Northwestern University Feinberg School of Medicine

Biomedical Natural Language Processing Lab

Peer-Reviewed Journals

  1. Cormack J, Nath C, Milward D, Raja K, Jonnalagadda SR. Agile Text Mining for the 2014 i2b2/UTHealth Cardiac Risk Factors Challenge. Journal of Biomedical Informatics. 2015; Accepted for publication.
  2. Jonnalagadda SR, Goyal P, Huffman MD. Automating Data Extraction in Systematic Reviews: A Systematic Review. Systematic Reviews. 2015;4:78 doi:10.1186/s13643-015-0066-7.
  3. ^Morid MA, Jonnalagadda SR, Fiszman M, Raja K, Del Fiol G. Classification of Clinically Useful Sentences in MEDLINE. AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium. 2015.
  4. ^Jonnalagadda SR, Moosavinasab S, Nath C, Li D, Chute CG, Liu H. An Automated Approach for Ranking Journals to Help in Clinician Decision Support. AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium. 2014. PMCID: PMC4420004
  5. Mishra R, Bian J, Fiszman M, Weir C, Jonnalagadda S, Mostafa J, Del Fiol G. Text Summarization in the Biomedical Domain: A Systematic Review of Recent Research. Journal of Biomedical Informatics. 2014. PMCID: PMC4261035
  6. ^Moosavi S, Rastegar M, Liu H, Jonnalagadda S. Towards Transforming Expert-based Content to Evidence-based Content. AMIA Clinical Research Informatics Summit 2014. PMCID: PMC4419763
  7. ^Mishra R, Del Fiol G, Kilicoglu H, Jonnalagadda S, Fiszman M. Automatically Extracting Clinically Useful Sentences from UpToDate to Support Clinicians’ Information Needs. AMIA Annual Symposium 2013. [Best student paper finalist]. PMCID: PMC3900230
  8. Wu S, Sohn S, Ravikumar KE, Wagholikar K, Jonnalagadda S, Liu H, Juhn Y. Automated chart review for asthma cohort identification using natural language processing: an exploratory study. Annals of Allergy, Asthma & Immunology. 2013; PMCID: PMC3839107
  9. Jonnalagadda S, Cohen T, Wu S, Liu H, Gonzalez G. Using Empirically Constructed Lexical Resources for Named Entity Recognition. Biomedical Informatics Insights. 2013; PMCID: PMC3702195.
  10. Zhang M, Del Fiol G, Grout R, Jonnalagadda S, Medlin Jr R, Mishra R, Weir C, Liu H, Mostafa J, Fiszman M. Automatic identification of comparative effectiveness research from Medline citations to support clinicians’ treatment information needs. Studies in health technology and informatics. 2013;192:846-50. [Best student paper finalist @MEDINFO] PMCID: PMC3940695
  11. ^Liu H, Bielinski S, Sohn S, Murphy S, Wagholikar K, Jonnalagadda S, Ravikumar K.E., Wu S, Kullo I, Chute C. An Information Extraction Framework for Cohort Identification Using Electronic Health Records. AMIA Clinical Research Informatics Summit 2013. PMCID: PMC3845757
  12. Sohn S, Wagholikar KB, Li D, Jonnalagadda S, Tao C, Komandur-Elayavilli R, Liu H. Comprehensive Temporal Information Detection from Clinical Text: Medical Events, Time, and TLINK Identification. Journal of American Medical Informatics Association. 2013; PMCID: PMC3756269
  13. Sohn S, Clark C, Halgrim S, Murphy S, Jonnalagadda S, Wagholikar K, Wu S, Chute C, Liu H. Analysis of Cross-Institutional Medication Information Annotation in Clinical Notes. Biomedical Informatics Insights. 2013; PMCID: PMC3702197
  14. Wagholikar K, Torii M, Jonnalagadda S, Liu H. Pooling annotated corpora for clinical concept extraction. Journal of Biomedical Semantics, 2013; 4:3. doi: 10.1186/2041-1480-4-3 PMCID: PMC3599895
  15. Jonnalagadda S, Del Fiol G, Medlin R, Weir C, Fiszman M, Mostafa J, Liu H. Automatically Extracting Sentences from Medline Citations to Support Clinicians’ Information Needs. Journal of American Medical Informatics Association. 2013; 20:995-1000 Published Online First: 25 October 2012 doi:10.1136/amiajnl-2012-001347 [Editor’s Choice]. PMCID: PMC3756259
  16. ^Liu H, Wu S, Li D, Jonnalagadda S, Sohn S, Wagholikar K, Haug P, Huff S, Chute C. Towards a semantic lexicon for clinical natural language processing. Annual Proceedings of American Medical Informatics Association. 2012;2012:568-76. PMCID: PMC3540492.
  17. Jonnalagadda S, Petitti D. A New Iterative Method to Reduce Workload in Systematic Review Process. International Journal of Computational Biology and Drug Design. 2013;6(1-2):5-17. PMCID: PMC3787693
  18. Jonnalagadda S, Li D, Sohn S, Wu S, Wagholikar K, Torii M, Liu H. Coreference Analysis in Clinical Notes: A Multi-Pass Sieve With Alternate Anaphora Resolution Modules. Journal of American Medical Informatics Association. Published Online First: 16 June 2012 doi:10.1136/amiajnl-2011-000766. PMCID: PMC3422831
  19. Jonnalagadda S, Peeler R, Topham P. Discovering opinion leaders for medical topics using news articles. Journal of Biomedical Semantics. 2012; 3 (1), 2. PMCID: PMC3338075 [Highly Accessed]
  20. ^Wagholikar K, Torii M, Jonnalagadda S, Liu H. Feasibility of pooling annotated corpora for clinical concept extraction. AMIA Clinical Research Informatics Summit, 2012. 2012:38. PMCID: PMC3392069
  21. Jonnalagadda S, Cohen T, Wu S, Gonzalez G. Enhancing clinical concept extraction with distributional semantics. Journal of Biomedical Informatics. 2012, 45(1):129-140. PMCID: PMC3272090
  22. ^Jonnalagadda S, Gonzalez G.  BioSimplify: an open source sentence simplification engine to improve recall in automatic biomedical information extraction.  Annual Proceedings of American Medical Informatics Association. 2010. PMCID: PMC3041388
  23. Jonnalagadda S, Topham P.  NEMO: Extraction and normalization of organization names from PubMed affiliation strings.  Journal of Biomedical Discovery and Collaboration. 2010; 5:50-75.  PMCID: PMC2990275.
  24. Jonnalagadda S, Leaman R, Cohen C, Gonzalez G.  A distributional semantics approach to simultaneous recognition of multiple classes of named entities.  Computational Linguistics and Intelligent Text Processing/Lecture Notes in Computer Science. 2010; 6008/2010:224-235.
  25. Hakenberg J, Leaman R, Vo N, Jonnalagadda S, Sullivan R, Miller C, Tari L, Baral C, Gonzalez G.  Efficient extraction of protein-protein interactions from full-text articles.  IEEE/ACM Transactions on Computational Biology and BioInformatics. 2010. PMID: 20498514