Sebastian Köhler, Nicolas Matentzoglu, Monica C. Munoz-Torres, Julie A. McMurry, Xingmin Aaron Zhang, Peter N. Robinson, Melissa A. Haendel
Representing glycophenotypes: semantic unification of glycobiology resources for disease discovery. Database J. Biol. Databases Curation 2019 (2019)
Kristi L. Holmes, Nicole A. Vasilevsky, Marijane White, Matthew H. Brush, Lisa O'Keefe, Karen Gutzman, Melissa A. Haendel
Architecting Attribution: expanding the scope of academic credit. RO (2019)
Jean-Philippe F. Gourdine, Nicole A. Vasilevsky, Lilly Winfree, Matthew H. Brush, Melissa A. Haendel
Expanding the Molecular Glycophenotype Ontology to include model organisms and acquired diseases. ICBO (2018)
Violeta Ilik, Michael Conlon, Graham Triggs, Marijane White, Muhammad Javed, Matthew H. Brush, Karen Gutzman, Shahim Essaid, Paul Friedman, Simon Porter, Martin Szomszor, Melissa Anne Haendel, David Eichmann, Kristi L. Holmes
OpenVIVO: Transparency in Scholarship. Frontiers Res. Metrics Anal. 2 (2017)
Christopher J. Mungall, Julie A. McMurry, Sebastian Köhler, James P. Balhoff, Charles D. Borromeo, Matthew H. Brush, Seth Carbon, Tom Conlin, Nathan A. Dunn, Mark Engelstad, Erin Foster, Jean-Philippe F. Gourdine, Julius O. B. Jacobsen, Dan Keith, Bryan Laraway, Suzanna E. Lewis, Jeremy NguyenXuan, Kent A. Shefchek, Nicole A. Vasilevsky, Zhou Yuan, Nicole L. Washington, Harry Hochheiser, Tudor Groza, Damian Smedley, Peter N. Robinson, Melissa A. Haendel
The Monarch Initiative: an integrative data and analytic platform connecting phenotypes to genotypes across species. Nucleic Acids Res. 45 (Database-Issue) (2017)
James P. Balhoff, Matthew H. Brush, Laura Christopherson, Sherri de Coronado, Gilberto Fragoso, Melissa A. Haendel, Christopher J. Mungall, Kimberly Robasky, Nicole A. Vasilevsky, Lawrence W. Wright
Tailoring the NCI Thesaurus for Use in The OBO Library. ICBO (2017)
Anita E. Bandrowski, Matthew H. Brush, Jeffrey S. Grethe, Melissa A. Haendel, David N. Kennedy, Sean L. Hill, Patrick R. Hof, Maryann E. Martone, Maaike Pols, Serena S. Tan, Nicole L. Washington, Elena V. Zudilova-Seinstra, Nicole A. Vasilevsky
The Resource Identification Initiative: A Cultural Shift in Publishing. Neuroinformatics 14 (2) (2016)
Marijane White, Matthew H. Brush, Shahim Essaid, Robin Champieux, Adrienne Zell, Melissa A. Haendel, Colin Grove, Syeda Momina Tabish, David Eichmann
Enhancing SciENcv through Semantic Research Profile Integration with the VIVO-ISF Ontology. ICBO/BioCreative (2016)
Matthew H. Brush, Kent A. Shefchek, Melissa A. Haendel
SEPIO: A Semantic Model for the Integration and Analysis of Scientific Evidence. ICBO/BioCreative (2016)
Jean-Philippe F. Gourdine, Thomas O. Metz, David Koeller, Matthew H. Brush, Melissa A. Haendel
Building a Molecular Glyco-phenotype Ontology to Decipher Undiagnosed Diseases. ICBO/BioCreative (2016)
Alexander D. Diehl, Terrence F. Meehan, Yvonne M. Bradford, Matthew H. Brush, Wasila M. Dahdul, David S. Dougall, Yongqun He, David Osumi-Sutherland, Alan Ruttenberg, Sirarat Sarntivijai, Ceri E. Van Slyke, Nicole A. Vasilevsky, Melissa A. Haendel, Judith A. Blake, Christopher J. Mungall
The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability. J. Biomed. Semant. 7 (2016)
Marcus C. Chibucos, Suvarna Nadendla, James B. Munro, Elvira Mitraka, Dustin Olley, Nicole A. Vasilevsky, Matthew H. Brush, Michelle G. Giglio
Supporting Database Annotations and Beyond with the Evidence & Conclusion Ontology (ECO). ICBO/BioCreative (2016)
Christopher Ochs, Yehoshua Perl, James Geller, Melissa A. Haendel, Matthew H. Brush, Sivaram Arabandi, Samson W. Tu
Summarizing and visualizing structural changes during the evolution of biomedical ontologies using a Diff Abstraction Network. J. Biomed. Informatics 56 (2015)
Anita E. Bandrowski, Matthew H. Brush, Jeffery S. Grethe, Melissa A. Haendel, David N. Kennedy, Sean L. Hill, Patrick R. Hof, Maryann E. Martone, Maaike Pols, Serena S. Tan, Nicole L. Washington, Elena V. Zudilova-Seinstra, Nicole A. Vasilevsky
The Resource Identification Initiative: A cultural shift in publishing. F1000Research 4 (2015)
Sirarat Sarntivijai, Yu Lin, Zuoshuang Xiang, Terrence F. Meehan, Alexander D. Diehl, Uma D. Vempati, Stephan C. Schürer, Chao Pang, James Malone, Helen E. Parkinson, Yue Liu, Terue Takatsuki, Kaoru Saijo, Hiroshi Masuya, Yukio Nakamura, Matthew H. Brush, Melissa A. Haendel, Jie Zheng, Christian J. Stoeckert Jr., Bjoern Peters, Christopher J. Mungall, Thomas E. Carey, David J. States, Brian D. Athey, Yongqun He
CLO: The cell line ontology. J. Biomed. Semant. 5 (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)
Matthew H. Brush, Jie Zheng, Yongqun He, Sirarat Sarntivijai, Bjoern Peters, Alexander D. Diehl, Christian J. Stoeckert Jr., Melissa A. Haendel
Alignment of Cultured Cell Modeling Across OBO Foundry Ontologies: Key Outcomes, Insights. ICBO (2013)
Nicole A. Vasilevsky, Tenille Johnson, Karen Corday, Carlo Torniai, Matthew H. Brush, Erik Segerdell, Melanie Wilson, Chris Shaffer, David Robinson, Melissa A. Haendel
Research resources: curating the new eagle-i discovery system. Database J. Biol. Databases Curation 2012 (2012)
Matthew H. Brush, Nicole A. Vasilevsky, Carlo Torniai, Tenille Johnson, Chris Shaffer, Melissa A. Haendel
Developing a Reagent Application Ontology within the OBO Foundry Framework. ICBO (2011)
Carlo Torniai, Matthew H. Brush, Nicole A. Vasilevsky, Erik Segerdell, Melanie Wilson, Tenille Johnson, Karen Corday, Chris Shaffer, Melissa A. Haendel
Developing an Application Ontology for Biomedical Resource Annotation and Retrieval: Challenges and Lessons Learned. ICBO (2011)