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ORCIDPaula M. Mabee
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2020 – today
- 2024
[i6]Kazi Sajeed Mehrab, M. Maruf, Arka Daw, Harish Babu Manogaran, Abhilash Neog, Mridul Khurana, Bahadir Altintas, Yasin Bakis, Elizabeth G. Campolongo, Matthew J. Thompson, Xiaojun Wang, Hilmar Lapp, Wei-Lun Chao, Paula M. Mabee, Henry L. Bart Jr., Wasila M. Dahdul, Anuj Karpatne:
Fish-Vista: A Multi-Purpose Dataset for Understanding & Identification of Traits from Images. CoRR abs/2407.08027 (2024)- [i5]Mridul Khurana, Arka Daw, M. Maruf, Josef C. Uyeda, Wasila M. Dahdul, Caleb Charpentier, Yasin Bakis, Henry L. Bart Jr., Paula M. Mabee, Hilmar Lapp, James P. Balhoff, Wei-Lun Chao, Charles V. Stewart, Tanya Y. Berger-Wolf, Anuj Karpatne:
Hierarchical Conditioning of Diffusion Models Using Tree-of-Life for Studying Species Evolution. CoRR abs/2408.00160 (2024) - [i4]M. Maruf, Arka Daw, Kazi Sajeed Mehrab, Harish Babu Manogaran, Abhilash Neog, Medha Sawhney, Mridul Khurana, James P. Balhoff, Yasin Bakis, Bahadir Altintas, Matthew J. Thompson, Elizabeth G. Campolongo, Josef C. Uyeda, Hilmar Lapp, Henry L. Bart Jr., Paula M. Mabee, Yu Su, Wei-Lun Chao, Charles V. Stewart, Tanya Y. Berger-Wolf, Wasila M. Dahdul, Anuj Karpatne:
VLM4Bio: A Benchmark Dataset to Evaluate Pretrained Vision-Language Models for Trait Discovery from Biological Images. CoRR abs/2408.16176 (2024) - [i3]Harish Babu Manogaran, M. Maruf, Arka Daw, Kazi Sajeed Mehrab, Caleb Charpentier, Josef C. Uyeda, Wasila M. Dahdul, Matthew J. Thompson, Elizabeth G. Campolongo, Kaiya Provost, Paula M. Mabee, Hilmar Lapp, Anuj Karpatne:
What Do You See in Common? Learning Hierarchical Prototypes over Tree-of-Life to Discover Evolutionary Traits. CoRR abs/2409.02335 (2024) - 2023
- [c8]Mohannad Elhamod
, Mridul Khurana, Harish Babu Manogaran, Josef C. Uyeda, Meghan A. Balk, Wasila M. Dahdul, Yasin Bakis, Henry L. Bart Jr., Paula M. Mabee, Hilmar Lapp, James P. Balhoff, Caleb Charpentier, David Carlyn, Wei-Lun Chao, Charles V. Stewart, Daniel I. Rubenstein, Tanya Y. Berger-Wolf, Anuj Karpatne:
Discovering Novel Biological Traits From Images Using Phylogeny-Guided Neural Networks. KDD 2023: 3966-3978 - [i2]Mohannad Elhamod, Mridul Khurana, Harish Babu Manogaran, Josef C. Uyeda, Meghan A. Balk, Wasila M. Dahdul, Yasin Bakis, Henry L. Bart Jr., Paula M. Mabee, Hilmar Lapp, James P. Balhoff, Caleb Charpentier, David Carlyn, Wei-Lun Chao, Charles V. Stewart, Daniel I. Rubenstein, Tanya Y. Berger-Wolf, Anuj Karpatne:
Discovering Novel Biological Traits From Images Using Phylogeny-Guided Neural Networks. CoRR abs/2306.03228 (2023) - 2020
- [j9]Pasan C. Fernando, Paula M. Mabee, Erliang Zeng:
Integration of anatomy ontology data with protein-protein interaction networks improves the candidate gene prediction accuracy for anatomical entities. BMC Bioinform. 21(1): 442 (2020) - [c7]Jeremy Leipzig, Yasin Bakis, Xiaojun Wang, Mohannad Elhamod, Kelly Diamond, Wasila M. Dahdul, Anuj Karpatne, A. Murat Maga, Paula M. Mabee, Henry L. Bart Jr., Jane Greenberg:
Biodiversity Image Quality Metadata Augments Convolutional Neural Network Classification of Fish Species. MTSR 2020: 3-12
2010 – 2019
- 2019
- [j8]Michael P. Snyder, Shin Lin, Amanda Posgai, Mark Atkinson, Aviv Regev, Jennifer Rood, Orit Rozenblatt-Rosen, Leslie Gaffney, Anna Hupalowska, Rahul Satija, Nils Gehlenborg, Jay Shendure, Julia Laskin, Pehr Harbury, Nicholas A. Nystrom, Jonathan C. Silverstein, Ziv Bar-Joseph, Kun Zhang, Katy Börner, Yiing Lin, Richard Conroy, Dena Procaccini, Ananda L. Roy, Ajay Pillai, Marishka Brown, Zorina S. Galis, Long Cai, Cole Trapnell, Dana Jackson, Garry P. Nolan, William James Greenleaf, Sylvia K. Plevritis, Sara Ahadi, Stephanie A. Nevins, Hayan Lee, Christian Martijn Schuerch, Sarah Black, Vishal Gautham Venkataraaman, Ed Esplin, Aaron Horning, Amir Bahmani, Xin Sun, Sanjay Jain, James S. Hagood, Gloria Pryhuber, Peter V. Kharchenko, Bernd Bodenmiller, Todd Brusko, Michael Clare-Salzler, Harry Nick, Kevin Otto, Clive Wasserfall, Marda Jorgensen, Maigan Brusko, Sergio Maffioletti, Richard M. Caprioli, Jeffrey M. Spraggins, Danielle Gutierrez, Nathan Heath Patterson, Elizabeth K. Neumann, Raymond Harris, Mark P. de Caestecker, Agnes B. Fogo, Raf Van de Plas, Ken Lau, Guo-Cheng Yuan, Qian Zhu, Ruben Dries, Peng Yin, Sinem K. Saka, Jocelyn Y. Kishi, Yu Wang, Isabel Goldaracena, Dong Hye Ye, Kristin E. Burnum-Johnson, Paul D. Piehowski, Charles Ansong, Ying Zhu, Tushar Desai, Jay Mulye, Peter Chou, Monica Nagendran, Sarah A. Teichmann, Benedict Paten, Robert F. Murphy, Jian Ma, Vladimir Yu. Kiselev, Carl Kingsford, Allyson Ricarte, Maria Keays, Sushma Anand Akoju, Matthew Ruffalo, Margaret Vella, Chuck McCallum, Leonard E. Cross, Samuel H. Friedman, Randy W. Heiland, Bruce William Herr II, Paul Macklin, Ellen M. Quardokus, Lisel Record, James P. Sluka, Griffin M. Weber, Philip D. Blood, Alexander Ropelewski, William Shirey, Robin M. Scibek, Paula M. Mabee, W. Christopher Lenhardt, Kimberly Robasky, Stavros Michailidis, John C. Marioni, Andrew Butler, Tim Stuart, Eyal Fisher, Shila Ghazanfar, Gökcen Eraslan, Tommaso Biancalani, Eeshit D. Vaishnav, Pothur Srinivas, Aaron Pawlyk, Salvatore Sechi, Elizabeth L. Wilder, James Anderson:
The human body at cellular resolution: the NIH Human Biomolecular Atlas Program. Nat. 574(7777): 187-192 (2019) - 2018
- [j7]Wasila M. Dahdul, Prashanti Manda, Hong Cui, James P. Balhoff, T. Alexander Dececchi, Nizar Ibrahim, Hilmar Lapp, Todd J. Vision, Paula M. Mabee:
Annotation of phenotypes using ontologies: a gold standard for the training and evaluation of natural language processing systems. Database J. Biol. Databases Curation 2018: bay110 (2018) - [c6]Paula M. Mabee, James P. Balhoff, Wasila M. Dahdul, Hilmar Lapp, Christopher J. Mungall, Todd J. Vision:
Reasoning over Anatomical Homology in the Phenoscape KB. ICBO 2018 - [p2]Paula M. Mabee, Wasila M. Dahdul, James P. Balhoff, Hilmar Lapp, Prashanti Manda, Josef C. Uyeda, Todd J. Vision, Monte Westerfield:
Phenoscape: Semantic analysis of organismal traits and genes yields insights in evolutionary biology. Application of Semantic Technology in Biodiversity Science 2018: 207-224 - 2017
- [c5]Pasan C. Fernando, Laura M. Jackson, Erliang Zeng, Paula M. Mabee, James P. Balhoff:
A generic bioinformatics pipeline to integrate large-scale trait data with large phylogenies. BIBM 2017: 2235-2237 - 2015
- [j6]Wasila M. Dahdul, T. Alexander Dececchi, Nizar Ibrahim, Hilmar Lapp, Paula M. Mabee:
Moving the mountain: analysis of the effort required to transform comparative anatomy into computable anatomy. Database J. Biol. Databases Curation 2015 (2015) - [c4]Hong Cui, Wasila M. Dahdul, T. Alexander Dececchi, Nizar Ibrahim, Paula M. Mabee, James P. Balhoff, Hariharan Gopalakrishnan:
CharaParser+EQ: Performance evaluation without gold standard. ASIST 2015: 1-10 - 2014
- [j5]Melissa A. Haendel, James P. Balhoff, Frederic B. Bastian, David C. Blackburn, Judith A. Blake, Yvonne M. Bradford, Aurélie Comte, Wasila M. Dahdul, Thomas Dececchi, Robert E. Druzinsky, Terry F. Hayamizu, Nizar Ibrahim, Suzanna E. Lewis, Paula M. Mabee, Anne Niknejad, Marc Robinson-Rechavi, Paul C. Sereno, Christopher J. Mungall:
Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon. J. Biomed. Semant. 5: 21 (2014) - [j4]Wasila M. Dahdul, Hong Cui, Paula M. Mabee, Christopher J. Mungall, David Osumi-Sutherland, Ramona L. Walls, Melissa A. Haendel:
Nose to tail, roots to shoots: spatial descriptors for phenotypic diversity in the Biological Spatial Ontology. J. Biomed. Semant. 5: 34 (2014) - [j3]James P. Balhoff, Wasila M. Dahdul, Thomas Dececchi, Hilmar Lapp, Paula M. Mabee, Todd J. Vision:
Annotation of phenotypic diversity: decoupling data curation and ontology curation using Phenex. J. Biomed. Semant. 5: 45 (2014) - [i1]James P. Balhoff, T. Alexander Dececchi, Paula M. Mabee, Hilmar Lapp:
Presence-absence reasoning for evolutionary phenotypes. CoRR abs/1410.3862 (2014) - 2013
- [j2]Cecilia N. Arighi, Ben Carterette, K. Bretonnel Cohen, Martin Krallinger, W. John Wilbur, Petra Fey, Robert J. Dodson, Laurel Cooper, Ceri E. Van Slyke, Wasila M. Dahdul, Paula M. Mabee, Donghui Li, Bethany R. Harris, Marc Gillespie, Silvia Jimenez, Phoebe M. Roberts, Lisa Matthews, Kevin G. Becker, Harold J. Drabkin, Susan M. Bello, Luana Licata, Andrew Chatr-aryamontri, Mary L. Schaeffer, Julie Park, Melissa A. Haendel, Kimberly Van Auken, Yuling Li, Juancarlos Chan, Hans-Michael Müller, Hong Cui, James P. Balhoff, Chi-Yang Wu, Zhiyong Lu, Chih-Hsuan Wei, Catalina O. Tudor, Kalpana Raja, Suresh Subramani, Jeyakumar Natarajan, Juan Miguel Cejuela, Pratibha Dubey, Cathy H. Wu:
An overview of the BioCreative 2012 Workshop Track III: interactive text mining task. Database J. Biol. Databases Curation 2013 (2013) - [j1]Peter E. Midford, Thomas Dececchi, James P. Balhoff, Wasila M. Dahdul, Nizar Ibrahim, Hilmar Lapp, John G. Lundberg, Paula M. Mabee, Paul C. Sereno, Monte Westerfield, Todd J. Vision, David C. Blackburn:
The vertebrate taxonomy ontology: a framework for reasoning across model organism and species phenotypes. J. Biomed. Semant. 4: 34 (2013) - 2011
- [c3]James P. Balhoff, Wasila M. Dahdul, Hilmar Lapp, Peter E. Midford, Todd J. Vision, Monte Westerfield, Paula M. Mabee:
Employing Reasoning within the Phenoscape Knowledgebase. ICBO 2011 - [c2]Wasila M. Dahdul, James P. Balhoff, Hilmar Lapp, Peter E. Midford, Todd J. Vision, Monte Westerfield, Paula M. Mabee:
Phenoscape: Use Cases and Anatomy Ontology Requirements for Linking Evolutionary and Model Organism Phenotypes. ICBO 2011 - [c1]Todd J. Vision, Judith A. Blake, Hilmar Lapp, Paula M. Mabee, Monte Westerfield:
Similarity Between Semantic Description Sets: Addressing Needs Beyond Data Integration. LISC 2011
2000 – 2009
- 2008
- [p1]Melissa A. Haendel, Fabian Neuhaus, David Osumi-Sutherland, Paula M. Mabee, José L. V. Mejino Jr., Chris Mungall, Barry Smith:
CARO - The Common Anatomy Reference Ontology. Anatomy Ontologies for Bioinformatics 2008: 327-349
Coauthor Index
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last updated on 2024-10-07 21:17 CEST by the dblp team
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