Aaron M. Cohen

Publication Activity (10 Years)

Years Active: 2004-2024
Publications (10 Years): 12

Top Topics

Similarity Metric

Quality Measures

Scientific Literature

Top Venues

Database J. Biol. Databases Curation

J. Am. Medical Informatics Assoc.

Publications

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) (2024)
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)
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)
Neil R. Smalheiser, Aaron M. Cohen, Gary Bonifield
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)
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)
Aaron M. Cohen, Zackary O. Dunivin, Neil R. Smalheiser
A probabilistic automated tagger to identify human-related publications. Database J. Biol. Databases Curation 2018 (2018)
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)
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) (2018)
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) (2017)
Byron C. Wallace, Anna Noel-Storr, Iain James Marshall, Aaron M. Cohen, Neil R. Smalheiser, James Thomas
Identifying reports of randomized controlled trials (RCTs) via a hybrid machine learning and crowdsourcing approach. J. Am. Medical Informatics Assoc. 24 (6) (2017)
Tracy Edinger, Dina Demner-Fushman, Aaron M. Cohen, Steven Bedrick, William R. Hersh
Evaluation of Clinical Text Segmentation to Facilitate Cohort Retrieval. AMIA (2017)
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)
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) (2015)
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)
Neil R. Smalheiser, Can Lin, Lifeng Jia, Yu Jiang, Aaron M. Cohen, Clement T. Yu, John M. Davis, Clive E. Adams, Marian S. McDonagh, Weiyi Meng
Design and implementation of Metta, a metasearch engine for biomedical literature retrieval intended for systematic reviewers. Health Inf. Sci. Syst. 2 (1) (2014)
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)
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)
Kyle H. Ambert, Aaron M. Cohen, Gully A. P. C. Burns, Eilis Boudreau, M. Kemal Sönmez
Virk: an active learning-based system for bootstrapping knowledge base development in the neurosciences. Frontiers Neuroinformatics 7 (2013)
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) (2012)
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)
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 (2012)
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)
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)
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) (2011)
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)
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)
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) (2009)
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) (2009)
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) (2009)
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) (2008)
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)
Nathan J. Bahr, Aaron M. Cohen
Discovering Synergistic Qualities of Published Authors to Enhance Translational Research. AMIA (2008)
Aaron M. Cohen
Optimizing Feature Representation for Automated Systematic Review Work Prioritization. AMIA (2008)
Aaron M. Cohen, Jianji Yang, Seeger Fisher, Brian Roark, William R. Hersh
The OHSU Biomedical Question Answering System Framework. TREC (2007)
Jianji Yang, Aaron M. Cohen, William R. Hersh
Automatic Summarization of Mouse Gene Information by Clustering and Sentence Extraction from MEDLINE Abstracts. AMIA (2007)
William R. Hersh, Aaron M. Cohen, Lynn Ruslen, Phoebe M. Roberts
TREC 2007 Genomics Track Overview. TREC (2007)
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)
Aaron M. Cohen, William R. Hersh, K. Peterson, Po-Yin Yen
Research Paper: Reducing Workload in Systematic Review Preparation Using Automated Citation Classification. J. Am. Medical Informatics Assoc. 13 (2) (2006)
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)
Jianji Yang, Aaron M. Cohen, William R. Hersh
Functional Gene Group Summarization by Clustering MEDLINE Abstract Sentences. AMIA (2006)
Aaron M. Cohen
An Effective General Purpose Approach for Automated Biomedical Document Classification. AMIA (2006)
William R. Hersh, Aaron M. Cohen, Phoebe M. Roberts, Hari Krishna Rekapalli
TREC 2006 Genomics Track Overview. TREC (2006)
Aaron M. Cohen, William R. Hersh, Christopher Dubay, Kent A. Spackman
Using co-occurrence network structure to extract synonymous gene and protein names from MEDLINE abstracts. BMC Bioinform. 6 (2005)
Aaron M. Cohen, William R. Hersh
A survey of current work in biomedical text mining. Briefings Bioinform. 6 (1) (2005)
William R. Hersh, Aaron M. Cohen, Jianji Yang, Ravi Teja Bhupatiraju, Phoebe M. Roberts, Marti A. Hearst
TREC 2005 Genomics Track Overview. TREC (2005)
Aaron M. Cohen, Jianji Yang, William R. Hersh
A Comparison of Techniques for Classification and Ad Hoc Retrieval of Biomedical Documents. TREC (2005)
William R. Hersh, Ravi Teja Bhupatiraju, L. Ross, Aaron M. Cohen, Dale Kraemer, Phoebe Johnson
TREC 2004 Genomics Track Overview. TREC (2004)
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) (2004)
Aaron M. Cohen, Ravi Teja Bhupatiraju, William R. Hersh
Feature Generation, Feature Selection, Classifiers, and Conceptual Drift for Biomedical Document Triage. TREC (2004)