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BibTeX records: Paula M. Mabee
@inproceedings{DBLP:conf/kdd/ElhamodKMUBDBBM23, author = {Mohannad Elhamod and Mridul Khurana and Harish Babu Manogaran and Josef C. Uyeda and Meghan A. Balk and Wasila M. Dahdul and Yasin Bakis and Henry L. Bart Jr. and Paula M. Mabee and Hilmar Lapp and James P. Balhoff and Caleb Charpentier and David Carlyn and Wei{-}Lun Chao and Charles V. Stewart and Daniel I. Rubenstein and Tanya Y. Berger{-}Wolf and Anuj Karpatne}, editor = {Ambuj K. Singh and Yizhou Sun and Leman Akoglu and Dimitrios Gunopulos and Xifeng Yan and Ravi Kumar and Fatma Ozcan and Jieping Ye}, title = {Discovering Novel Biological Traits From Images Using Phylogeny-Guided Neural Networks}, booktitle = {Proceedings of the 29th {ACM} {SIGKDD} Conference on Knowledge Discovery and Data Mining, {KDD} 2023, Long Beach, CA, USA, August 6-10, 2023}, pages = {3966--3978}, publisher = {{ACM}}, year = {2023}, url = {https://doi.org/10.1145/3580305.3599808}, doi = {10.1145/3580305.3599808}, timestamp = {Mon, 25 Sep 2023 08:29:22 +0200}, biburl = {https://dblp.org/rec/conf/kdd/ElhamodKMUBDBBM23.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/corr/abs-2306-03228, author = {Mohannad Elhamod and Mridul Khurana and Harish Babu Manogaran and Josef C. Uyeda and Meghan A. Balk and Wasila M. Dahdul and Yasin Bakis and Henry L. Bart Jr. and Paula M. Mabee and Hilmar Lapp and James P. Balhoff and Caleb Charpentier and David Carlyn and Wei{-}Lun Chao and Charles V. Stewart and Daniel I. Rubenstein and Tanya Y. Berger{-}Wolf and Anuj Karpatne}, title = {Discovering Novel Biological Traits From Images Using Phylogeny-Guided Neural Networks}, journal = {CoRR}, volume = {abs/2306.03228}, year = {2023}, url = {https://doi.org/10.48550/arXiv.2306.03228}, doi = {10.48550/ARXIV.2306.03228}, eprinttype = {arXiv}, eprint = {2306.03228}, timestamp = {Tue, 13 Jun 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/corr/abs-2306-03228.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bmcbi/FernandoMZ20, author = {Pasan C. Fernando and Paula M. Mabee and Erliang Zeng}, title = {Integration of anatomy ontology data with protein-protein interaction networks improves the candidate gene prediction accuracy for anatomical entities}, journal = {{BMC} Bioinform.}, volume = {21}, number = {1}, pages = {442}, year = {2020}, url = {https://doi.org/10.1186/s12859-020-03773-2}, doi = {10.1186/S12859-020-03773-2}, timestamp = {Fri, 25 Dec 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bmcbi/FernandoMZ20.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/mtsr/LeipzigBWEDDKMM20, author = {Jeremy Leipzig and Yasin Bakis and Xiaojun Wang and Mohannad Elhamod and Kelly Diamond and Wasila M. Dahdul and Anuj Karpatne and A. Murat Maga and Paula M. Mabee and Henry L. Bart Jr. and Jane Greenberg}, editor = {Emmanouel Garoufallou and Mar{\'{\i}}a Antonia Ovalle{-}Perandones}, title = {Biodiversity Image Quality Metadata Augments Convolutional Neural Network Classification of Fish Species}, booktitle = {Metadata and Semantic Research - 14th International Conference, {MTSR} 2020, Madrid, Spain, December 2-4, 2020, Revised Selected Papers}, series = {Communications in Computer and Information Science}, volume = {1355}, pages = {3--12}, publisher = {Springer}, year = {2020}, url = {https://doi.org/10.1007/978-3-030-71903-6\_1}, doi = {10.1007/978-3-030-71903-6\_1}, timestamp = {Tue, 17 Aug 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/conf/mtsr/LeipzigBWEDDKMM20.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nature/SnyderLPARRRGHS19, author = {Michael P. Snyder and Shin Lin and Amanda Posgai and Mark Atkinson and Aviv Regev and Jennifer Rood and Orit Rozenblatt{-}Rosen and Leslie Gaffney and Anna Hupalowska and Rahul Satija and Nils Gehlenborg and Jay Shendure and Julia Laskin and Pehr Harbury and Nicholas A. Nystrom and Jonathan C. Silverstein and Ziv Bar{-}Joseph and Kun Zhang and Katy B{\"{o}}rner and Yiing Lin and Richard Conroy and Dena Procaccini and Ananda L. Roy and Ajay Pillai and Marishka Brown and Zorina S. Galis and Long Cai and Cole Trapnell and Dana Jackson and Garry P. Nolan and William James Greenleaf and Sylvia K. Plevritis and Sara Ahadi and Stephanie A. Nevins and Hayan Lee and Christian Martijn Schuerch and Sarah Black and Vishal Gautham Venkataraaman and Ed Esplin and Aaron Horning and Amir Bahmani and Xin Sun and Sanjay Jain and James S. Hagood and Gloria Pryhuber and Peter V. Kharchenko and Bernd Bodenmiller and Todd Brusko and Michael Clare{-}Salzler and Harry Nick and Kevin Otto and Clive Wasserfall and Marda Jorgensen and Maigan Brusko and Sergio Maffioletti and Richard M. Caprioli and Jeffrey M. Spraggins and Danielle Gutierrez and Nathan Heath Patterson and Elizabeth K. Neumann and Raymond Harris and Mark P. de Caestecker and Agnes B. Fogo and Raf Van de Plas and Ken Lau and Guo{-}Cheng Yuan and Qian Zhu and Ruben Dries and Peng Yin and Sinem K. Saka and Jocelyn Y. Kishi and Yu Wang and Isabel Goldaracena and Dong Hye Ye and Kristin E. Burnum{-}Johnson and Paul D. Piehowski and Charles Ansong and Ying Zhu and Tushar Desai and Jay Mulye and Peter Chou and Monica Nagendran and Sarah A. Teichmann and Benedict Paten and Robert F. Murphy and Jian Ma and Vladimir Yu. Kiselev and Carl Kingsford and Allyson Ricarte and Maria Keays and Sushma Anand Akoju and Matthew Ruffalo and Margaret Vella and Chuck McCallum and Leonard E. Cross and Samuel H. Friedman and Randy W. Heiland and Bruce William Herr II and Paul Macklin and Ellen M. Quardokus and Lisel Record and James P. Sluka and Griffin M. Weber and Philip D. Blood and Alexander Ropelewski and William Shirey and Robin M. Scibek and Paula M. Mabee and W. Christopher Lenhardt and Kimberly Robasky and Stavros Michailidis and John C. Marioni and Andrew Butler and Tim Stuart and Eyal Fisher and Shila Ghazanfar and G{\"{o}}kcen Eraslan and Tommaso Biancalani and Eeshit D. Vaishnav and Pothur Srinivas and Aaron Pawlyk and Salvatore Sechi and Elizabeth L. Wilder and James Anderson}, title = {The human body at cellular resolution: the {NIH} Human Biomolecular Atlas Program}, journal = {Nat.}, volume = {574}, number = {7777}, pages = {187--192}, year = {2019}, url = {https://doi.org/10.1038/s41586-019-1629-x}, doi = {10.1038/S41586-019-1629-X}, timestamp = {Fri, 22 Dec 2023 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/nature/SnyderLPARRRGHS19.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/biodb/DahdulMCBDILVM18, author = {Wasila M. Dahdul and Prashanti Manda and Hong Cui and James P. Balhoff and T. Alexander Dececchi and Nizar Ibrahim and Hilmar Lapp and Todd J. Vision and Paula M. Mabee}, title = {Annotation of phenotypes using ontologies: a gold standard for the training and evaluation of natural language processing systems}, journal = {Database J. Biol. Databases Curation}, volume = {2018}, pages = {bay110}, year = {2018}, url = {https://doi.org/10.1093/database/bay110}, doi = {10.1093/DATABASE/BAY110}, timestamp = {Thu, 14 Oct 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/biodb/DahdulMCBDILVM18.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/icbo/MabeeBDLMV18, author = {Paula M. Mabee and James P. Balhoff and Wasila M. Dahdul and Hilmar Lapp and Christopher J. Mungall and Todd J. Vision}, editor = {Pankaj Jaiswal and Laurel Cooper and Melissa A. Haendel and Christopher J. Mungall}, title = {Reasoning over Anatomical Homology in the Phenoscape {KB}}, booktitle = {Proceedings of the 9th International Conference on Biological Ontology {(ICBO} 2018), Corvallis, Oregon, USA, August 7-10, 2018}, series = {{CEUR} Workshop Proceedings}, volume = {2285}, publisher = {CEUR-WS.org}, year = {2018}, url = {https://ceur-ws.org/Vol-2285/ICBO\_2018\_paper\_62.pdf}, timestamp = {Fri, 10 Mar 2023 16:22:24 +0100}, biburl = {https://dblp.org/rec/conf/icbo/MabeeBDLMV18.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@incollection{DBLP:series/ssw/MabeeDBLMUVW18, author = {Paula M. Mabee and Wasila M. Dahdul and James P. Balhoff and Hilmar Lapp and Prashanti Manda and Josef C. Uyeda and Todd J. Vision and Monte Westerfield}, editor = {Anne E. Thessen}, title = {Phenoscape: Semantic analysis of organismal traits and genes yields insights in evolutionary biology}, booktitle = {Application of Semantic Technology in Biodiversity Science}, series = {Studies on the Semantic Web}, volume = {33}, pages = {207--224}, publisher = {{IOS} Press}, year = {2018}, url = {https://doi.org/10.3233/978-1-61499-854-9-207}, doi = {10.3233/978-1-61499-854-9-207}, timestamp = {Mon, 15 Jun 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/series/ssw/MabeeDBLMUVW18.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/bibm/FernandoJZMB17, author = {Pasan C. Fernando and Laura M. Jackson and Erliang Zeng and Paula M. Mabee and James P. Balhoff}, editor = {Xiaohua Hu and Chi{-}Ren Shyu and Yana Bromberg and Jean Gao and Yang Gong and Dmitry Korkin and Illhoi Yoo and Huiru Jane Zheng}, title = {A generic bioinformatics pipeline to integrate large-scale trait data with large phylogenies}, booktitle = {2017 {IEEE} International Conference on Bioinformatics and Biomedicine, {BIBM} 2017, Kansas City, MO, USA, November 13-16, 2017}, pages = {2235--2237}, publisher = {{IEEE} Computer Society}, year = {2017}, url = {https://doi.org/10.1109/BIBM.2017.8218008}, doi = {10.1109/BIBM.2017.8218008}, timestamp = {Fri, 24 Mar 2023 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/bibm/FernandoJZMB17.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/biodb/DahdulDILM15, author = {Wasila M. Dahdul and T. Alexander Dececchi and Nizar Ibrahim and Hilmar Lapp and Paula M. Mabee}, title = {Moving the mountain: analysis of the effort required to transform comparative anatomy into computable anatomy}, journal = {Database J. Biol. Databases Curation}, volume = {2015}, year = {2015}, url = {https://doi.org/10.1093/database/bav040}, doi = {10.1093/DATABASE/BAV040}, timestamp = {Mon, 26 Oct 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/biodb/DahdulDILM15.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/asist/CuiDDIMBG15, author = {Hong Cui and Wasila M. Dahdul and T. Alexander Dececchi and Nizar Ibrahim and Paula M. Mabee and James P. Balhoff and Hariharan Gopalakrishnan}, title = {CharaParser+EQ: Performance evaluation without gold standard}, booktitle = {Information Science with Impact: Research in and for the Community - Proceedings of the 78th ASIS{\&}T Annual Meeting, {ASIST} 2015, St. Louis, Missouri, Missouri, USA, October 6-10, 2015}, series = {Proc. Assoc. Inf. Sci. Technol.}, volume = {52}, number = {1}, pages = {1--10}, publisher = {Wiley}, year = {2015}, url = {https://doi.org/10.1002/pra2.2015.145052010020}, doi = {10.1002/PRA2.2015.145052010020}, timestamp = {Fri, 21 Jan 2022 13:55:35 +0100}, biburl = {https://dblp.org/rec/conf/asist/CuiDDIMBG15.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/biomedsem/HaendelBBBBBCDDDHILMNRSM14, author = {Melissa A. Haendel and James P. Balhoff and Frederic B. Bastian and David C. Blackburn and Judith A. Blake and Yvonne M. Bradford and Aur{\'{e}}lie Comte and Wasila M. Dahdul and Thomas Dececchi and Robert E. Druzinsky and Terry F. Hayamizu and Nizar Ibrahim and Suzanna E. Lewis and Paula M. Mabee and Anne Niknejad and Marc Robinson{-}Rechavi and Paul C. Sereno and Christopher J. Mungall}, title = {Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon}, journal = {J. Biomed. Semant.}, volume = {5}, pages = {21}, year = {2014}, url = {https://doi.org/10.1186/2041-1480-5-21}, doi = {10.1186/2041-1480-5-21}, timestamp = {Thu, 14 Oct 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/biomedsem/HaendelBBBBBCDDDHILMNRSM14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/biomedsem/DahdulCMMOWH14, author = {Wasila M. Dahdul and Hong Cui and Paula M. Mabee and Christopher J. Mungall and David Osumi{-}Sutherland and Ramona L. Walls and Melissa A. Haendel}, title = {Nose to tail, roots to shoots: spatial descriptors for phenotypic diversity in the Biological Spatial Ontology}, journal = {J. Biomed. Semant.}, volume = {5}, pages = {34}, year = {2014}, url = {https://doi.org/10.1186/2041-1480-5-34}, doi = {10.1186/2041-1480-5-34}, timestamp = {Thu, 14 Oct 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/biomedsem/DahdulCMMOWH14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/biomedsem/BalhoffDDLMV14, author = {James P. Balhoff and Wasila M. Dahdul and Thomas Dececchi and Hilmar Lapp and Paula M. Mabee and Todd J. Vision}, title = {Annotation of phenotypic diversity: decoupling data curation and ontology curation using Phenex}, journal = {J. Biomed. Semant.}, volume = {5}, pages = {45}, year = {2014}, url = {https://doi.org/10.1186/2041-1480-5-45}, doi = {10.1186/2041-1480-5-45}, timestamp = {Mon, 26 Oct 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/biomedsem/BalhoffDDLMV14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/corr/BalhoffDML14, author = {James P. Balhoff and T. Alexander Dececchi and Paula M. Mabee and Hilmar Lapp}, title = {Presence-absence reasoning for evolutionary phenotypes}, journal = {CoRR}, volume = {abs/1410.3862}, year = {2014}, url = {http://arxiv.org/abs/1410.3862}, eprinttype = {arXiv}, eprint = {1410.3862}, timestamp = {Mon, 13 Aug 2018 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/corr/BalhoffDML14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/biodb/ArighiCCKWFDCSDMLHGJRMBDBLCSPHALCMCBWLWTRSNCDW13, author = {Cecilia N. Arighi and Ben Carterette and K. Bretonnel Cohen and Martin Krallinger and W. John Wilbur and Petra Fey and Robert J. Dodson and Laurel Cooper and Ceri E. Van Slyke and Wasila M. Dahdul and Paula M. Mabee and Donghui Li and Bethany R. Harris and Marc Gillespie and Silvia Jimenez and Phoebe M. Roberts and Lisa Matthews and Kevin G. Becker and Harold J. Drabkin and Susan M. Bello and Luana Licata and Andrew Chatr{-}aryamontri and Mary L. Schaeffer and Julie Park and Melissa A. Haendel and Kimberly Van Auken and Yuling Li and Juancarlos Chan and Hans{-}Michael M{\"{u}}ller and Hong Cui and James P. Balhoff and Chi{-}Yang Wu and Zhiyong Lu and Chih{-}Hsuan Wei and Catalina O. Tudor and Kalpana Raja and Suresh Subramani and Jeyakumar Natarajan and Juan Miguel Cejuela and Pratibha Dubey and Cathy H. Wu}, title = {An overview of the BioCreative 2012 Workshop Track {III:} interactive text mining task}, journal = {Database J. Biol. Databases Curation}, volume = {2013}, year = {2013}, url = {https://doi.org/10.1093/database/bas056}, doi = {10.1093/DATABASE/BAS056}, timestamp = {Tue, 21 Mar 2023 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/biodb/ArighiCCKWFDCSDMLHGJRMBDBLCSPHALCMCBWLWTRSNCDW13.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/biomedsem/MidfordDBDILLMSWVB13, author = {Peter E. Midford and Thomas Dececchi and James P. Balhoff and Wasila M. Dahdul and Nizar Ibrahim and Hilmar Lapp and John G. Lundberg and Paula M. Mabee and Paul C. Sereno and Monte Westerfield and Todd J. Vision and David C. Blackburn}, title = {The vertebrate taxonomy ontology: a framework for reasoning across model organism and species phenotypes}, journal = {J. Biomed. Semant.}, volume = {4}, pages = {34}, year = {2013}, url = {https://doi.org/10.1186/2041-1480-4-34}, doi = {10.1186/2041-1480-4-34}, timestamp = {Mon, 26 Oct 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/biomedsem/MidfordDBDILLMSWVB13.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/icbo/BalhoffDLMVWM11, author = {James P. Balhoff and Wasila M. Dahdul and Hilmar Lapp and Peter E. Midford and Todd J. Vision and Monte Westerfield and Paula M. Mabee}, editor = {Olivier Bodenreider and Maryann E. Martone and Alan Ruttenberg}, title = {Employing Reasoning within the Phenoscape Knowledgebase}, booktitle = {Proceedings of the 2nd International Conference on Biomedical Ontology, Buffalo, NY, USA, July 26-30, 2011}, series = {{CEUR} Workshop Proceedings}, volume = {833}, publisher = {CEUR-WS.org}, year = {2011}, url = {https://ceur-ws.org/Vol-833/paper30.pdf}, timestamp = {Fri, 10 Mar 2023 16:22:24 +0100}, biburl = {https://dblp.org/rec/conf/icbo/BalhoffDLMVWM11.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/icbo/DahdulBLMVWM11, author = {Wasila M. Dahdul and James P. Balhoff and Hilmar Lapp and Peter E. Midford and Todd J. Vision and Monte Westerfield and Paula M. Mabee}, editor = {Olivier Bodenreider and Maryann E. Martone and Alan Ruttenberg}, title = {Phenoscape: Use Cases and Anatomy Ontology Requirements for Linking Evolutionary and Model Organism Phenotypes}, booktitle = {Proceedings of the 2nd International Conference on Biomedical Ontology, Buffalo, NY, USA, July 26-30, 2011}, series = {{CEUR} Workshop Proceedings}, volume = {833}, publisher = {CEUR-WS.org}, year = {2011}, url = {https://ceur-ws.org/Vol-833/paper83.pdf}, timestamp = {Fri, 10 Mar 2023 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/icbo/DahdulBLMVWM11.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/semweb/VisionBLMW11, author = {Todd J. Vision and Judith A. Blake and Hilmar Lapp and Paula M. Mabee and Monte Westerfield}, editor = {Tomi Kauppinen and Line C. Pouchard and Carsten Ke{\ss}ler}, title = {Similarity Between Semantic Description Sets: Addressing Needs Beyond Data Integration}, booktitle = {Proceedings of the First International Workshop on Linked Science 2011, Bonn, Germany, October 24, 2011}, series = {{CEUR} Workshop Proceedings}, volume = {783}, publisher = {CEUR-WS.org}, year = {2011}, url = {https://ceur-ws.org/Vol-783/paper8.pdf}, timestamp = {Fri, 10 Mar 2023 16:23:04 +0100}, biburl = {https://dblp.org/rec/conf/semweb/VisionBLMW11.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@incollection{DBLP:series/cb/HaendelNOMMM008, author = {Melissa A. Haendel and Fabian Neuhaus and David Osumi{-}Sutherland and Paula M. Mabee and Jos{\'{e}} L. V. Mejino Jr. and Chris Mungall and Barry Smith}, editor = {Albert Burger and Duncan Davidson and Richard A. Baldock}, title = {{CARO} - The Common Anatomy Reference Ontology}, booktitle = {Anatomy Ontologies for Bioinformatics, Principles and Practice}, series = {Computational Biology}, volume = {6}, pages = {327--349}, publisher = {Springer}, year = {2008}, url = {https://doi.org/10.1007/978-1-84628-885-2\_16}, doi = {10.1007/978-1-84628-885-2\_16}, timestamp = {Mon, 16 Sep 2019 01:00:00 +0200}, biburl = {https://dblp.org/rec/series/cb/HaendelNOMMM008.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
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