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J. Harry Caufield
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2020 – today
- 2024
- [j4]J. Harry Caufield
, Harshad Hegde
Structured Prompt Interrogation and Recursive Extraction of Semantics (SPIRES): a method for populating knowledge bases using zero-shot learning. Bioinform. 40(3) (2024) - [j3]Tudor Groza, J. Harry Caufield, Dylan Gration, Gareth Baynam, Melissa A. Haendel, Peter N. Robinson, Christopher J. Mungall, Justin T. Reese:
An evaluation of GPT models for phenotype concept recognition. BMC Medical Informatics Decis. Mak. 24(1): 30 (2024) - [c4]Emanuele Cavalleri, Mauricio Soto Gomez, Ali Pashaeibarough, Dario Malchiodi, J. Harry Caufield, Justin T. Reese, Christopher J. Mungall, Peter N. Robinson, Elena Casiraghi, Giorgio Valentini, Marco Mesiti:
Initial achievements in relation extraction from RNA-focused scientific papers. SEBD 2024: 61-69 - [c3]Emanuele Cavalleri, Mauricio Soto Gomez, Ali Pashaeibarough, Dario Malchiodi, J. Harry Caufield, Justin T. Reese, Chris Mungall, Peter N. Robinson, Elena Casiraghi, Giorgio Valentini, Marco Mesiti:
SPIREX: Improving LLM-based relation extraction from RNA-focused scientific literature using graph machine learning. VLDB Workshops 2024 - [i11]Marcin P. Joachimiak, Mark A. Miller, J. Harry Caufield, Ryan Ly, Nomi L. Harris
The Artificial Intelligence Ontology: LLM-assisted construction of AI concept hierarchies. CoRR abs/2404.03044 (2024) - [i10]Harshad Hegde, Jennifer Vendetti, Damien Goutte-Gattat, J. Harry Caufield, John Graybeal, Nomi L. Harris, Naouel Karam, Christian Kindermann, Nicolas Matentzoglu, James A. Overton, Mark A. Musen, Christopher J. Mungall:
A Change Language for Ontologies and Knowledge Graphs. CoRR abs/2409.13906 (2024) - [i9]J. Harry Caufield, Carlo Kroll, Shawn T. O'Neil, Justin T. Reese, Marcin P. Joachimiak, Harshad Hegde, Nomi L. Harris, Madan Krishnamurthy, James A McLaughlin, Damian Smedley, Melissa A. Haendel, Peter N. Robinson, Christopher J. Mungall:
CurateGPT: A flexible language-model assisted biocuration tool. CoRR abs/2411.00046 (2024) - 2023
- [i8]J. Harry Caufield, Tim E. Putman, Kevin Schaper, Deepak R. Unni, Harshad Hegde, Tiffany J. Callahan, Luca Cappelletti
KG-Hub - Building and Exchanging Biological Knowledge Graphs. CoRR abs/2302.10800 (2023) - [i7]J. Harry Caufield, Harshad Hegde, Vincent Emonet, Nomi L. Harris
Structured prompt interrogation and recursive extraction of semantics (SPIRES): A method for populating knowledge bases using zero-shot learning. CoRR abs/2304.02711 (2023) - [i6]Marcin P. Joachimiak, J. Harry Caufield, Nomi L. Harris, Hyeongsik Kim, Christopher J. Mungall:
Gene Set Summarization using Large Language Models. CoRR abs/2305.13338 (2023) - [i5]Tudor Groza, J. Harry Caufield, Dylan Gration, Gareth Baynam, Melissa A. Haendel, Peter N. Robinson, Chris Mungall, Justin T. Reese:
An evaluation of GPT models for phenotype concept recognition. CoRR abs/2309.17169 (2023) - [i4]Nicolas Matentzoglu, J. Harry Caufield, Harshad B. Hegde, Justin T. Reese, Sierra A. T. Moxon, Hyeongsik Kim, Nomi L. Harris
MapperGPT: Large Language Models for Linking and Mapping Entities. CoRR abs/2310.03666 (2023) - 2021
- [c2]Yichao Zhou, Yu Yan, Rujun Han, J. Harry Caufield, Kai-Wei Chang, Yizhou Sun, Peipei Ping, Wei Wang:
Clinical Temporal Relation Extraction with Probabilistic Soft Logic Regularization and Global Inference. AAAI 2021: 14647-14655 - [c1]Yichao Zhou, Wei-Ting Chen, Bowen Zhang, David Lee, J. Harry Caufield, Kai-Wei Chang, Yizhou Sun, Peipei Ping, Wei Wang
CREATe: Clinical Report Extraction and Annotation Technology. ICDE 2021: 2677-2680 - [i3]Yichao Zhou, Wei-Ting Chen, Bowen Zhang, David Lee, J. Harry Caufield, Kai-Wei Chang, Yizhou Sun, Peipei Ping, Wei Wang:
CREATe: Clinical Report Extraction and Annotation Technology. CoRR abs/2103.00562 (2021) - [i2]Yichao Zhou, Chelsea Ju, J. Harry Caufield, Kevin Shih, Calvin Yu-Chian Chen, Yizhou Sun, Kai-Wei Chang, Peipei Ping, Wei Wang:
Clinical Named Entity Recognition using Contextualized Token Representations. CoRR abs/2106.12608 (2021) - 2020
- [i1]Yichao Zhou, Yu Yan, Rujun Han, J. Harry Caufield
Clinical Temporal Relation Extraction with Probabilistic Soft Logic Regularization and Global Inference. CoRR abs/2012.08790 (2020)
2010 – 2019
- 2017
- [j2]J. Harry Caufield
Bacterial protein meta-interactomes predict cross-species interactions and protein function. BMC Bioinform. 18(1): 171:1-171:14 (2017) - 2015
- [j1]J. Harry Caufield
Protein Complexes in Bacteria. PLoS Comput. Biol. 11(2) (2015)
Coauthor Index
aka: Christopher J. Mungall
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