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Aaron M. Cohen
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2020 – today
- 2024
- [j23]Aaron M. Cohen
, Jolie Kaner, Ryan Miller, Jeffrey W. Kopesky, William R. Hersh
Automatically pre-screening patients for the rare disease aromatic l-amino acid decarboxylase deficiency using knowledge engineering, natural language processing, and machine learning on a large EHR population. J. Am. Medical Informatics Assoc. 31(3): 692-704 (2024) - 2020
- [j22]Mengqi Luo, Aaron M. Cohen, Sidharth Addepalli, Neil R. Smalheiser:
Identifying main finding sentences in clinical case reports. Database J. Biol. Databases Curation 2020 (2020) - [c26]Steve Chamberlin, Steven Bedrick, Aaron M. Cohen, Yanshan Wang, Andrew Wen, Sijia Liu, Hongfang Liu, William R. Hersh:
A Query Taxonomy Describes Performance of Patient-Level Retrieval from Electronic Health Record Data. HSDM@WSDM 2020: 27-33
2010 – 2019
- 2019
- [j21]Neil R. Smalheiser
Unsupervised low-dimensional vector representations for words, phrases and text that are transparent, scalable, and produce similarity metrics that are not redundant with neural embeddings. J. Biomed. Informatics 90 (2019) - [c25]Nicole Gray Weiskopf, Aaron M. Cohen, Joely Hannan, Thad Jarmon, David A. Dorr:
Towards augmenting structured EHR data: a comparison of manual chart review and patient self-report. AMIA 2019 - 2018
- [j20]Aaron M. Cohen, Zackary O. Dunivin, Neil R. Smalheiser:
A probabilistic automated tagger to identify human-related publications. Database J. Biol. Databases Curation 2018: bay079 (2018) - [j19]Neil R. Smalheiser, Aaron M. Cohen:
Design of a generic, open platform for machine learning-assisted indexing and clustering of articles in PubMed, a biomedical bibliographic database. Data Inf. Manag. 2(1): 27-36 (2018) - [c24]Aaron M. Cohen, Neil R. Smalheiser:
OHSU CLEF 2018 Task 2 Diagnostic Test Accuracy Ranking using Publication Type Cluster Similarity Measures. CLEF (Working Notes) 2018 - 2017
- [j18]Byron C. Wallace, Anna Noel-Storr, Iain James Marshall
Identifying reports of randomized controlled trials (RCTs) via a hybrid machine learning and crowdsourcing approach. J. Am. Medical Informatics Assoc. 24(6): 1165-1168 (2017) - [j17]Neil R. Smalheiser, Aaron M. Cohen:
Call for Papers! Special Issue on Models of Discovery: Mining the Scientific Literature. J. Data Inf. Sci. 2(2): 96 (2017) - [c23]Tracy Edinger, Dina Demner-Fushman, Aaron M. Cohen, Steven Bedrick, William R. Hersh:
Evaluation of Clinical Text Segmentation to Facilitate Cohort Retrieval. AMIA 2017 - 2016
- [c22]Nicole Gray Weiskopf, Faiza Khan, David A. Dorr, Deborah V. Woodcock, Joaquin E. Cigarroa, Aaron M. Cohen:
A Mixed Methods Task Analysis of the Implementation and Validation of EHR-Based Clinical Quality Measures. AMIA 2016 - 2015
- [j16]Aaron M. Cohen, Neil R. Smalheiser, Marian S. McDonagh, Clement T. Yu, Clive E. Adams, John M. Davis, Philip S. Yu:
Automated confidence ranked classification of randomized controlled trial articles: an aid to evidence-based medicine. J. Am. Medical Informatics Assoc. 22(3): 707-717 (2015) - 2014
- [j15]Yu Jiang, Can Lin, Weiyi Meng, Clement T. Yu, Aaron M. Cohen, Neil R. Smalheiser
Rule-based deduplication of article records from bibliographic databases. Database J. Biol. Databases Curation 2014 (2014) - [j14]Neil R. Smalheiser
Design and implementation of Metta, a metasearch engine for biomedical literature retrieval intended for systematic reviewers. Health Inf. Sci. Syst. 2(1): 1 (2014) - 2013
- [j13]Kyle H. Ambert, Aaron M. Cohen, Gully A. P. C. Burns
Virk: an active learning-based system for bootstrapping knowledge base development in the neurosciences. Frontiers Neuroinformatics 7: 38 (2013) - [c21]Kyle H. Ambert, Aaron M. Cohen, Gully A. P. C. Burns, Eilis Boudreau, M. Kemal Sönmez:
Finna: A Paragraph Prioritization System for Biocuration in the Neurosciences. AAAI Fall Symposia 2013 - [c20]Tracy Edinger, Aaron M. Cohen:
A Large-Scale Analysis of the Reasons Given for Excluding Articles that are Retrieved by Literature Search During Systematic Review. AMIA 2013 - 2012
- [j12]Aaron M. Cohen, Kyle H. Ambert, Marian McDonagh:
Studying the potential impact of automated document classification on scheduling a systematic review update. BMC Medical Informatics Decis. Mak. 12: 33 (2012) - [j11]Kyle H. Ambert, Aaron M. Cohen:
k-Information Gain Scaled Nearest Neighbors: A Novel Approach to Classifying Protein-Protein Interaction-Related Documents. IEEE ACM Trans. Comput. Biol. Bioinform. 9(1): 305-310 (2012) - [c19]Tracy Edinger, Aaron M. Cohen, Steven Bedrick, Kyle H. Ambert, William R. Hersh:
Barriers to Retrieving Patient Information from Electronic Health Record Data: Failure Analysis from the TREC Medical Records Track. AMIA 2012 - [c18]Steven Bedrick, Tracy Edinger, Aaron M. Cohen, William R. Hersh:
Identifying Patients for Clinical Studies from Electronic Health Records: TREC 2012 Medical Records Track at OHSU. TREC 2012 - 2011
- [j10]Aaron M. Cohen:
Letter: Performance of support-vector-machine-based classification on 15 systematic review topics evaluated with the WSS@95 measure. J. Am. Medical Informatics Assoc. 18(1): 104 (2011) - [c17]Steven Bedrick, Kyle H. Ambert, Aaron M. Cohen, William R. Hersh:
Identifying Patients for Clinical Studies from Electronic Health Records: TREC Medical Records Track at OHSU. TREC 2011 - 2010
- [c16]Aaron M. Cohen, Clive E. Adams, John M. Davis, Clement T. Yu, Philip S. Yu, Weiyi Meng, Lorna Duggan, Marian McDonagh, Neil R. Smalheiser
Evidence-based medicine, the essential role of systematic reviews, and the need for automated text mining tools. IHI 2010: 376-380
2000 – 2009
- 2009
- [j9]Jianji Yang, Aaron M. Cohen, William R. Hersh:
Evaluation of a gene information summarization system by users during the analysis process of microarray datasets. BMC Bioinform. 10(S-2) (2009) - [j8]Phoebe M. Roberts, Aaron M. Cohen, William R. Hersh
Tasks, topics and relevance judging for the TREC Genomics Track: five years of experience evaluating biomedical text information retrieval systems. Inf. Retr. 12(1): 81-97 (2009) - [j7]Kyle H. Ambert, Aaron M. Cohen:
Research Paper: A System for Classifying Disease Comorbidity Status from Medical Discharge Summaries Using Automated Hotspot and Negated Concept Detection. J. Am. Medical Informatics Assoc. 16(4): 590-595 (2009) - [j6]Aaron M. Cohen, Kyle H. Ambert, Marian McDonagh:
Research Paper: Cross-Topic Learning for Work Prioritization in Systematic Review Creation and Update. J. Am. Medical Informatics Assoc. 16(5): 690-704 (2009) - 2008
- [j5]Aaron M. Cohen:
Case Report: Five-way Smoking Status Classification Using Text Hot-Spot Identification and Error-correcting Output Codes. J. Am. Medical Informatics Assoc. 15(1): 32-35 (2008) - [c15]Nathan J. Bahr, Aaron M. Cohen:
Discovering Synergistic Qualities of Published Authors to Enhance Translational Research. AMIA 2008 - [c14]Aaron M. Cohen:
Optimizing Feature Representation for Automated Systematic Review Work Prioritization. AMIA 2008 - [c13]Jianji Yang, Aaron M. Cohen, Marian McDonagh:
SYRIAC: The SYstematic Review Information Automated Collection System A Data Warehouse for Facilitating Automated Biomedical Text Classification. AMIA 2008 - 2007
- [c12]Hari Krishna Rekapalli, Aaron M. Cohen, William R. Hersh:
A comparative analysis of retrieval features used in the TREC 2006 Genomics Track passage retrieval task. AMIA 2007 - [c11]Jianji Yang, Aaron M. Cohen, William R. Hersh:
Automatic Summarization of Mouse Gene Information by Clustering and Sentence Extraction from MEDLINE Abstracts. AMIA 2007 - [c10]Aaron M. Cohen, Jianji Yang, Seeger Fisher, Brian Roark, William R. Hersh:
The OHSU Biomedical Question Answering System Framework. TREC 2007 - [c9]William R. Hersh, Aaron M. Cohen, Lynn Ruslen, Phoebe M. Roberts:
TREC 2007 Genomics Track Overview. TREC 2007 - 2006
- [j4]Aaron M. Cohen, William R. Hersh
Research Paper: Reducing Workload in Systematic Review Preparation Using Automated Citation Classification. J. Am. Medical Informatics Assoc. 13(2): 206-219 (2006) - [c8]Aaron M. Cohen:
An Effective General Purpose Approach for Automated Biomedical Document Classification. AMIA 2006 - [c7]Jianji Yang, Aaron M. Cohen, William R. Hersh:
Functional Gene Group Summarization by Clustering MEDLINE Abstract Sentences. AMIA 2006 - [c6]Aaron M. Cohen, Jianji Yang, Seeger Fisher, Brian Roark, William R. Hersh:
Combining Lexicon Expansion, Information Retrieval, and Cluster-based Ranking for Biomedical Question Answering. TREC 2006 - [c5]William R. Hersh, Aaron M. Cohen, Phoebe M. Roberts, Hari Krishna Rekapalli:
TREC 2006 Genomics Track Overview. TREC 2006 - 2005
- [j3]Aaron M. Cohen, William R. Hersh
A survey of current work in biomedical text mining. Briefings Bioinform. 6(1): 57-71 (2005) - [j2]Aaron M. Cohen, William R. Hersh
Using co-occurrence network structure to extract synonymous gene and protein names from MEDLINE abstracts. BMC Bioinform. 6: 103 (2005) - [c4]Aaron M. Cohen, Jianji Yang, William R. Hersh:
A Comparison of Techniques for Classification and Ad Hoc Retrieval of Biomedical Documents. TREC 2005 - [c3]William R. Hersh, Aaron M. Cohen, Jianji Yang, Ravi Teja Bhupatiraju, Phoebe M. Roberts, Marti A. Hearst:
TREC 2005 Genomics Track Overview. TREC 2005 - 2004
- [j1]Aaron M. Cohen, P. Zoë Stavri, William R. Hersh
A categorization and analysis of the criticisms of Evidence-Based Medicine. Int. J. Medical Informatics 73(1): 35-43 (2004) - [c2]Aaron M. Cohen, Ravi Teja Bhupatiraju, William R. Hersh:
Feature Generation, Feature Selection, Classifiers, and Conceptual Drift for Biomedical Document Triage. TREC 2004 - [c1]William R. Hersh, Ravi Teja Bhupatiraju, L. Ross, Aaron M. Cohen, Dale Kraemer, Phoebe Johnson:
TREC 2004 Genomics Track Overview. TREC 2004
Coauthor Index
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