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Jamie P. McCusker

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affiliation (PhD 2015): Rensselaer Polytechnic Institute (RPI), Tetherless World Constellation, Troy, NY, USA
affiliation (former): Yale University, New Haven, CT, USA

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Journal Articles

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2023
[j11]
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Oshani Seneviratne, Amar K. Das, Shruthi Chari, Nkechinyere N. Agu, Sabbir M. Rashid, Jamie P. McCusker, Jade S. Franklin, Miao Qi, Kristin P. Bennett, Ching-Hua Chen, James A. Hendler, Deborah L. McGuinness:
Semantically enabling clinical decision support recommendations. J. Biomed. Semant. 14(1): 8 (2023)
2017
[j10]
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Jamie P. McCusker, Michel Dumontier, Rui Yan, Sylvia He, Jonathan S. Dordick, Deborah L. McGuinness:
Finding melanoma drugs through a probabilistic knowledge graph. PeerJ Comput. Sci. 3: e106 (2017)
2015
[j9]
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Ruth E. Duerr, Jamie P. McCusker, Mark A. Parsons, Siri Jodha Singh Khalsa, Peter L. Pulsifer, Cassidy Thompson, Rui Yan, Deborah L. McGuinness, Peter Fox:
Formalizing the semantics of sea ice. Earth Sci. Informatics 8(1): 51-62 (2015)
2014
[j8]
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Michel Dumontier, Christopher J. O. Baker, Joachim Baran, Alison Callahan, Leonid L. Chepelev, Jose Cruz-Toledo, Nicholas R. Del Rio, Geraint Duck, Laura Inés Furlong, Nichealla Keath, Dana Klassen, Jamie P. McCusker, Núria Queralt-Rosinach, Matthias Samwald, Natalia Villanueva-Rosales, Mark D. Wilkinson, Robert Hoehndorf:
The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery. J. Biomed. Semant. 5: 14 (2014)
2012
[j7]
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  - journals/bmcbi/HolfordMCK12
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Matthew Holford, Jamie P. McCusker, Kei-Hoi Cheung, Michael Krauthammer:
A semantic web framework to integrate cancer omics data with biological knowledge. BMC Bioinform. 13(S-1): S10 (2012)
[j6]
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Jamie P. McCusker, Timothy Lebo, Cynthia Chang, Deborah L. McGuinness, Paulo Pinheiro da Silva:
Parallel Identities for Managing Open Government Data. IEEE Intell. Syst. 27(3): 55-62 (2012)
[j5]
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Helena F. Deus, Eric Prud'hommeaux, Michael Miller, Jun Zhao, James Malone, Tomasz Adamusiak, Jamie P. McCusker, Sudeshna Das, Philippe Rocca-Serra, Ronan Fox, M. Scott Marshall:
Translating standards into practice - One Semantic Web API for Gene Expression. J. Biomed. Informatics 45(4): 782-794 (2012)
2011
[j4]
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Joanne S. Luciano, Bosse Andersson, Colin R. Batchelor, Olivier Bodenreider, Tim Clark, Christine K. Denney, Christopher Domarew, Thomas Gambet, Lee Harland, Anja Jentzsch, Vipul Kashyap, Peter J. Kos, Julia Kozlovsky, Timothy Lebo, M. Scott Marshall, Jamie P. McCusker, Deborah L. McGuinness, Chimezie Ogbuji, Elgar Pichler, Robert L. Powers, Eric Prud'hommeaux, Matthias Samwald, Lynn M. Schriml, Peter J. Tonellato, Patricia L. Whetzel, Jun Zhao, Susie Stephens, Michel Dumontier:
The Translational Medicine Ontology and Knowledge Base: driving personalized medicine by bridging the gap between bench and bedside. J. Biomed. Semant. 2(S-2): S1 (2011)
[j3]
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Li Ding, James Michaelis, Jamie P. McCusker, Deborah L. McGuinness:
Linked provenance data: A semantic Web-based approach to interoperable workflow traces. Future Gener. Comput. Syst. 27(6): 797-805 (2011)
2009
[j2]
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Jamie P. McCusker, Joshua A. Phillips, Alejandra N. González-Beltrán, Anthony Finkelstein, Michael Krauthammer:
Semantic web data warehousing for caGrid. BMC Bioinform. 10(S-10): 2 (2009)
2008
[j1]
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Songhua Xu, Jamie P. McCusker, Michael Krauthammer:
Yale Image Finder (YIF): a new search engine for retrieving biomedical images. Bioinform. 24(17): 1968-1970 (2008)

Conference and Workshop Papers

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2023
[c43]
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  - conf/esws/00020MRM23
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Henrique Santos, Paulo Pinheiro, Jamie P. McCusker, Sabbir M. Rashid, Deborah L. McGuinness:
SciKG: Tutorial on Building Scientific Knowledge Graphs from Data, Data Dictionaries, and Codebooks. ESWC Workshops 2023
[c42]
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Sabbir M. Rashid, Jamie P. McCusker, Daniel M. Gruen, Oshani Seneviratne, Deborah L. McGuinness:
A Concise Ontology to Support Research on Complex, Multimodal Clinical Reasoning. ESWC 2023: 390-407
[c41]
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Jamie P. McCusker, Deborah L. McGuinness:
Whyis 2: An Open Source Framework for Knowledge Graph Development and Research. ESWC 2023: 538-554
[c40]
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  - conf/kgswc/FranklinPEMMB23
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Jade S. Franklin, Hannah Powers, John S. Erickson, Jamie P. McCusker, Deborah L. McGuinness, Kristin P. Bennett:
An Ontology for Reasoning About Fairness in Regression and Machine Learning. KGSWC 2023: 243-261
2022
[c39]
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  - conf/aaai/AbdelazizDMS22
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Ibrahim Abdelaziz, Julian Dolby, Jamie P. McCusker, Kavitha Srinivas:
Can Machines Read Coding Manuals Yet? - A Benchmark for Building Better Language Models for Code Understanding. AAAI 2022: 4415-4423
[c38]
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Jade S. Franklin, Karan Bhanot, Mohamed F. Ghalwash, Kristin P. Bennett, Jamie P. McCusker, Deborah L. McGuinness:
An Ontology for Fairness Metrics. AIES 2022: 265-275
2021
[c37]
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Ibrahim Abdelaziz, Julian Dolby, Jamie P. McCusker, Kavitha Srinivas:
A Toolkit for Generating Code Knowledge Graphs. K-CAP 2021: 137-144
[c36]
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Jamie P. McCusker, Michael Deagen, Tolulomo Fateye, Anya Wallace, Sabbir M. Rashid, Deborah L. McGuinness:
Creating and Visualizing the Materials Science Knowledge Graph with Whyis. ISWC (Posters/Demos/Industry) 2021
2020
[c35]
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Jay D. S. Franklin, Shruthi Chari, Morgan Foreman, Oshani Seneviratne, Daniel M. Gruen, Jamie P. McCusker, Amar K. Das, Deborah L. McGuinness:
Knowledge Extraction of Cohort Characteristics in Research Publications. AMIA 2020
[c34]
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Jamie P. McCusker, Neha Keshan, Sabbir M. Rashid, Michael Deagen, L. Catherine Brinson, Deborah L. McGuinness:
NanoMine: A Knowledge Graph for Nanocomposite Materials Science. ISWC (2) 2020: 144-159
[c33]
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Henrique Santos, Alice Mulvehill, John S. Erickson, Jamie P. McCusker, Minor Gordon, Owen Xie, Samuel Stouffer, Gerard Capraro, Alex Pidwerbetsky, John Burgess, Allan Berlinsky, Kurt A. Turck, Jonathan D. Ashdown, Deborah L. McGuinness:
The Dynamic Spectrum Access Policy Framework in Action. ISWC (Demos/Industry) 2020: 218-223
[c32]
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Ibrahim Abdelaziz, Kavitha Srinivas, Julian Dolby, Jamie P. McCusker:
A Demonstration of CodeBreaker: A Machine Interpretable Knowledge Graph for Code. ISWC (Demos/Industry) 2020: 266-271
[c31]
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Henrique Santos, Alice Mulvehill, John S. Erickson, Jamie P. McCusker, Minor Gordon, Owen Xie, Samuel Stouffer, Gerard Capraro, Alex Pidwerbetsky, John Burgess, Allan Berlinsky, Kurt A. Turck, Jonathan D. Ashdown, Deborah L. McGuinness:
A Semantic Framework for Enabling Radio Spectrum Policy Management and Evaluation. ISWC (2) 2020: 482-498
2019
[c30]
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Shruthi Chari, Miao Qi, Nkechinyere N. Agu, Oshani Seneviratne, Jamie P. McCusker, Kristin P. Bennett, Amar K. Das, Deborah L. McGuinness:
Making Study Populations Visible Through Knowledge Graphs. ISWC (2) 2019: 53-68
[c29]
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Oshani Seneviratne, Amar K. Das, Shruthi Chari, Nkechinyere N. Agu, Sabbir M. Rashid, Ching-Hua Chen, Jamie P. McCusker, James A. Hendler, Deborah L. McGuinness:
Enabling Trust in Clinical Decision Support Recommendations through Semantics. SeWeBMeDa@ISWC 2019: 55-67
[c28]
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Nkechinyere N. Agu, Neha Keshan, Shruthi Chari, Oshani Seneviratne, Jamie P. McCusker, Deborah L. McGuinness:
G-PROV: Provenance Management for Clinical Practice Guidelines. SeWeBMeDa@ISWC 2019: 68-75
[c27]
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Shruthi Chari, Miao Qi, Nkechinyere N. Agu, Oshani Seneviratne, Jamie P. McCusker, Kristin P. Bennett, Amar K. Das, Deborah L. McGuinness:
Ontology-enabled Analysis of Study Populations. ISWC (Satellites) 2019: 117-120
[c26]
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Jamie P. McCusker, Michel Dumontier, Shruthi Chari, Joanne S. Luciano, Deborah L. McGuinness:
A Linked Data Representation for Summary Statistics and Grouping Criteria. SAWSemStats@ISWC 2019
[c25]
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Jamie P. McCusker, Michel Dumontier, Rui Yan, Sylvia He, Jonathan S. Dordick, Deborah L. McGuinness:
Reflections on: Finding Melanoma Drugs Through a Probabilistic Knowledge Graph. JT@ISWC 2019
[c24]
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Alexander New, Miao Qi, Shruthi Chari, Sabbir M. Rashid, Oshani Seneviratne, Jamie P. McCusker, John S. Erickson, Deborah L. McGuinness, Kristin P. Bennett:
Automating Population Health Studies Through Semantics and Statistics. SAWSemStats@ISWC 2019
2018
[c23]
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  - conf/ontobras/PinheiroB0RLLNM18
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Paulo Pinheiro, Marcello Peixoto Bax, Henrique Santos, Sabbir M. Rashid, Zhicheng Liang, Yue Liu, Yarden Ne'eman, Jamie P. McCusker, Deborah L. McGuinness:
Annotating Diverse Scientific Data With HAScO. ONTOBRAS 2018: 80-91
[c22]
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Jamie P. McCusker, Sabbir M. Rashid, Nkechinyere Agu, Kristin P. Bennett, Deborah L. McGuinness:
Developing Scientific Knowledge Graphs Using Whyis. SemSci@ISWC 2018: 52-58
[c21]
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Jamie P. McCusker, Sabbir M. Rashid, Nkechinyere Agu, Kristin P. Bennett, Deborah L. McGuinness:
The Whyis Knowledge Graph Framework in Action. ISWC (P&D/Industry/BlueSky) 2018
[c20]
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Oshani Seneviratne, Sabbir M. Rashid, Shruthi Chari, Jamie P. McCusker, Kristin P. Bennett, James A. Hendler, Deborah L. McGuinness:
Knowledge Integration for Disease Characterization: A Breast Cancer Example. ISWC (2) 2018: 223-238
[c19]
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Oshani Seneviratne, Sabbir M. Rashid, Shruthi Chari, Jamie P. McCusker, Kristin P. Bennett, Jim Hendler, Deborah L. McGuinness:
Ontology-enabled Breast Cancer Characterization. ISWC (P&D/Industry/BlueSky) 2018
2017
[c18]
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Sabbir M. Rashid, Katherine Chastain, Jeanette A. Stingone, Deborah L. McGuinness, Jamie P. McCusker:
The Semantic Data Dictionary Approach to Data Annotation & Integration. SemSci@ISWC 2017: 47-54
[c17]
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Jamie P. McCusker, Sabbir M. Rashid, Zhicheng Liang, Yue Liu, Katherine Chastain, Paulo Pinheiro, Jeanette A. Stingone, Deborah L. McGuinness:
Broad, Interdisciplinary Science In Tela: An Exposure and Child Health Ontology. WebSci 2017: 349-357
[c16]
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Vipula Rawte, Jamie P. McCusker, He Zhao, L. Catherine Brinson, Wei Chen, Linda Schadler, Deborah L. McGuinness:
An Ontology for a Polymer Nanocomposite Community Data Resource. WebSci 2017: 411-412
2014
[c15]
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  - conf/icbo/McCuskerYSECDDM14
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Jamie P. McCusker, Rui Yan, Kusum Solanki, John S. Erickson, Cynthia Chang, Michel Dumontier, Jonathan S. Dordick, Deborah L. McGuinness:
A Nanopublication Framework for Biological Networks using Cytoscape.js. ICBO 2014: 90-92
[c14]
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John S. Erickson, Katherine Chastain, Zachary Fry, Jamie P. McCusker, Rui Yan, Evan W. Patton, Deborah L. McGuinness:
Identifying First Responder Communities Using Social Network Analysis. ISWC (Posters & Demos) 2014: 425-428
2013
[c13]
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  - conf/dils/McCuskerLKM13
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Jamie P. McCusker, Timothy Lebo, Michael Krauthammer, Deborah L. McGuinness:
Next Generation Cancer Data Discovery, Access, and Integration Using Prizms and Nanopublications. DILS 2013: 105-112
[c12]
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Jamie P. McCusker, Deborah L. McGuinness, Jeongmin Lee, Chavon Thomas, Paul Courtney, Zaria Tatalovich, Noshir S. Contractor, Glen D. Morgan, Abdul R. Shaikh:
Towards Next Generation Health Data Exploration: A Data Cube-Based Investigation into Population Statistics for Tobacco. HICSS 2013: 2725-2732
[c11]
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A. Patrice Seyed, Timothy Lebo, Evan W. Patton, Jamie P. McCusker, Deborah L. McGuinness:
SemantEco: a next-generation web observatory. WWW (Companion Volume) 2013: 1369-1372
2012
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Deborah L. McGuinness, Timothy Lebo, Li Ding, Jamie P. McCusker, Abdul R. Shaikh, Richard P. Moser, Glen D. Morgan, Zaria Tatalovich, Gordon Willis, Bradford W. Hesse, Noshir S. Contractor, Paul Courtney:
Towards Semantically Enabled Next Generation Community Health Information Portals: The PopSciGrid Pilot. HICSS 2012: 2752-2760
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Jamie P. McCusker, Timothy Lebo, Alvaro Graves, Dominic DiFranzo, Paulo Pinheiro, Deborah L. McGuinness:
Functional Requirements for Information Resource Provenance on the Web. IPAW 2012: 52-66
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Jamie P. McCusker, Jeongmin Lee, Chavon Thomas, Deborah L. McGuinness:
Public Health Surveillance Using Global Health Explorer. SATBI+SWIM 2012
2011
[c7]
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Jamie P. McCusker, Joanne S. Luciano, Deborah L. McGuinness:
Towards an Ontology for Conceptual Modeling. ICBO 2011
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Jamie P. McCusker, Timothy Lebo, Li Ding, Cynthia Chang, Paulo Pinheiro da Silva, Deborah L. McGuinness:
Where did you hear that? Information and the Sources They Come From. LISC 2011
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Helena F. Deus, Jun Zhao, Jamie P. McCusker, Ronan Fox, Eric Prud'hommeaux, James Malone, Sudeshna Das, Michael Miller, Tomasz Adamusiak, Philippe Rocca-Serra, M. Scott Marshall:
Translating standards into practice: one semantic web API for gene expression. SWAT4LS 2011: 6-7
2010
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Jamie P. McCusker, Deborah L. McGuinness:
Explorations into the Provenance of High Throughput Biomedical Experiments. IPAW 2010: 120-128
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Jamie P. McCusker, Deborah L. McGuinness:
Towards Identity in Linked Data. OWLED 2010
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Harry Halpin, Patrick J. Hayes, Jamie P. McCusker, Deborah L. McGuinness, Henry S. Thompson:
When owl: sameAs Isn't the Same: An Analysis of Identity in Linked Data. ISWC (1) 2010: 305-320
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Matthew Holford, Jamie P. McCusker, Kei-Hoi Cheung, Michael Krauthammer:
Analysis of Cancer Omics Data In A Semantic Web Framework. SWAT4LS 2010

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2023
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Catia Pesquita, Ernesto Jiménez-Ruiz, Jamie P. McCusker, Daniel Faria, Mauro Dragoni, Anastasia Dimou, Raphaël Troncy, Sven Hertling:
The Semantic Web - 20th International Conference, ESWC 2023, Hersonissos, Crete, Greece, May 28 - June 1, 2023, Proceedings. Lecture Notes in Computer Science 13870, Springer 2023, ISBN 978-3-031-33454-2 [contents]

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2023
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  - journals/corr/abs-2311-09366
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Jamie P. McCusker:
LOKE: Linked Open Knowledge Extraction for Automated Knowledge Graph Construction. CoRR abs/2311.09366 (2023)
2021
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Henrique Santos, Jamie P. McCusker, Deborah L. McGuinness:
Geospatial Reasoning with Shapefiles for Supporting Policy Decisions. CoRR abs/2106.04771 (2021)
[i7]
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Ibrahim Abdelaziz, Julian Dolby, Jamie P. McCusker, Kavitha Srinivas:
Can Machines Read Coding Manuals Yet? - A Benchmark for Building Better Language Models for Code Understanding. CoRR abs/2109.07452 (2021)
2020
[i6]
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  - journals/corr/abs-2002-09440
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Kavitha Srinivas, Ibrahim Abdelaziz, Julian Dolby, Jamie P. McCusker:
Graph4Code: A Machine Interpretable Knowledge Graph for Code. CoRR abs/2002.09440 (2020)
[i5]
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Henrique Santos, Alice Mulvehill, John S. Erickson, Jamie P. McCusker, Minor Gordon, Owen Xie, Samuel Stouffer, Gerard Capraro, Alex Pidwerbetsky, John Burgess, Allan Berlinsky, Kurt A. Turck, Jonathan D. Ashdown, Deborah L. McGuinness:
A Semantic Framework for Enabling Radio Spectrum Policy Management and Evaluation. CoRR abs/2011.04085 (2020)
2019
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Shruthi Chari, Miao Qi, Nkechinyere N. Agu, Oshani Seneviratne, Jamie P. McCusker, Kristin P. Bennett, Amar K. Das, Deborah L. McGuinness:
Making Study Populations Visible through Knowledge Graphs. CoRR abs/1907.04358 (2019)
2018
[i3]
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Oshani Seneviratne, Sabbir M. Rashid, Shruthi Chari, Jamie P. McCusker, Kristin P. Bennett, James A. Hendler, Deborah L. McGuinness:
Knowledge Integration for Disease Characterization: A Breast Cancer Example. CoRR abs/1807.07991 (2018)
2016
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Jamie P. McCusker, Michel Dumontier, Rui Yan, Sylvia He, Jonathan S. Dordick, Deborah L. McGuinness:
Finding melanoma drugs through a probabilistic knowledge graph. PeerJ Prepr. 4: e2007 (2016)
2010
[i1]
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Matthew Holford, Jamie P. McCusker, Kei-Hoi Cheung, Michael Krauthammer:
Analysis Of Cancer Omics Data In A Semantic Web Framework. CoRR abs/1012.1648 (2010)

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