Jyotishman Pathak
Orcid: 0000-0002-4856-410X
According to our database1,
Jyotishman Pathak
authored at least 184 papers
between 2003 and 2025.
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Bibliography
2025
Extracting social support and social isolation information from clinical psychiatry notes: comparing a rule-based natural language processing system and a large language model.
J. Am. Medical Informatics Assoc., 2025
2024
Visualizing machine learning-based predictions of postpartum depression risk for lay audiences.
J. Am. Medical Informatics Assoc., January, 2024
Deep learning for identifying personal and family history of suicidal thoughts and behaviors from EHRs.
npj Digit. Medicine, 2024
Identifying social determinants of health from clinical narratives: A study of performance, documentation ratio, and potential bias.
J. Biomed. Informatics, 2024
Preparing for the bedside - optimizing a postpartum depression risk prediction model for clinical implementation in a health system.
J. Am. Medical Informatics Assoc., 2024
Extracting Social Support and Social Isolation Information from Clinical Psychiatry Notes: Comparing a Rule-based NLP System and a Large Language Model.
CoRR, 2024
Proceedings of the 12th IEEE International Conference on Healthcare Informatics, 2024
2023
AD-BERT: Using pre-trained language model to predict the progression from mild cognitive impairment to Alzheimer's disease.
J. Biomed. Informatics, August, 2023
An NLP approach to identify SDoH-related circumstance and suicide crisis from death investigation narratives.
J. Am. Medical Informatics Assoc., July, 2023
J. Am. Medical Informatics Assoc., February, 2023
Proceedings of the IEEE International Conference on Systems, Man, and Cybernetics, 2023
2022
An architecture for research computing in health to support clinical and translational investigators with electronic patient data.
J. Am. Medical Informatics Assoc., 2022
J. Am. Medical Informatics Assoc., 2022
AD-BERT: Using Pre-trained contextualized embeddings to Predict the Progression from Mild Cognitive Impairment to Alzheimer's Disease.
CoRR, 2022
SODA: A Natural Language Processing Package to Extract Social Determinants of Health for Cancer Studies.
CoRR, 2022
Proceedings of the AMIA 2022, 2022
2021
Characterization of Time-variant and Time-invariant Assessment of Suicidality on Reddit using C-SSRS.
Dataset, February, 2021
Extracting social determinants of health from electronic health records using natural language processing: a systematic review.
J. Am. Medical Informatics Assoc., 2021
Deep significance clustering: a novel approach for identifying risk-stratified and predictive patient subgroups.
J. Am. Medical Informatics Assoc., 2021
Characterization of Time-variant and Time-invariant Assessment of Suicidality on Reddit using C-SSRS.
CoRR, 2021
A Study of Social and Behavioral Determinants of Health in Lung Cancer Patients Using Transformers-based Natural Language Processing Models.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
On Constraints and Considerations for Extending Support for Natural Language Processing-Based FHIR Resource Generation.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
FHIRTime: Standardizing Temporal Patterns Identified from Clinical Narratives Using HL7 FHIR.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Prescribing Pharmacogenomics Testing: Analyzing the Acceptance of Healthcare Providers through a Survey Study.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
A Deep Learning Framework Using a Pre-trained BERT Model to Predict the Risk of Progression from Mild Cognitive Impairment to Alzheimer's Disease.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Extracting Social Isolation Information From Psychiatric Notes in the Electronic Health Records.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Supporting EHR-based Cohort Discovery Through User-centered Design: Results of an Early Formative Usability Study.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Multi-site Evaluation of Longitudinal Changes in Ejection Fraction in Heart Failure Patients Through Data-driven Phenotyping.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
2020
Identifying sub-phenotypes of acute kidney injury using structured and unstructured electronic health record data with memory networks.
J. Biomed. Informatics, 2020
CoRR, 2020
A Machine Learning Approach to Detect Suicidal Ideation in US Veterans Based on Acoustic and Linguistic Features of Speech.
CoRR, 2020
Identification of Alzheimer's Disease Subtypes from Electronic Health Records Using a Data-Driven Approach.
Proceedings of the AMIA 2020, 2020
Healthcare Contacts Among Patients with Psychiatric Hospitalization Admitted Through the Emergency Department.
Proceedings of the AMIA 2020, 2020
Proceedings of the AMIA 2020, 2020
Provider perspectives on the clinical utility of using a risk prediction tool for postpartum depression.
Proceedings of the AMIA 2020, 2020
Visual Rating Scales for Patient-Reported Outcome Measurement: A National Validation Study.
Proceedings of the AMIA 2020, 2020
Weak Supervision to Classify Unstructured Clinical Text for Current Suicidal Ideation.
Proceedings of the AMIA 2020, 2020
Feasibility of Cross-Platform EHR-Driven Phenotyping Using Clinical Quality Language.
Proceedings of the AMIA 2020, 2020
2019
BMC Medical Informatics Decis. Mak., 2019
Developing a FHIR-based EHR phenotyping framework: A case study for identification of patients with obesity and multiple comorbidities from discharge summaries.
J. Biomed. Informatics, 2019
Underserved populations with missing race ethnicity data differ significantly from those with structured race/ethnicity documentation.
J. Am. Medical Informatics Assoc., 2019
Social determinants of health in mental health care and research: a case for greater inclusion.
J. Am. Medical Informatics Assoc., 2019
Identification of Predictive Sub-Phenotypes of Acute Kidney Injury using Structured and Unstructured Electronic Health Record Data with Memory Networks.
CoRR, 2019
Briefings Bioinform., 2019
Proceedings of the World Wide Web Conference, 2019
Proceedings of the 13th IEEE International Conference on Semantic Computing, 2019
Stratified Mortality Prediction of Patients with Acute Kidney Injury in Critical Care.
Proceedings of the MEDINFO 2019: Health and Wellbeing e-Networks for All, 2019
Using Electronic Health Records and Machine Learning to Predict Postpartum Depression.
Proceedings of the MEDINFO 2019: Health and Wellbeing e-Networks for All, 2019
Proceedings of the AMIA 2019, 2019
Proceedings of the AMIA 2019, 2019
Considerations for Improving the Portability of Electronic Health Record-Based Phenotype Algorithms.
Proceedings of the AMIA 2019, 2019
Collecting Individual-Level Social Determinants of Health to Inform Patient-Centered Outcomes Research in Mental Health.
Proceedings of the AMIA 2019, 2019
Proceedings of the AMIA 2019, 2019
Evaluating the Portability of an NLP System for Processing Echocardiograms: A Retrospective, Multi-site Observational Study.
Proceedings of the AMIA 2019, 2019
2018
Association networks in a matched case-control design - Co-occurrence patterns of preexisting chronic medical conditions in patients with major depression versus their matched controls.
J. Biomed. Informatics, 2018
A case study evaluating the portability of an executable computable phenotype algorithm across multiple institutions and electronic health record environments.
J. Am. Medical Informatics Assoc., 2018
J. Am. Medical Informatics Assoc., 2018
Proceedings of the IEEE International Conference on Healthcare Informatics, 2018
Portable Phenotyping System: A Portable Machine-Learning Approach to i2b2 Obesity Challenge.
Proceedings of the IEEE International Conference on Healthcare Informatics Workshops, 2018
Proceedings of the IEEE International Conference on Healthcare Informatics, 2018
"Let Me Tell You About Your Mental Health!": Contextualized Classification of Reddit Posts to DSM-5 for Web-based Intervention.
Proceedings of the 27th ACM International Conference on Information and Knowledge Management, 2018
Using EHRs to assess gender differences in the utilization of mental health services for patients diagnosed with major depression.
Proceedings of the AMIA 2018, 2018
Methods for Integrating EHRs, Social Determinants of Health, and Built Environment Data for Patient-Centered Research.
Proceedings of the AMIA 2018, 2018
Ascertaining Depression Severity by Extracting Patient Health Questionnaire-9 (PHQ-9) Scores from Clinical Notes.
Proceedings of the AMIA 2018, 2018
2017
Proceedings of the 2017 SIAM International Conference on Data Mining, 2017
Proceedings of the 2017 IEEE International Conference on Healthcare Informatics, 2017
D2Refine: A Platform for Clinical Research Study Data Element Harmonization and Standardization.
Proceedings of the Summit on Clinical Research Informatics, 2017
Temporal reflected logistic regression for probabilistic heart failure survival score prediction.
Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017
Proceedings of the 2017 IEEE/ACM International Conference on Advances in Social Networks Analysis and Mining 2017, Sydney, Australia, July 31, 2017
The Phenotype Execution and Modeling Architecture: A Roadmap Towards Next-generation Phenotyping Using EHRs.
Proceedings of the AMIA 2017, 2017
Secondary Use of Patients' Electronic Records (SUPER): An Approach for Meeting Specific Data Needs of Clinical and Translational Researchers.
Proceedings of the AMIA 2017, 2017
Proceedings of the AMIA 2017, 2017
Leveraging Value Sets from the Value Set Authority Center (VSAC) in a Standards-Based Clinical Data Repository.
Proceedings of the AMIA 2017, 2017
2016
Developing EHR-driven heart failure risk prediction models using CPXR(Log) with the probabilistic loss function.
J. Biomed. Informatics, 2016
Developing a data element repository to support EHR-driven phenotype algorithm authoring and execution.
J. Biomed. Informatics, 2016
PheKB: a catalog and workflow for creating electronic phenotype algorithms for transportability.
J. Am. Medical Informatics Assoc., 2016
Developing a modular architecture for creation of rule-based clinical diagnostic criteria.
BioData Min., 2016
Clinical phenotyping in selected national networks: demonstrating the need for high-throughput, portable, and computational methods.
Artif. Intell. Medicine, 2016
Appl. Clin. Inform., 2016
A Decompositional Approach to Executing Quality Data Model Algorithms on the i2b2 Platform.
Proceedings of the Summit on Clinical Research Informatics, 2016
Standardized Representation of Clinical Study Data Dictionaries with CIMI Archetypes.
Proceedings of the AMIA 2016, 2016
Predicting Prolonged Stay in the ICU Attributable to Bleeding in Patients Offered Plasma Transfusion.
Proceedings of the AMIA 2016, 2016
Improving risk prediction for depression via Elastic Net regression - Results from Korea National Health Insurance Services Data.
Proceedings of the AMIA 2016, 2016
An NLP Extension to the Quality Data Model for EHR-Driven Phenotype Algorithm Authoring and Execution.
Proceedings of the AMIA 2016, 2016
2015
Review and evaluation of electronic health records-driven phenotype algorithm authoring tools for clinical and translational research.
J. Am. Medical Informatics Assoc., 2015
Desiderata for computable representations of electronic health records-driven phenotype algorithms.
J. Am. Medical Informatics Assoc., 2015
Using EHRs for Heart Failure Therapy Recommendation Using Multidimensional Patient Similarity Analytics.
Proceedings of the Digital Healthcare Empowering Europeans, 2015
Proceedings of the Digital Healthcare Empowering Europeans, 2015
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
Effects of Plasma Transfusion on Perioperative Bleeding Complications: A Machine Learning Approach.
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
Developing a Standards-Based Information Model for Representing Computable Diagnostic Criteria: A Feasibility Study of the NQF Quality Data Model.
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
A Standards-based Semantic Metadata Repository to Support EHR-driven Phenotype Authoring and Execution.
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
A Systematic Prediction of Adverse Drug Reactions Using Pre-clinical Drug Characteristics and Spontaneous Reports.
Proceedings of the 2015 International Conference on Healthcare Informatics, 2015
A Clinical Decision Support System for Preventing Adverse Reactions to Blood Transfusion.
Proceedings of the 2015 International Conference on Healthcare Informatics, 2015
Proceedings of the 2015 International Conference on Healthcare Informatics, 2015
Proceedings of the 37th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2015
Multi-task learning with selective cross-task transfer for predicting bleeding and other important patient outcomes.
Proceedings of the 2015 IEEE International Conference on Data Science and Advanced Analytics, 2015
Proceedings of the AMIA 2015, 2015
(Authoring) Rules, (Distributed Query) Tools, and Drools: The challenging new world of high throughput phenotyping.
Proceedings of the AMIA 2015, 2015
Usability of a phenotype builder prototype and lessons learned for the design of phenotyping tools.
Proceedings of the AMIA 2015, 2015
Translating Electronic Clinical Quality Measures to Executable, Portable, and Customizable Workflows in KNIME.
Proceedings of the AMIA 2015, 2015
Proceedings of the AMIA 2015, 2015
Harmonization of Quality Data Model with HL7 FHIR to Support EHR-driven Phenotype Authoring and Execution: A Pilot Study.
Proceedings of the AMIA 2015, 2015
Developing Intermediary Medication Phenotypes via Metabolomics Biotechnology Using an Electronic Health Record-Linked Biobank.
Proceedings of the AMIA 2015, 2015
A Heterogeneous Multi-Task Learning for Predicting RBC Transfusion and Perioperative Outcomes.
Proceedings of the Artificial Intelligence in Medicine, 2015
2014
Design patterns for the development of electronic health record-driven phenotype extraction algorithms.
J. Biomed. Informatics, 2014
Research and applications: An electronic health record driven algorithm to identify incident antidepressant medication users.
J. Am. Medical Informatics Assoc., 2014
What Information about Cardiovascular Diseases do People Search Online?
Proceedings of the e-Health - For Continuity of Care - Proceedings of MIE2014, the 25th European Medical Informatics Conference, Istanbul, Turkey, August 31, 2014
Online Information Seeking for Cardiovascular Diseases: A Case Study from Mayo Clinic.
Proceedings of the e-Health - For Continuity of Care - Proceedings of MIE2014, the 25th European Medical Informatics Conference, Istanbul, Turkey, August 31, 2014
Proceedings of the 2014 IEEE International Conference on Data Mining Workshops, 2014
Empowering personalized medicine with big data and semantic web technology: Promises, challenges, and use cases.
Proceedings of the 2014 IEEE International Conference on Big Data (IEEE BigData 2014), 2014
Using semantic web technologies for quality measure phenotyping algorithm representation and automatic execution on EHR data.
Proceedings of IEEE-EMBS International Conference on Biomedical and Health Informatics, 2014
Qualitative evaluation of three phenotype information models to find methotrexate liver injury.
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Scalable and High-Throughput Execution of Clinical Quality Measures from Electronic Health Records using MapReduce and the JBoss(R) Drools Engine.
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Analysis of Online Information Searching for Cardiovascular Diseases on a Consumer Health Information Portal.
Proceedings of the AMIA 2014, 2014
2013
J. Biomed. Informatics, 2013
Harmonization and semantic annotation of data dictionaries from the Pharmacogenomics Research Network: A case study.
J. Biomed. Informatics, 2013
Terminology representation guidelines for biomedical ontologies in the semantic web notations.
J. Biomed. Informatics, 2013
A semantic-web oriented representation of the clinical element model for secondary use of electronic health records data.
J. Am. Medical Informatics Assoc., 2013
Proceedings of the MEDINFO 2013, 2013
Proceedings of the Smart Health - International Conference, 2013
Mining Anti-coagulant Drug-Drug Interactions from Electronic Health Records Using Linked Data.
Proceedings of the Data Integration in the Life Sciences - 9th International Conference, 2013
Mining drug-drug interaction patterns from linked data: A case study for Warfarin, Clopidogrel, and Simvastatin.
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013
Using standardized clinical data modeling and knowledge representation to compute pharmacogenomic data elements.
Proceedings of the AMIA 2013, 2013
Proceedings of the AMIA 2013, 2013
PhenotypePortal: An Open-Source Library and Platform for Authoring, Executing and Visualization of Electronic Health Records Driven Phenotyping Algorithms.
Proceedings of the AMIA 2013, 2013
2012
Building a robust, scalable and standards-driven infrastructure for secondary use of EHR data: The SHARPn project.
J. Biomed. Informatics, 2012
Importance of multi-modal approaches to effectively identify cataract cases from electronic health records.
J. Am. Medical Informatics Assoc., 2012
Applying semantic web technologies for phenome-wide scan using an electronic health record linked Biobank.
J. Biomed. Semant., 2012
Proceedings of the Biocomputing 2012: Proceedings of the Pacific Symposium, 2012
Applying linked data principles to represent patient's electronic health records at Mayo clinic: a case report.
Proceedings of the ACM International Health Informatics Symposium, 2012
Proceedings of the 3rd International Conference on Biomedical Ontology (ICBO 2012), 2012
A Semantic-Web Oriented Representation of Clinical Element Model for Secondary Use of Electronic Healthcare Data.
Proceedings of the 2012 IEEE Second International Conference on Healthcare Informatics, 2012
An Evaluation of the NQF Quality Data Model for Representing Electronic Health Record Driven Phenotyping Algorithms.
Proceedings of the AMIA 2012, 2012
Proceedings of the AMIA 2012, 2012
Mining Genotype-Phenotype Associations from Electronic Health Records and Biorepositories using Semantic Web Technologies.
Proceedings of the AMIA 2012, 2012
Mining the Human Phenome using Semantic Web Technologies: A Case Study for Type 2 Diabetes.
Proceedings of the AMIA 2012, 2012
Using Electronic Health Records to Identify Patient Cohorts for Drug-Induced Thrombocytopenia, Neutropenia and Liver Injury.
Proceedings of the AMIA 2012, 2012
Modeling and Executing Electronic Health Records Driven Phenotyping Algorithms using the NQF Quality Data Model and JBoss® Drools Engine.
Proceedings of the AMIA 2012, 2012
Visualization and Reporting of Results for Electronic Health Records Driven Phenotyping using the Open-Source popHealth Platform.
Proceedings of the AMIA 2012, 2012
Using PheWAS to Assess Pleiotropy of Genetic Risk Scores for Rheumatoid Arthritis and Coronary Artery Disease in the eMERGE Network.
Proceedings of the AMIA 2012, 2012
Using Electronic Health Records to Identify Heart Failure Cohorts with Differentiation for Preserved and Reduced Ejection Fraction.
Proceedings of the AMIA 2012, 2012
2011
Mapping clinical phenotype data elements to standardized metadata repositories and controlled terminologies: the eMERGE Network experience.
J. Am. Medical Informatics Assoc., 2011
J. Am. Medical Informatics Assoc., 2011
The linked clinical data project: applying semantic web technologies for clinical and translational research using electronic medical records.
Proceedings of the 4th International Workshop on Semantic Web Applications and Tools for the Life Sciences, 2011
Using RxNorm to Extract Medication Data from Electronic Health Records in the Rochester Epidemiology Project.
Proceedings of the 2nd International Conference on Biomedical Ontology, 2011
Proceedings of the 2nd International Conference on Biomedical Ontology, 2011
2010
Comparing and evaluating terminology services application programming interfaces: RxNav, UMLSKS and LexBIG.
J. Am. Medical Informatics Assoc., 2010
Analyzing categorical information in two publicly available drug terminologies: RxNorm and NDF-RT.
J. Am. Medical Informatics Assoc., 2010
Leveraging informatics for genetic studies: use of the electronic medical record to enable a genome-wide association study of peripheral arterial disease.
J. Am. Medical Informatics Assoc., 2010
2009
J. Biomed. Informatics, 2009
Implementation Brief: LexGrid: A Framework for Representing, Storing, and Querying Biomedical Terminologies from Simple to Sublime.
J. Am. Medical Informatics Assoc., 2009
Survey of modular ontology techniques and their applications in the biomedical domain.
Integr. Comput. Aided Eng., 2009
2008
MOSCOE: an Approach for Composing Web Services through Iterative Reformulation of Functional Specifications.
Int. J. Artif. Intell. Tools, 2008
Adopting Graph Traversal Techniques for Context-Driven Value Sets Extraction from Biomedical Knowledge Sources.
Proceedings of the 2th IEEE International Conference on Semantic Computing (ICSC 2008), 2008
Proceedings of the IEEE International Conference on Information Reuse and Integration, 2008
Proceedings of the AMIA 2008, 2008
Proceedings of the Semantic Scientific Knowledge Integration, 2008
Proceedings of the 2008 IEEE International Conference on Services Computing (SCC 2008), 2008
2007
Proceedings of the Emerging Artificial Intelligence Applications in Computer Engineering, 2007
Proceedings of the 2007 IEEE International Conference on Web Services (ICWS 2007), 2007
Integrated Decision Algorithms for Auto-steered Electric Transmission System Asset Management.
Proceedings of the Computational Science, 2007
Business-Activity Driven Search: Addressing the Information Needs of Services Professionals.
Proceedings of the 2007 IEEE International Conference on Services Computing (SCC 2007), 2007
2006
Selecting and Composing Web Services through Iterative Reformulation of Functional Specifications.
Proceedings of the 18th IEEE International Conference on Tools with Artificial Intelligence (ICTAI 2006), 2006
A Service-Oriented Architecture for Electric Power Transmission System Asset Management.
Proceedings of the Service-Oriented Computing, 2006
Modeling Web Services by Iterative Reformulation of Functional and Non-functional Requirements.
Proceedings of the Service-Oriented Computing, 2006
Proceedings of the 22nd International Conference on Data Engineering Workshops, 2006
Condition Data Aggregation with Application to Failure Rate Calculation of Power Transformers.
Proceedings of the 39th Hawaii International International Conference on Systems Science (HICSS-39 2006), 2006
Proceedings of the Fourth IEEE European Conference on Web Services (ECOWS 2006), 2006
Proceedings of the Data Warehousing and Knowledge Discovery, 8th International Conference, 2006
2005
Proceedings of the Seventh ACM International Workshop on Web Information and Data Management (WIDM 2005), 2005
Information Integration and Knowledge Acquisition from Semantically Heterogeneous Biological Data Sources.
Proceedings of the Data Integration in the Life Sciences, Second InternationalWorkshop, 2005
Proceedings of the 16th International Workshop on Database and Expert Systems Applications (DEXA 2005), 2005
Algorithms and Software for Collaborative Discovery from Autonomous, Semantically Heterogeneous, Distributed Information Sources.
Proceedings of the Algorithmic Learning Theory, 16th International Conference, 2005
2004
Ontology-Extended Component-Based Workflows : A Framework for Constructing Complex Workflows from Semantically Heterogeneous Software Components.
Proceedings of the Semantic Web and Databases, Second International Workshop, 2004
Proceedings of the On the Move to Meaningful Internet Systems 2004: CoopIS, 2004
2003
Information Extraction and Integration from Heterogeneous, Distributed, Autonomous Information Sources : A Federated Ontology-Driven Query-Centric Approach.
Proceedings of the 2003 IEEE International Conference on Information Reuse and Integration, 2003