Kirk Roberts - RankMe

163 papers A* 3B 15Misc 22Journal 76Unranked 41

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	An application-based ontological knowledge base of medications to support health literacy and adherence for the consumer population: an aging population use case. J. Biomed. Semant. Clifford Chen, Muhammad Amith, Kirk Roberts, Rebecca Mauldin, Renata Komalasari, Cui Tao
2026	J	`jnl`	Clinical Document Metadata Extraction: A Scoping Review. CoRR Kurt Miller, Qiuhao Lu, William R. Hersh, Kirk Roberts, Steven Bedrick, Andrew Wen, Hongfang Liu
2026	J	`jnl`	Overview of TREC 2025 Biomedical Generative Retrieval (BioGen) Track. CoRR Deepak Gupta, Dina Demner-Fushman, William R. Hersh, Steven Bedrick, Kirk Roberts
2025	J	`jnl`	A comparative study of recent large language models on generating hospital discharge summaries for lung cancer patients. J. Biomed. Informatics Yiming Li, Fang Li, Na Hong, Manqi Li, Kirk Roberts, Licong Cui, Cui Tao, Hua Xu
2025	J	`jnl`	Automatic genetic phenotype normalization from dysmorphology physical examinations: an overview of the BioCreative VIII - Task 3 competition. Database J. Biol. Databases Curation Davy Weissenbacher, Xinwei Zhao, Jessica R. C. Priestley, Katherine M. Szigety, Sarah F. Schmidt, Karen O'Connor, Ekin Soysal, Kirk Roberts, Jiewei Qi, Ling Luo, Zhihao Yang, Hongfei Lin, Hajung Kim, Chanhwi Kim, Jiwoong Sohn, Tim Beck, Marek Rei, Sunkyu Kim, T. Ian Simpson, Joram M. Posma, Antoine Lain, Mujeen Sung, Jaewoo Kang, Areej Alhassan, Viktor Schlegel, Monira Aloud, Riza Batista-Navarro, Goran Nenadic, Ying-Jia Lin, Zhi-Quan Feng, Hung-Yu Kao, Ian M. Campbell, Graciela Gonzalez-Hernandez
2025	J	`jnl`	Dynamic few-shot prompting for clinical note section classification using lightweight, open-source large language models. J. Am. Medical Informatics Assoc. Kurt Miller, Steven Bedrick, Qiuhao Lu, Andrew Wen, William R. Hersh, Kirk Roberts, Hongfang Liu
2025	J	`jnl`	Gender-Neutral Large Language Models for Medical Applications: Reducing Bias in PubMed Abstracts. CoRR Elizabeth Schaefer, Kirk Roberts
2025	J	`jnl`	Generalizable self-supervised learning for brain CTA in acute stroke. Comput. Biol. Medicine Yingjun Dong, Samiksha Pachade, Kirk Roberts, Xiaoqian Jiang, Sunil A. Sheth, Luca Giancardo
2025	J	`jnl`	Quantitatively assessing the impact of the quality of SNOMED CT subtype hierarchy on cohort queries. J. Am. Medical Informatics Assoc. Xubing Hao, Xiaojin Li, Yan Huang, Jay Shi, Rashmie Abeysinghe, Cui Tao, Kirk Roberts, Guo-Qiang Zhang, Licong Cui
2025	J	`jnl`	Synthesized Annotation Guidelines are Knowledge-Lite Boosters for Clinical Information Extraction. CoRR Enshuo Hsu, Martin Ugbala, Krishna Kookal Kumar, Zouaidi Kawtar, Nicholas L. Rider, Muhammad F. Walji, Kirk Roberts
2025	—	`conf`	Towards Data-Driven Science Literacy: Extracting Psycholinguistic Markers in Vaping-Related Online Peer Interactions. MedInfo Michael Truong, Ahmed Abdelhameed, Tavleen Singh, Kirk Roberts, Sahiti Myneni
2024	J	`jnl`	A Comparative Study of Recent Large Language Models on Generating Hospital Discharge Summaries for Lung Cancer Patients. CoRR Yiming Li, Fang Li, Kirk Roberts, Licong Cui, Cui Tao, Hua Xu
2024	—	`conf`	Analyzing Llama 3-based Approach for Axiom Translation from Ontologies. KBC-LM/LM-KBC@ISWC Xubing Hao, Licong Cui, Cui Tao, Kirk Roberts, Muhammad Amith
2024	J	`jnl`	Clinical Information Retrieval: A Literature Review. J. Heal. Informatics Res. Sonish Sivarajkumar, Haneef Ahamed Mohammad, David Oniani, Kirk Roberts, William R. Hersh, Hongfang Liu, Daqing He, Shyam Visweswaran, Yanshan Wang
2024	J	`jnl`	Exploring the Generalization of Cancer Clinical Trial Eligibility Classifiers Across Diseases. CoRR Yumeng Yang, Ashley Gilliam, Ethan B. Ludmir, Kirk Roberts
2024	—	`ch.`	IR in Biomedicine. Information Retrieval: Advanced Topics and Techniques William R. Hersh, Kirk Roberts
2024	J	`jnl`	Improving large language models for clinical named entity recognition via prompt engineering. J. Am. Medical Informatics Assoc. Yan Hu, Qingyu Chen, Jingcheng Du, Xueqing Peng, Vipina Kuttichi Keloth, Xu Zuo, Yujia Zhou, Zehan Li, Xiaoqian Jiang, Zhiyong Lu, Kirk Roberts, Hua Xu
2024	J	`jnl`	LLM-IE: A Python Package for Generative Information Extraction with Large Language Models. CoRR Enshuo Hsu, Kirk Roberts
2024	J	`jnl`	Leveraging Large Language Models for Knowledge-free Weak Supervision in Clinical Natural Language Processing. CoRR Enshuo Hsu, Kirk Roberts
2024	—	`conf`	Overview of TREC 2024 Biomedical Generative Retrieval (BioGen) Track. TREC Deepak Gupta, Dina Demner-Fushman, William R. Hersh, Steven Bedrick, Kirk Roberts
2024	J	`jnl`	Overview of TREC 2024 Biomedical Generative Retrieval (BioGen) Track. CoRR Deepak Gupta, Dina Demner-Fushman, William R. Hersh, Steven Bedrick, Kirk Roberts
2024	J	`jnl`	PheNormGPT: a framework for extraction and normalization of key medical findings. Database J. Biol. Databases Curation Ekin Soysal, Kirk Roberts
2024	—	`ed.`	Proceedings of the 23rd Workshop on Biomedical Natural Language Processing, BioNLP@ACL 2024, Bangkok, Thailand, August 16, 2024 BioNLP@ACL Dina Demner-Fushman, Sophia Ananiadou, Makoto Miwa, Kirk Roberts, Junichi Tsujii
2024	—	`ed.`	Proceedings of the 6th Clinical Natural Language Processing Workshop, ClinicalNLP@NAACL 2024, Mexico City, Mexico, June 21, 2024 ClinicalNLP@NAACL Tristan Naumann, Asma Ben Abacha, Steven Bethard, Kirk Roberts, Danielle S. Bitterman
2024	J	`jnl`	Using Large Language Models to Generate Clinical Trial Tables and Figures. CoRR Yumeng Yang, Peter Krusche, Kristyn Pantoja, Cheng Shi, Ethan B. Ludmir, Kirk Roberts, Gen Zhu
2023	—	`conf`	Application of an ontology for model cards to generate computable artifacts for linking machine learning information from biomedical research. WWW (Companion Volume) Muhammad Amith, Licong Cui, Kirk Roberts, Cui Tao
2023	J	`jnl`	Application of an ontology for model cards to generate computable artifacts for linking machine learning information from biomedical research. CoRR Muhammad Amith, Licong Cui, Kirk Roberts, Cui Tao
2023	J	`jnl`	Discerning conversational context in online health communities for personalized digital behavior change solutions using Pragmatics to Reveal Intent in Social Media (PRISM) framework. J. Biomed. Informatics Tavleen Singh, Kirk Roberts, Trevor Cohen, Nathan K. Cobb, Amy Franklin, Sahiti Myneni
2023	J	`jnl`	Evaluation of AI Chatbots for Patient-Specific EHR Questions. CoRR Alaleh Hamidi, Kirk Roberts
2023	J	`jnl`	Eye-SpatialNet: Spatial Information Extraction from Ophthalmology Notes. CoRR Surabhi Datta, Tasneem Kaochar, Hio Cheng Lam, Nelly Nwosu, Luca Giancardo, Alice Z. Chuang, Robert M. Feldman, Kirk Roberts
2023	J	`jnl`	Logical definition-based identification of potential missing concepts in SNOMED CT. BMC Medical Informatics Decis. Mak. Xubing Hao, Rashmie Abeysinghe, Kirk Roberts, Licong Cui
2023	—	`ed.`	Proceedings of the 5th Clinical Natural Language Processing Workshop, ClinicalNLP@ACL 2023, Toronto, Canada, July 14, 2023. ClinicalNLP@ACL Tristan Naumann, Asma Ben Abacha, Steven Bethard, Kirk Roberts, Anna Rumshisky
2023	J	`jnl`	Question Answering for Electronic Health Records: A Scoping Review of datasets and models. CoRR Jayetri Bardhan, Kirk Roberts, Daisy Zhe Wang
2023	J	`jnl`	Scholarly recommendation systems: a literature survey. Knowl. Inf. Syst. Zitong Zhang, Braja Gopal Patra, Ashraf Yaseen, Jie Zhu, Rachit Sabharwal, Kirk Roberts, Tru Cao, Hulin Wu
2023	—	`conf`	Self-Supervised Learning with Radiology Reports, A Comparative Analysis of Strategies for Large Vessel Occlusion and Brain CTA Images. ISBI Samiksha Pachade, Surabhi Datta, Y. Dong, Sergio Salazar Marioni, Rania Abdelkhaleq, A. Niktabe, Kirk Roberts, Sunil A. Sheth, Luca Giancardo
2023	J	`jnl`	Text Classification of Cancer Clinical Trial Eligibility Criteria. CoRR Yumeng Yang, Soumya Jayaraj, Ethan B. Ludmir, Kirk Roberts
2023	J	`jnl`	quEHRy: a question answering system to query electronic health records. J. Am. Medical Informatics Assoc. Sarvesh Soni, Surabhi Datta, Kirk Roberts
2022	B	`conf`	A Cross-document Coreference Dataset for Longitudinal Tracking across Radiology Reports. LREC Surabhi Datta, Hio Cheng Lam, Atieh Pajouhi, Sunitha Mogalla, Kirk Roberts
2022	J	`jnl`	Closing the loop: automatically identifying abnormal imaging results in scanned documents. J. Am. Medical Informatics Assoc. Akshat Kumar, Heath Goodrum, Ashley Kim, Carly Stender, Kirk Roberts, Elmer V. Bernstam
2022	B	`conf`	DrugEHRQA: A Question Answering Dataset on Structured and Unstructured Electronic Health Records For Medicine Related Queries. LREC Jayetri Bardhan, Anthony M. Colas, Kirk Roberts, Daisy Zhe Wang
2022	J	`jnl`	DrugEHRQA: A Question Answering Dataset on Structured and Unstructured Electronic Health Records For Medicine Related Queries. CoRR Jayetri Bardhan, Anthony M. Colas, Kirk Roberts, Daisy Zhe Wang
2022	Misc	`conf`	Eye-SpatialNet: Spatial Information Extraction from Ophthalmology Notes. AMIA Surabhi Datta, Tasneem Kaochar, Hio Cheng Lam, Nelly Nwosu, Alice Z. Chuang, Robert M. Feldman, Kirk Roberts
2022	J	`jnl`	Fine-grained spatial information extraction in radiology as two-turn question answering. Int. J. Medical Informatics Surabhi Datta, Kirk Roberts
2022	—	`conf`	Overview of the TREC 2022 Clinical Trials Track. TREC Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, Steven Bedrick, William R. Hersh
2022	B	`conf`	RadQA: A Question Answering Dataset to Improve Comprehension of Radiology Reports. LREC Sarvesh Soni, Meghana Gudala, Atieh Pajouhi, Kirk Roberts
2022	Misc	`conf`	Toward a Neural Semantic Parsing System for EHR Question Answering. AMIA Sarvesh Soni, Kirk Roberts
2022	J	`jnl`	Toward a Neural Semantic Parsing System for EHR Question Answering. CoRR Sarvesh Soni, Kirk Roberts
2022	J	`jnl`	Toward a standard formal semantic representation of the model card report. BMC Bioinform. Muhammad Tuan Amith, Licong Cui, Degui Zhi, Kirk Roberts, Xiaoqian Jiang, Fang Li, Evan Yu, Cui Tao
2021	J	`jnl`	An evaluation of two commercial deep learning-based information retrieval systems for COVID-19 literature. J. Am. Medical Informatics Assoc. Sarvesh Soni, Kirk Roberts
2021	J	`jnl`	Deep learning-based NLP Data Pipeline for EHR Scanned Document Information Extraction. CoRR Enshuo Hsu, Ioannis Malagaris, Yong-Fang Kuo, Rizwana Sultana, Kirk Roberts
2021	J	`jnl`	Deep representation learning of patient data from Electronic Health Records (EHR): A systematic review. J. Biomed. Informatics Yuqi Si, Jingcheng Du, Zhao Li, Xiaoqian Jiang, Timothy Miller, Fei Wang, W. Jim Zheng, Kirk Roberts
2021	—	`conf`	Dental EHR-infused Persona Ontologies to Enrich Dental Dialogue Interaction of Agents. BIBM Patricia Ngantcha, Muhammad Tuan Amith, Kirk Roberts, John A. Valenza, Muhammad F. Walji, Cui Tao
2021	J	`jnl`	Generalized and Transferable Patient Language Representation for Phenotyping with Limited Data. CoRR Yuqi Si, Elmer V. Bernstam, Kirk Roberts
2021	J	`jnl`	Generalized and transferable patient language representation for phenotyping with limited data. J. Biomed. Informatics Yuqi Si, Elmer V. Bernstam, Kirk Roberts
2021	J	`jnl`	Hierarchical Transformer Networks for Longitudinal Clinical Document Classification. CoRR Yuqi Si, Kirk Roberts
2021	A*	`conf`	On the Quality of the TREC-COVID IR Test Collections. SIGIR Ellen M. Voorhees, Kirk Roberts
2021	—	`conf`	Patient-Provider Communication Training Models for Interactive Speech Devices. HCI (16) Patricia Ngantcha, Muhammad Amith, Cui Tao, Kirk Roberts
2021	J	`jnl`	Searching for Scientific Evidence in a Pandemic: An Overview of TREC-COVID. CoRR Kirk Roberts, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, Kyle Lo, Ian Soboroff, Ellen M. Voorhees, Lucy Lu Wang, William R. Hersh
2021	J	`jnl`	Searching for scientific evidence in a pandemic: An overview of TREC-COVID. J. Biomed. Informatics Kirk Roberts, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, Kyle Lo, Ian Soboroff, Ellen M. Voorhees, Lucy Lu Wang, William R. Hersh
2020	J	`jnl`	A content-based dataset recommendation system for researchers - a case study on Gene Expression Omnibus (GEO) repository. Database J. Biol. Databases Curation Braja Gopal Patra, Kirk Roberts, Hulin Wu
2020	J	`jnl`	A content-based literature recommendation system for datasets to improve data reusability - A case study on Gene Expression Omnibus (GEO) datasets. J. Biomed. Informatics Braja Gopal Patra, Vahed Maroufy, Babak Soltanalizadeh, Nan Deng, W. Jim Zheng, Kirk Roberts, Hulin Wu
2020	—	`conf`	A health consumer ontology of fast food information. BIBM Muhammad Amith, Jing Wang, Grace Xiong, Kirk Roberts, Cui Tao
2020	—	`conf`	Addressing the Search Challenges of Precision Medicine with Information Retrieval Systems and Physician Readers. MIE Kate Fultz Hollis, Kirk Roberts, Steven Bedrick, William R. Hersh
2020	J	`jnl`	An Evaluation of Two Commercial Deep Learning-Based Information Retrieval Systems for COVID-19 Literature. CoRR Sarvesh Soni, Kirk Roberts
2020	J	`jnl`	An informatics research platform to make public gene expression time-course datasets reusable for more scientific discoveries. Database J. Biol. Databases Curation Braja Gopal Patra, Babak Soltanalizadeh, Nan Deng, Leqing Wu, Vahed Maroufy, Canglin Wu, W. Jim Zheng, Kirk Roberts, Hulin Wu, Ashraf Yaseen
2020	J	`jnl`	Automatic classification of scanned electronic health record documents. Int. J. Medical Informatics Heath Goodrum, Kirk Roberts, Elmer V. Bernstam
2020	J	`jnl`	Conversational ontology operator: patient-centric vaccine dialogue management engine for spoken conversational agents. BMC Medical Informatics Decis. Mak. Muhammad Amith, Rebecca Lin, Licong Cui, Dennis Wang, Anna Zhu, Grace Xiong, Hua Xu, Kirk Roberts, Cui Tao
2020	J	`jnl`	Deep Representation Learning of Patient Data from Electronic Health Records (EHR): A Systematic Review. CoRR Yuqi Si, Jingcheng Du, Zhao Li, Xiaoqian Jiang, Timothy Miller, Fei Wang, W. Jim Zheng, Kirk Roberts
2020	Misc	`conf`	Deep Representation Learning of Patient Data from Electronic Health Records: A Systematic Review. AMIA Yuqi Si, Jingcheng Du, Zhao Li, Xiaoqian Jiang, Timothy A. Miller, Fei Wang, W. Jim Zheng, Kirk Roberts
2020	J	`jnl`	Deep learning in clinical natural language processing: a methodical review. J. Am. Medical Informatics Assoc. Stephen Wu, Kirk Roberts, Surabhi Datta, Jingcheng Du, Zongcheng Ji, Yuqi Si, Sarvesh Soni, Qiong Wang, Qiang Wei, Yang Xiang, Bo Zhao, Hua Xu
2020	B	`conf`	Evaluation of Dataset Selection for Pre-Training and Fine-Tuning Transformer Language Models for Clinical Question Answering. LREC Sarvesh Soni, Kirk Roberts
2020	B	`conf`	Extracting Adherence Information from Electronic Health Records. COLING Jordan Sanders, Meghana Gudala, Kathleen E. Hamilton, Nishtha Prasad, Jordan Godfrey-Stovall, Eduardo Blanco, Jane Elizabeth Hamilton, Kirk Roberts
2020	J	`jnl`	Extracting Concepts for Precision Oncology from the Biomedical Literature. CoRR Nicholas Greenspan, Yuqi Si, Kirk Roberts
2020	J	`jnl`	Leveraging Spatial Information in Radiology Reports for Ischemic Stroke Phenotyping. CoRR Surabhi Datta, Shekhar Khanpara, Roy F. Riascos, Kirk Roberts
2020	—	`conf`	Overview of the TREC 2020 Precision Medicine Track. TREC Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, Steven Bedrick, William R. Hersh
2020	Misc	`conf`	Patient Cohort Retrieval using Transformer Language Models. AMIA Sarvesh Soni, Kirk Roberts
2020	J	`jnl`	Patient Cohort Retrieval using Transformer Language Models. CoRR Sarvesh Soni, Kirk Roberts
2020	—	`ed.`	Proceedings of the 3rd Clinical Natural Language Processing Workshop, ClinicalNLP@EMNLP 2020, Online, November 19, 2020 ClinicalNLP@EMNLP Anna Rumshisky, Kirk Roberts, Steven Bethard, Tristan Naumann
2020	B	`conf`	Rad-SpatialNet: A Frame-based Resource for Fine-Grained Spatial Relations in Radiology Reports. LREC Surabhi Datta, Morgan Ulinski, Jordan Godfrey-Stovall, Shekhar Khanpara, Roy Riascos-Castaneda, Kirk Roberts
2020	Misc	`conf`	RadLex Normalization in Radiology Reports. AMIA Surabhi Datta, Jordan Godfrey-Stovall, Kirk Roberts
2020	J	`jnl`	RadLex Normalization in Radiology Reports. CoRR Surabhi Datta, Jordan Godfrey-Stovall, Kirk Roberts
2020	J	`jnl`	TREC-COVID: Constructing a Pandemic Information Retrieval Test Collection. CoRR Ellen M. Voorhees, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, William R. Hersh, Kyle Lo, Kirk Roberts, Ian Soboroff, Lucy Lu Wang
2020	J	`jnl`	TREC-COVID: constructing a pandemic information retrieval test collection. SIGIR Forum Ellen M. Voorhees, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, William R. Hersh, Kyle Lo, Kirk Roberts, Ian Soboroff, Lucy Lu Wang
2020	J	`jnl`	TREC-COVID: rationale and structure of an information retrieval shared task for COVID-19. J. Am. Medical Informatics Assoc. Kirk Roberts, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, Kyle Lo, Ian Soboroff, Ellen M. Voorhees, Lucy Lu Wang, William R. Hersh
2020	J	`jnl`	Understanding spatial language in radiology: Representation framework, annotation, and spatial relation extraction from chest X-ray reports using deep learning. J. Biomed. Informatics Surabhi Datta, Yuqi Si, Laritza Rodriguez, Sonya E. Shooshan, Dina Demner-Fushman, Kirk Roberts
2019	Misc	`conf`	A Dataset Recommendation System for Researchers based on Publications. AMIA Braja Gopal Patra, Kirk Roberts, Hulin Wu
2019	—	`conf`	A Paraphrase Generation System for EHR Question Answering. BioNLP@ACL Sarvesh Soni, Kirk Roberts
2019	J	`jnl`	A frame semantic overview of NLP-based information extraction for cancer-related EHR notes. CoRR Surabhi Datta, Elmer V. Bernstam, Kirk Roberts
2019	J	`jnl`	A frame semantic overview of NLP-based information extraction for cancer-related EHR notes. J. Biomed. Informatics Surabhi Datta, Elmer V. Bernstam, Kirk Roberts
2019	Misc	`conf`	A frame semantic overview of NLP-based information extraction for cancer-related EHR notes: a scoping review. AMIA Surabhi Datta, Elmer V. Bernstam, Kirk Roberts
2019	—	`conf`	An Ontology-Powered Dialogue Engine For Patient Communication of Vaccines. SEPDA@ISWC Muhammad Amith, Rebecca Lin, Licong Cui, Dennis Wang, Anna Zhu, Grace Xiong, Hua Xu, Kirk Roberts, Cui Tao
2019	—	`conf`	Characterization of Behavioral Transitions Through Social Media Analysis: A Mixed-Methods Approach. MedInfo Tavleen Singh, Carlos A. Perez, Kirk Roberts, Nathan K. Cobb, Amy Franklin, Sahiti Myneni
2019	J	`jnl`	Conceiving an application ontology to model patient human papillomavirus vaccine counseling for dialogue management. BMC Bioinform. Muhammad Amith, Kirk Roberts, Cui Tao
2019	J	`jnl`	Distributed learning from multiple EHR databases: Contextual embedding models for medical events. J. Biomed. Informatics Ziyi Li, Kirk Roberts, Xiaoqian Jiang, Qi Long
2019	—	`conf`	Early Usability Assessment of a Conversational Agent for HPV Vaccination. ITCH Muhammad Amith, Anna Zhu, Rachel Cunningham, Rebecca Lin, Lara S. Savas, Laura Shay, Yong Chen, Yang Gong, Julie Boom, Kirk Roberts, Cui Tao
2019	J	`jnl`	Enhancing Clinical Concept Extraction with Contextual Embedding. CoRR Yuqi Si, Jingqi Wang, Hua Xu, Kirk Roberts
2019	—	`conf`	Extraction of Lactation Frames from Drug Labels and LactMed. BioNLP@ACL Heath Goodrum, Meghana Gudala, Ankita Misra, Kirk Roberts
2019	—	`conf`	Ontology of Consumer Health Vocabulary: providing a formal and interoperable semantic resource for linking lay language and medical terminology. BIBM Muhammad Amith, Licong Cui, Kirk Roberts, Hua Xu, Cui Tao
2019	—	`conf`	Overview of the TREC 2019 Precision Medicine Track. TREC Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh, Steven Bedrick, Alexander J. Lazar, Shubham Pant, Funda Meric-Bernstam
2019	Misc	`conf`	Relation Extraction from Clinical Narratives Using Pre-trained Language Models. AMIA Qiang Wei, Zongcheng Ji, Yuqi Si, Jingcheng Du, Jingqi Wang, Firat Tiryaki, Stephen Wu, Cui Tao, Kirk Roberts, Hua Xu
2019	J	`jnl`	Understanding Spatial Language in Radiology: Representation Framework, Annotation, and Spatial Relation Extraction from Chest X-ray Reports using Deep Learning. CoRR Surabhi Datta, Yuqi Si, Laritza Rodriguez, Sonya E. Shooshan, Dina Demner-Fushman, Kirk Roberts
2019	Misc	`conf`	Using FHIR to Construct a Corpus of Clinical Questions Annotated with Logical Forms and Answers. AMIA Sarvesh Soni, Meghana Gudala, Daisy Zhe Wang, Kirk Roberts
2018	B	`conf`	A FrameNet for Cancer Information in Clinical Narratives: Schema and Annotation. LREC Kirk Roberts, Yuqi Si, Anshul Gandhi, Elmer V. Bernstam
2018	Misc	`conf`	Adverse Reactions and Drug-Drug Interaction Extraction tracks at the Text Analysis Conference (TAC). AMIA Dina Demner-Fushman, Joseph M. Tonning, Kin Wah Fung, Phong Do, Richard D. Boyce, Kirk Roberts
2018	Misc	`conf`	Benchmarking Information Retrieval for Precision Oncology: the TREC Precision Medicine Track. AMIA Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh, Steven Bedrick, Alexander J. Lazar, Shubham Pant
2018	—	`conf`	Overview of the TREC 2018 Precision Medicine Track. TREC Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh, Steven Bedrick, Alexander J. Lazar
2017	Misc	`conf`	A Semantic Parsing Method for Mapping Clinical Questions to Logical Forms. AMIA Kirk Roberts, Braja Gopal Patra
2017	J	`jnl`	A protocol-driven approach to automatically finding authoritative answers to consumer health questions in online resources. J. Assoc. Inf. Sci. Technol. Ariel Deardorff, Kate Masterton, Kirk Roberts, Halil Kilicoglu, Dina Demner-Fushman
2017	J	`jnl`	A publicly available benchmark for biomedical dataset retrieval: the reference standard for the 2016 bioCADDIE dataset retrieval challenge. Database J. Biol. Databases Curation Trevor Cohen, Kirk Roberts, Anupama E. Gururaj, Xiaoling Chen, Saeid Pournejati, George Alter, William R. Hersh, Dina Demner-Fushman, Lucila Ohno-Machado, Hua Xu
2017	J	`jnl`	Biomedical informatics advancing the national health agenda: the AMIA 2015 year-in-review in clinical and consumer informatics. J. Am. Medical Informatics Assoc. Kirk Roberts, Mary Regina Boland, Lisiane Pruinelli, Jina J. Dcruz, Andrew B. L. Berry, Mattias Georgsson, Rebecca Hazen, Raymond Francis Sarmiento, Uba Backonja, Kun-Hsing Yu, Yun Jiang, Patricia Flatley Brennan
2017	—	`conf`	CLEF 2017: Multimodal Spatial Role Labeling (mSpRL) Task Overview. CLEF Parisa Kordjamshidi, Taher Rahgooy, Marie-Francine Moens, James Pustejovsky, Umar Manzoor, Kirk Roberts
2017	—	`conf`	CLEF 2017: Multimodal Spatial Role Labeling Task Working Notes. CLEF (Working Notes) Parisa Kordjamshidi, Taher Rahgooy, Marie-Francine Moens, James Pustejovsky, Umar Manzoor, Kirk Roberts
2017	Misc	`conf`	Information Retrieval for Biomedical Datasets: The 2016 bioCADDIE Challenge. AMIA Kirk Roberts, Anupama E. Gururaj, Xiaoling Chen, Saeid Pournejati, Trevor Cohen, William R. Hersh, Dina Demner-Fushman, Lucila Ohno-Machado, Hua Xu
2017	J	`jnl`	Information retrieval for biomedical datasets: the 2016 bioCADDIE dataset retrieval challenge. Database J. Biol. Databases Curation Kirk Roberts, Anupama E. Gururaj, Xiaoling Chen, Saeid Pournejati, William R. Hersh, Dina Demner-Fushman, Lucila Ohno-Machado, Trevor Cohen, Hua Xu
2017	—	`conf`	Interweaving Domain Knowledge and Unsupervised Learning for Psychiatric Stressor Extraction from Clinical Notes. IEA/AIE (2) Olivia R. Zhang, Yaoyun Zhang, Jun Xu, Kirk Roberts, Xiang Y. Zhang, Hua Xu
2017	Misc	`conf`	Leveraging existing corpora for de-identification of psychiatric notes using domain adaptation. AMIA Hee-Jin Lee, Yaoyun Zhang, Kirk Roberts, Hua Xu
2017	—	`conf`	Overview of the TAC 2017 Adverse Reaction Extraction from Drug Labels Track. TAC Kirk Roberts, Dina Demner-Fushman, Joseph M. Tonning
2017	—	`conf`	Overview of the TREC 2017 Precision Medicine Track. TREC Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh, Steven Bedrick, Alexander J. Lazar, Shubham Pant
2017	—	`conf`	Representation Learning for Retinal Vasculature Embeddings. FIFI/OMIA@MICCAI Luca Giancardo, Kirk Roberts, Zhongming Zhao
2016	B	`conf`	Annotating Logical Forms for EHR Questions. LREC Kirk Roberts, Dina Demner-Fushman
2016	B	`conf`	Annotating Named Entities in Consumer Health Questions. LREC Halil Kilicoglu, Asma Ben Abacha, Yassine Mrabet, Kirk Roberts, Laritza Rodriguez, Sonya E. Shooshan, Dina Demner-Fushman
2016	—	`conf`	Assessing the Corpus Size vs. Similarity Trade-off for Word Embeddings in Clinical NLP. ClinicalNLP@COLING 2016 Kirk Roberts
2016	Misc	`conf`	Combining Open-domain and Biomedical Knowledge for Topic Recognition in Consumer Health Questions. AMIA Yassine Mrabet, Halil Kilicoglu, Kirk Roberts, Dina Demner-Fushman
2016	J	`jnl`	Interactive use of online health resources: a comparison of consumer and professional questions. J. Am. Medical Informatics Assoc. Kirk Roberts, Dina Demner-Fushman
2016	A*	`conf`	Learning to Read Chest X-Rays: Recurrent Neural Cascade Model for Automated Image Annotation. CVPR Hoo-Chang Shin, Kirk Roberts, Le Lu, Dina Demner-Fushman, Jianhua Yao, Ronald M. Summers
2016	J	`jnl`	Learning to Read Chest X-Rays: Recurrent Neural Cascade Model for Automated Image Annotation. CoRR Hoo-Chang Shin, Kirk Roberts, Le Lu, Dina Demner-Fushman, Jianhua Yao, Ronald M. Summers
2016	—	`conf`	Overview of the TREC 2016 Clinical Decision Support Track. TREC Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh
2016	—	`ed.`	Proceedings of the Clinical Natural Language Processing Workshop, ClinicalNLP@COLING 2016, Osaka, Japan, December 11, 2016 ClinicalNLP@COLING 2016 Anna Rumshisky, Kirk Roberts, Steven Bethard, Tristan Naumann
2016	Misc	`conf`	Resource Classification for Medical Questions. AMIA Kirk Roberts, Laritza M. Rodriguez, Sonya E. Shooshan, Dina Demner-Fushman
2016	J	`jnl`	State-of-the-art in biomedical literature retrieval for clinical cases: a survey of the TREC 2014 CDS track. Inf. Retr. J. Kirk Roberts, Matthew S. Simpson, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh
2015	Misc	`conf`	An Ensemble Method for Spelling Correction in Consumer Health Questions. AMIA Halil Kilicoglu, Marcelo Fiszman, Kirk Roberts, Dina Demner-Fushman
2015	Misc	`conf`	Automatic Extraction and Post-coordination of Spatial Relations in Consumer Language. AMIA Kirk Roberts, Laritza Rodriguez, Sonya E. Shooshan, Dina Demner-Fushman
2015	—	`conf`	Overview of the TREC 2015 Clinical Decision Support Track. TREC Kirk Roberts, Matthew S. Simpson, Ellen M. Voorhees, William R. Hersh
2015	J	`jnl`	The role of fine-grained annotations in supervised recognition of risk factors for heart disease from EHRs. J. Biomed. Informatics Kirk Roberts, Sonya E. Shooshan, Laritza Rodriguez, Swapna Abhyankar, Halil Kilicoglu, Dina Demner-Fushman
2014	B	`conf`	Annotating Question Decomposition on Complex Medical Questions. LREC Kirk Roberts, Kate Masterton, Marcelo Fiszman, Halil Kilicoglu, Dina Demner-Fushman
2014	Misc	`conf`	Automatically Classifying Question Types for Consumer Health Questions. AMIA Kirk Roberts, Halil Kilicoglu, Marcelo Fiszman, Dina Demner-Fushman
2014	—	`conf`	Decomposing Consumer Health Questions. BioNLP@ACL Kirk Roberts, Halil Kilicoglu, Marcelo Fiszman, Dina Demner-Fushman
2014	Misc	`conf`	Error Propagation in EHRs via Copy/Paste: An Analysis of Relative Dates. AMIA Kirk Roberts, Amos Cahan, Dina Demner-Fushman
2014	—	`conf`	Structuring Operative Notes using Active Learning. BioNLP@ACL Kirk Roberts, Sanda M. Harabagiu, Michael A. Skinner
2013	J	`jnl`	A flexible framework for recognizing events, temporal expressions, and temporal relations in clinical text. J. Am. Medical Informatics Assoc. Kirk Roberts, Bryan Rink, Sanda M. Harabagiu
2013	—	`conf`	Recognizing Spatial Containment Relations between Event Mentions. IWCS Kirk Roberts, Michael A. Skinner, Sanda M. Harabagiu
2012	Misc	`conf`	A Machine Learning Approach for Identifying Anatomical Locations of Actionable Findings in Radiology Reports. AMIA Kirk Roberts, Bryan Rink, Sanda M. Harabagiu, Richard H. Scheuermann, Seth M. Toomay, Travis Browning, Teresa Bosler, Ronald M. Peshock
2012	J	`jnl`	A supervised framework for resolving coreference in clinical records. J. Am. Medical Informatics Assoc. Bryan Rink, Kirk Roberts, Sanda M. Harabagiu
2012	B	`conf`	Annotating Spatial Containment Relations Between Events. LREC Kirk Roberts, Travis R. Goodwin, Sanda M. Harabagiu
2012	—	`conf`	Cohort Sherpherd II: Verifying Cohort Constraints from Hospital Visits. TREC Travis R. Goodwin, Kirk Roberts, Bryan Rink, Sanda M. Harabagiu
2012	B	`conf`	EmpaTweet: Annotating and Detecting Emotions on Twitter. LREC Kirk Roberts, Michael A. Roach, Joseph Johnson, Josh Guthrie, Sanda M. Harabagiu
2012	—	`conf`	Locational relativity and domain constraints in spatial questions. SIGSPATIAL/GIS Kirk Roberts, Sanda M. Harabagiu
2012	—	`conf`	UTD-SpRL: A Joint Approach to Spatial Role Labeling. SemEval@NAACL-HLT Kirk Roberts, Sanda M. Harabagiu
2012	—	`conf`	UTDHLT: COPACETIC System for Choosing Plausible Alternatives. SemEval@NAACL-HLT Travis R. Goodwin, Bryan Rink, Kirk Roberts, Sanda M. Harabagiu
2011	J	`jnl`	A flexible framework for deriving assertions from electronic medical records. J. Am. Medical Informatics Assoc. Kirk Roberts, Sanda M. Harabagiu
2011	J	`jnl`	Automatic extraction of relations between medical concepts in clinical texts. J. Am. Medical Informatics Assoc. Bryan Rink, Sanda M. Harabagiu, Kirk Roberts
2011	—	`conf`	Cohort Shepherd: Discoving Cohort Traits from Hospital Visits. TREC Travis R. Goodwin, Bryan Rink, Kirk Roberts, Sanda M. Harabagiu
2011	—	`conf`	Detecting New and Emerging Events from Textual Sources. ICSC Kirk Roberts, Sanda M. Harabagiu
2011	J	`jnl`	Detecting New and Emerging Events in Streaming News Documents. Int. J. Semantic Comput. Kirk Roberts, Sanda M. Harabagiu
2011	A*	`conf`	Unsupervised Learning of Selectional Restrictions and Detection of Argument Coercions. EMNLP Kirk Roberts, Sanda M. Harabagiu
2010	B	`conf`	A Linguistic Resource for Semantic Parsing of Motion Events. LREC Kirk Roberts, Srikanth Gullapalli, Cosmin Adrian Bejan, Sanda M. Harabagiu
2010	B	`conf`	C-3: Coherence and Coreference Corpus. LREC Cristina Nicolae, Gabriel Nicolae, Kirk Roberts
2010	Misc	`conf`	Toponym Disambiguation Using Events. FLAIRS Kirk Roberts, Cosmin Adrian Bejan, Sanda M. Harabagiu
2010	—	`conf`	UTDMet: Combining WordNet and Corpus Data for Argument Coercion Detection. SemEval@ACL Kirk Roberts, Sanda M. Harabagiu
2009	—	`conf`	Building an Annotated Textual Inference Corpus for Motion and Space. TextInfer@ACL Kirk Roberts
2008	B	`conf`	Scaling Answer Type Detection to Large Hierarchies. LREC Kirk Roberts, Andrew Hickl
2007	—	`conf`	Question Answering with LCC's CHAUCER-2 at TREC 2007. TREC Andrew Hickl, Kirk Roberts, Bryan Rink, Jeremy Bensley, Tobias Jungen, Ying Shi, John Williams
2006	—	`conf`	Question Answering with LCC's CHAUCER at TREC 2006. TREC Andrew Hickl, John Williams, Jeremy Bensley, Kirk Roberts, Ying Shi, Bryan Rink