Kirk Roberts

ORCID

Publication Activity (10 Years)

Years Active: 2006-2024
Publications (10 Years): 109

Top Venues

CoRR

AMIA

J. Biomed. Informatics

LREC

Publications

Enshuo Hsu, Kirk Roberts
Leveraging Large Language Models for Knowledge-free Weak Supervision in Clinical Natural Language Processing. CoRR (2024)
Sonish Sivarajkumar, Haneef Ahamed Mohammad, David Oniani, Kirk Roberts, William R. Hersh, Hongfang Liu, Daqing He, Shyam Visweswaran, Yanshan Wang
Clinical Information Retrieval: A Literature Review. J. Heal. Informatics Res. 8 (2) (2024)
Yumeng Yang, Ashley Gilliam, Ethan B. Ludmir, Kirk Roberts
Exploring the Generalization of Cancer Clinical Trial Eligibility Classifiers Across Diseases. CoRR (2024)
Jayetri Bardhan, Kirk Roberts, Daisy Zhe Wang
Question Answering for Electronic Health Records: A Scoping Review of datasets and models. CoRR (2023)
Muhammad Amith, Licong Cui, Kirk Roberts, Cui Tao
Application of an ontology for model cards to generate computable artifacts for linking machine learning information from biomedical research. CoRR (2023)
Yumeng Yang, Soumya Jayaraj, Ethan B. Ludmir, Kirk Roberts
Text Classification of Cancer Clinical Trial Eligibility Criteria. CoRR (2023)
Surabhi Datta, Tasneem Kaochar, Hio Cheng Lam, Nelly Nwosu, Luca Giancardo, Alice Z. Chuang, Robert M. Feldman, Kirk Roberts
Eye-SpatialNet: Spatial Information Extraction from Ophthalmology Notes. CoRR (2023)
Alaleh Hamidi, Kirk Roberts
Evaluation of AI Chatbots for Patient-Specific EHR Questions. CoRR (2023)
Sarvesh Soni, Surabhi Datta, Kirk Roberts
quEHRy: a question answering system to query electronic health records. J. Am. Medical Informatics Assoc. 30 (6) (2023)
Muhammad Amith, Licong Cui, Kirk Roberts, Cui Tao
Application of an ontology for model cards to generate computable artifacts for linking machine learning information from biomedical research. WWW (Companion Volume) (2023)
Samiksha Pachade, Surabhi Datta, Y. Dong, Sergio Salazar Marioni, Rania Abdelkhaleq, A Niktabe, Kirk Roberts, S. A. Sheth, Luca Giancardo
Self-Supervised Learning with Radiology Reports, A Comparative Analysis of Strategies for Large Vessel Occlusion and Brain CTA Images. ISBI (2023)
Xubing Hao, Rashmie Abeysinghe, Kirk Roberts, Licong Cui
Logical definition-based identification of potential missing concepts in SNOMED CT. BMC Medical Informatics Decis. Mak. 23 (1) (2023)
Tavleen Singh, Kirk Roberts, Trevor Cohen, Nathan K. Cobb, Amy Franklin, Sahiti Myneni
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 140 (2023)
Zitong Zhang, Braja Gopal Patra, Ashraf Yaseen, Jie Zhu, Rachit Sabharwal, Kirk Roberts, Tru Cao, Hulin Wu
Scholarly recommendation systems: a literature survey. Knowl. Inf. Syst. 65 (11) (2023)
Surabhi Datta, Hio Cheng Lam, Atieh Pajouhi, Sunitha Mogalla, Kirk Roberts
A Cross-document Coreference Dataset for Longitudinal Tracking across Radiology Reports. LREC (2022)
Sarvesh Soni, Kirk Roberts
Toward a Neural Semantic Parsing System for EHR Question Answering. CoRR (2022)
Surabhi Datta, Kirk Roberts
Fine-grained spatial information extraction in radiology as two-turn question answering. Int. J. Medical Informatics 158 (February) (2022)
Sarvesh Soni, Meghana Gudala, Atieh Pajouhi, Kirk Roberts
RadQA: A Question Answering Dataset to Improve Comprehension of Radiology Reports. LREC (2022)
Jayetri Bardhan, Anthony Colas, Kirk Roberts, Daisy Zhe Wang
DrugEHRQA: A Question Answering Dataset on Structured and Unstructured Electronic Health Records For Medicine Related Queries. CoRR (2022)
Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, Steven Bedrick, William R. Hersh
Overview of the TREC 2022 Clinical Trials Track. TREC (2022)
Jayetri Bardhan, Anthony Colas, Kirk Roberts, Daisy Zhe Wang
DrugEHRQA: A Question Answering Dataset on Structured and Unstructured Electronic Health Records For Medicine Related Queries. LREC (2022)
Surabhi Datta, Tasneem Kaochar, Hio Cheng Lam, Nelly Nwosu, Alice Z. Chuang, Robert M. Feldman, Kirk Roberts
Eye-SpatialNet: Spatial Information Extraction from Ophthalmology Notes. AMIA (2022)
Sarvesh Soni, Kirk Roberts
Toward a Neural Semantic Parsing System for EHR Question Answering. AMIA (2022)
Akshat Kumar, Heath Goodrum, Ashley Kim, Carly Stender, Kirk Roberts, Elmer V. Bernstam
Closing the loop: automatically identifying abnormal imaging results in scanned documents. J. Am. Medical Informatics Assoc. 29 (5) (2022)
Muhammad Tuan Amith, Licong Cui, Degui Zhi, Kirk Roberts, Xiaoqian Jiang, Fang Li, Evan Yu, Cui Tao
Toward a standard formal semantic representation of the model card report. BMC Bioinform. 23 (1) (2022)
Yuqi Si, Kirk Roberts
Hierarchical Transformer Networks for Longitudinal Clinical Document Classification. CoRR (2021)
Sarvesh Soni, Kirk Roberts
An evaluation of two commercial deep learning-based information retrieval systems for COVID-19 literature. J. Am. Medical Informatics Assoc. 28 (1) (2021)
Enshuo Hsu, Ioannis Malagaris, Yong-Fang Kuo, Rizwana Sultana, Kirk Roberts
Deep learning-based NLP Data Pipeline for EHR Scanned Document Information Extraction. CoRR (2021)
Patricia Ngantcha, Muhammad Amith, Cui Tao, Kirk Roberts
Patient-Provider Communication Training Models for Interactive Speech Devices. HCI (16) (2021)
Kirk Roberts, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, Kyle Lo, Ian Soboroff, Ellen M. Voorhees, Lucy Lu Wang, William R. Hersh
Searching for scientific evidence in a pandemic: An overview of TREC-COVID. J. Biomed. Informatics 121 (2021)
Ellen M. Voorhees, Kirk Roberts
On the Quality of the TREC-COVID IR Test Collections. SIGIR (2021)
Kirk Roberts, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, Kyle Lo, Ian Soboroff, Ellen M. Voorhees, Lucy Lu Wang, William R. Hersh
Searching for Scientific Evidence in a Pandemic: An Overview of TREC-COVID. CoRR (2021)
Yuqi Si, Elmer V. Bernstam, Kirk Roberts
Generalized and transferable patient language representation for phenotyping with limited data. J. Biomed. Informatics 116 (2021)
Yuqi Si, Jingcheng Du, Zhao Li, Xiaoqian Jiang, Timothy A. Miller, Fei Wang, W. Jim Zheng, Kirk Roberts
Deep representation learning of patient data from Electronic Health Records (EHR): A systematic review. J. Biomed. Informatics 115 (2021)
Patricia Ngantcha, Muhammad "Tuan" Amith, Kirk Roberts, John A. Valenza, Muhammad Walji, Cui Tao
Dental EHR-infused Persona Ontologies to Enrich Dental Dialogue Interaction of Agents. BIBM (2021)
Yuqi Si, Elmer V. Bernstam, Kirk Roberts
Generalized and Transferable Patient Language Representation for Phenotyping with Limited Data. CoRR (2021)
Sarvesh Soni, Kirk Roberts
Evaluation of Dataset Selection for Pre-Training and Fine-Tuning Transformer Language Models for Clinical Question Answering. LREC (2020)
Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, Steven Bedrick, William R. Hersh
Overview of the TREC 2020 Precision Medicine Track. TREC (2020)
Braja Gopal Patra, Vahed Maroufy, Babak Soltanalizadeh, Nan Deng, W. Jim Zheng, Kirk Roberts, Hulin Wu
A content-based literature recommendation system for datasets to improve data reusability - A case study on Gene Expression Omnibus (GEO) datasets. J. Biomed. Informatics 104 (2020)
Muhammad Amith, Rebecca Lin, Licong Cui, Dennis Wang, Anna Zhu, Grace Xiong, Hua Xu, Kirk Roberts, Cui Tao
Conversational ontology operator: patient-centric vaccine dialogue management engine for spoken conversational agents. BMC Medical Informatics Decis. Mak. (4) (2020)
Sarvesh Soni, Kirk Roberts
An Evaluation of Two Commercial Deep Learning-Based Information Retrieval Systems for COVID-19 Literature. CoRR (2020)
Surabhi Datta, Jordan Godfrey-Stovall, Kirk Roberts
RadLex Normalization in Radiology Reports. CoRR (2020)
Kate Fultz Hollis, Kirk Roberts, Steven Bedrick, William R. Hersh
Addressing the Search Challenges of Precision Medicine with Information Retrieval Systems and Physician Readers. MIE (2020)
Braja Gopal Patra, Kirk Roberts, Hulin Wu
A content-based dataset recommendation system for researchers - a case study on Gene Expression Omnibus (GEO) repository. Database J. Biol. Databases Curation 2020 (2020)
Ellen M. Voorhees, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, William R. Hersh, Kyle Lo, Kirk Roberts, Ian Soboroff, Lucy Lu Wang
TREC-COVID: constructing a pandemic information retrieval test collection. SIGIR Forum 54 (1) (2020)
Surabhi Datta, Shekhar Khanpara, Roy F. Riascos, Kirk Roberts
Leveraging Spatial Information in Radiology Reports for Ischemic Stroke Phenotyping. CoRR (2020)
Nicholas Greenspan, Yuqi Si, Kirk Roberts
Extracting Concepts for Precision Oncology from the Biomedical Literature. CoRR (2020)
Heath Goodrum, Kirk Roberts, Elmer V. Bernstam
Automatic classification of scanned electronic health record documents. Int. J. Medical Informatics 144 (2020)
Surabhi Datta, Yuqi Si, Laritza Rodriguez, Sonya E. Shooshan, Dina Demner-Fushman, Kirk Roberts
Understanding spatial language in radiology: Representation framework, annotation, and spatial relation extraction from chest X-ray reports using deep learning. J. Biomed. Informatics 108 (2020)
Stephen Wu, Kirk Roberts, Surabhi Datta, Jingcheng Du, Zongcheng Ji, Yuqi Si, Sarvesh Soni, Qiong Wang, Qiang Wei, Yang Xiang, Bo Zhao, Hua Xu
Deep learning in clinical natural language processing: a methodical review. J. Am. Medical Informatics Assoc. 27 (3) (2020)
Kirk Roberts, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, Kyle Lo, Ian Soboroff, Ellen M. Voorhees, Lucy Lu Wang, William R. Hersh
TREC-COVID: rationale and structure of an information retrieval shared task for COVID-19. J. Am. Medical Informatics Assoc. 27 (9) (2020)
Ellen M. Voorhees, Tasmeer Alam, Steven Bedrick, Dina Demner-Fushman, William R. Hersh, Kyle Lo, Kirk Roberts, Ian Soboroff, Lucy Lu Wang
TREC-COVID: Constructing a Pandemic Information Retrieval Test Collection. CoRR (2020)
Sarvesh Soni, Kirk Roberts
Patient Cohort Retrieval using Transformer Language Models. CoRR (2020)
Yuqi Si, Jingcheng Du, Zhao Li, Xiaoqian Jiang, Timothy A. Miller, Fei Wang, W. Jim Zheng, Kirk Roberts
Deep Representation Learning of Patient Data from Electronic Health Records: A Systematic Review. AMIA (2020)
Surabhi Datta, Morgan Ulinski, Jordan Godfrey-Stovall, Shekhar Khanpara, Roy Riascos-Castaneda, Kirk Roberts
Rad-SpatialNet: A Frame-based Resource for Fine-Grained Spatial Relations in Radiology Reports. LREC (2020)
Jordan Sanders, Meghana Gudala, Kathleen E. Hamilton, Nishtha Prasad, Jordan Godfrey-Stovall, Eduardo Blanco, Jane Elizabeth Hamilton, Kirk Roberts
Extracting Adherence Information from Electronic Health Records. COLING (2020)
Surabhi Datta, Jordan Godfrey-Stovall, Kirk Roberts
RadLex Normalization in Radiology Reports. AMIA (2020)
Sarvesh Soni, Kirk Roberts
Patient Cohort Retrieval using Transformer Language Models. AMIA (2020)
Muhammad Amith, Jing Wang, Grace Xiong, Kirk Roberts, Cui Tao
A health consumer ontology of fast food information. BIBM (2020)
Braja Gopal Patra, Babak Soltanalizadeh, Nan Deng, Leqing Wu, Vahed Maroufy, Canglin Wu, W. Jim Zheng, Kirk Roberts, Hulin Wu, Ashraf Yaseen
An informatics research platform to make public gene expression time-course datasets reusable for more scientific discoveries. Database J. Biol. Databases Curation 2020 (2020)
Yuqi Si, Jingcheng Du, Zhao Li, Xiaoqian Jiang, Timothy A. Miller, Fei Wang, W. Jim Zheng, Kirk Roberts
Deep Representation Learning of Patient Data from Electronic Health Records (EHR): A Systematic Review. CoRR (2020)
Muhammad Amith, Rebecca Lin, Licong Cui, Dennis Wang, Anna Zhu, Grace Xiong, Hua Xu, Kirk Roberts, Cui Tao
An Ontology-Powered Dialogue Engine For Patient Communication of Vaccines. SEPDA@ISWC (2019)
Ziyi Li, Kirk Roberts, Xiaoqian Jiang, Qi Long
Distributed learning from multiple EHR databases: Contextual embedding models for medical events. J. Biomed. Informatics 92 (2019)
Qiang Wei, Zongcheng Ji, Yuqi Si, Jingcheng Du, Jingqi Wang, Firat Tiryaki, Stephen Wu, Cui Tao, Kirk Roberts, Hua Xu
Relation Extraction from Clinical Narratives Using Pre-trained Language Models. AMIA (2019)
Surabhi Datta, Yuqi Si, Laritza Rodriguez, Sonya E. Shooshan, Dina Demner-Fushman, Kirk Roberts
Understanding Spatial Language in Radiology: Representation Framework, Annotation, and Spatial Relation Extraction from Chest X-ray Reports using Deep Learning. CoRR (2019)
Tavleen Singh, Carlos A. Perez, Kirk Roberts, Nathan K. Cobb, Amy Franklin, Sahiti Myneni
Characterization of Behavioral Transitions Through Social Media Analysis: A Mixed-Methods Approach. MedInfo (2019)
Surabhi Datta, Elmer V. Bernstam, Kirk Roberts
A frame semantic overview of NLP-based information extraction for cancer-related EHR notes. CoRR (2019)
Braja Gopal Patra, Kirk Roberts, Hulin Wu
A Dataset Recommendation System for Researchers based on Publications. AMIA (2019)
Yuqi Si, Jingqi Wang, Hua Xu, Kirk Roberts
Enhancing Clinical Concept Extraction with Contextual Embedding. CoRR (2019)
Muhammad Amith, Anna Zhu, Rachel Cunningham, Rebecca Lin, Lara S. Savas, Laura Shay, Yong Chen, Yang Gong, Julie Boom, Kirk Roberts, Cui Tao
Early Usability Assessment of a Conversational Agent for HPV Vaccination. ITCH (2019)
Sarvesh Soni, Kirk Roberts
A Paraphrase Generation System for EHR Question Answering. BioNLP@ACL (2019)
Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh, Steven Bedrick, Alexander J. Lazar, Shubham Pant, Funda Meric-Bernstam
Overview of the TREC 2019 Precision Medicine Track. TREC (2019)
Muhammad Amith, Kirk Roberts, Cui Tao
Conceiving an application ontology to model patient human papillomavirus vaccine counseling for dialogue management. BMC Bioinform. (21) (2019)
Sarvesh Soni, Meghana Gudala, Daisy Zhe Wang, Kirk Roberts
Using FHIR to Construct a Corpus of Clinical Questions Annotated with Logical Forms and Answers. AMIA (2019)
Surabhi Datta, Elmer V. Bernstam, Kirk Roberts
A frame semantic overview of NLP-based information extraction for cancer-related EHR notes. J. Biomed. Informatics 100 (2019)
Heath Goodrum, Meghana Gudala, Ankita Misra, Kirk Roberts
Extraction of Lactation Frames from Drug Labels and LactMed. BioNLP@ACL (2019)
Surabhi Datta, Elmer V. Bernstam, Kirk Roberts
A frame semantic overview of NLP-based information extraction for cancer-related EHR notes: a scoping review. AMIA (2019)
Muhammad Amith, Licong Cui, Kirk Roberts, Hua Xu, Cui Tao
Ontology of Consumer Health Vocabulary: providing a formal and interoperable semantic resource for linking lay language and medical terminology. BIBM (2019)
Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh, Steven Bedrick, Alexander J. Lazar
Overview of the TREC 2018 Precision Medicine Track. TREC (2018)
Dina Demner-Fushman, Joseph M. Tonning, Kin Wah Fung, Phong Do, Richard D. Boyce, Kirk Roberts
Adverse Reactions and Drug-Drug Interaction Extraction tracks at the Text Analysis Conference (TAC). AMIA (2018)
Kirk Roberts, Yuqi Si, Anshul Gandhi, Elmer V. Bernstam
A FrameNet for Cancer Information in Clinical Narratives: Schema and Annotation. LREC (2018)
Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh, Steven Bedrick, Alexander J. Lazar, Shubham Pant
Benchmarking Information Retrieval for Precision Oncology: the TREC Precision Medicine Track. AMIA (2018)
Trevor Cohen, Kirk Roberts, Anupama E. Gururaj, Xiaoling Chen, Saeid Pournejati, George Alter, William R. Hersh, Dina Demner-Fushman, Lucila Ohno-Machado, Hua Xu
A publicly available benchmark for biomedical dataset retrieval: the reference standard for the 2016 bioCADDIE dataset retrieval challenge. Database J. Biol. Databases Curation 2017 (2017)
Hee-Jin Lee, Yaoyun Zhang, Kirk Roberts, Hua Xu
Leveraging existing corpora for de-identification of psychiatric notes using domain adaptation. AMIA (2017)
Luca Giancardo, Kirk Roberts, Zhongming Zhao
Representation Learning for Retinal Vasculature Embeddings. FIFI/OMIA@MICCAI (2017)
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
Biomedical informatics advancing the national health agenda: the AMIA 2015 year-in-review in clinical and consumer informatics. J. Am. Medical Informatics Assoc. 24 (e1) (2017)
Kirk Roberts, Braja Gopal Patra
A Semantic Parsing Method for Mapping Clinical Questions to Logical Forms. AMIA (2017)
Parisa Kordjamshidi, Taher Rahgooy, Marie-Francine Moens, James Pustejovsky, Umar Manzoor, Kirk Roberts
CLEF 2017: Multimodal Spatial Role Labeling (mSpRL) Task Overview. CLEF (2017)
Kirk Roberts, Dina Demner-Fushman, Joseph M. Tonning
Overview of the TAC 2017 Adverse Reaction Extraction from Drug Labels Track. TAC (2017)
Kirk Roberts, Anupama E. Gururaj, Xiaoling Chen, Saeid Pournejati, Trevor Cohen, William R. Hersh, Dina Demner-Fushman, Lucila Ohno-Machado, Hua Xu
Information Retrieval for Biomedical Datasets: The 2016 bioCADDIE Challenge. AMIA (2017)
Parisa Kordjamshidi, Taher Rahgooy, Marie-Francine Moens, James Pustejovsky, Umar Manzoor, Kirk Roberts
CLEF 2017: Multimodal Spatial Role Labeling Task Working Notes. CLEF (Working Notes) (2017)
Kirk Roberts, Anupama E. Gururaj, Xiaoling Chen, Saeid Pournejati, William R. Hersh, Dina Demner-Fushman, Lucila Ohno-Machado, Trevor Cohen, Hua Xu
Information retrieval for biomedical datasets: the 2016 bioCADDIE dataset retrieval challenge. Database J. Biol. Databases Curation 2017 (2017)
Ariel Deardorff, Kate Masterton, Kirk Roberts, Halil Kilicoglu, Dina Demner-Fushman
A protocol-driven approach to automatically finding authoritative answers to consumer health questions in online resources. J. Assoc. Inf. Sci. Technol. 68 (7) (2017)
Olivia R. Zhang, Yaoyun Zhang, Jun Xu, Kirk Roberts, Xiang Y. Zhang, Hua Xu
Interweaving Domain Knowledge and Unsupervised Learning for Psychiatric Stressor Extraction from Clinical Notes. IEA/AIE (2) (2017)
Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh, Steven Bedrick, Alexander J. Lazar, Shubham Pant
Overview of the TREC 2017 Precision Medicine Track. TREC (2017)
Kirk Roberts
Assessing the Corpus Size vs. Similarity Trade-off for Word Embeddings in Clinical NLP. ClinicalNLP@COLING 2016 (2016)
Kirk Roberts, Dina Demner-Fushman
Annotating Logical Forms for EHR Questions. LREC (2016)
Halil Kilicoglu, Asma Ben Abacha, Yassine Mrabet, Kirk Roberts, Laritza Rodriguez, Sonya E. Shooshan, Dina Demner-Fushman
Annotating Named Entities in Consumer Health Questions. LREC (2016)
Kirk Roberts, Dina Demner-Fushman, Ellen M. Voorhees, William R. Hersh
Overview of the TREC 2016 Clinical Decision Support Track. TREC (2016)
Hoo-Chang Shin, Kirk Roberts, Le Lu, Dina Demner-Fushman, Jianhua Yao, Ronald M. Summers
Learning to Read Chest X-Rays: Recurrent Neural Cascade Model for Automated Image Annotation. CVPR (2016)

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Publication Activity (10 Years)

Top Topics

Top Venues

Kirk Roberts