Carol Friedman

BioOHDSI Publications

Carol Friedman, PhD
Professor and Graduate Program Director, Department of Biomedical Informatics
Columbia University

Dr. Carol Friedman is a Professor of Biomedical Informatics at Columbia University in New York, and Director of the Department’s Graduate Training Program. She received her M.A. and PhD in Computer Science from the Courant Institute of Mathematics at New York University where her research focused on the natural language processing (NLP) of complex language structures. After receiving her PhD degree, Dr. Friedman joined the Department of Biomedical Informatics at Columbia as an Assistant Professor. Dr. Friedman is a recognized pioneer in NLP within the biomedical domain with an established national and international reputation. Her current research is devoted to use of NLP methodology to obtain executable data and knowledge from clinical reports and biomedical text, to be employed for discovery and patient care, with a special focus on pharmacovigilance and medication safety, two crucial biomedical applications.
She was one of the first researchers to demonstrate the value of NLP for a broad range of clinical and biomedical applications that include decision support, automated encoding, vocabulary development, clinical research, data-mining, discovery, error detection, genomics research, and pharmacovigilance. She also was one of the first to demonstrate that a general NLP system could be used to improve actual patient care. In her early work, she helped design the Clinical Patient Repository at NYPH, which is still in use.

Dr. Friedman has over 120 publications consisting of journal articles, conference proceedings, and book chapters, and also holds several patents associated with NLP technology. She is a fellow of the American College of Medical Informatics as well as of the American Academy of Medicine. She has served on the Editorial Boards of several journals in the biomedical field, and was a member of the Board of Regents and the Board of Counselors of the National Library of Medicine. In 2010, she received the Donald A. B. Lindbergh Award for Innovation in Biomedical Informatics from the American Medical Informatics Association.

Salmasian H, Tran TH, Chase HS, Friedman C. Medication-indication knowledge bases: a systematic review and critical appraisal. J Am Med Inform Assoc. 2015 Sep 2. pii: ocv129. doi: 10.1093/jamia/ocv129. [Epub ahead of print] Review.
PubMed PMID: 26335981.

Adams H, Friedman C, Finkelstein J. Automated Determination of Publications Related to Adverse Drug Reactions in PubMed. AMIA Jt Summits Transl Sci Proc. 2015 Mar 25;2015:31-5. eCollection 2015. PubMed PMID: 26306227; PubMed Central
PMCID: PMC4525279.

Li Y, Ryan PB, Wei Y, Friedman C. A Method to Combine Signals from Spontaneous Reporting Systems and Observational Healthcare Data to Detect Adverse Drug Reactions. Drug Saf. 2015 Oct;38(10):895-908. doi: 10.1007/s40264-015-0314-8.
PubMed PMID: 26153397; PubMed Central PMCID: PMC4579260.

Vilar S, Uriarte E, Santana L, Friedman C, Tatonetti NP. State of the art and development of a drug-drug interaction large scale predictor based on 3D pharmacophoric similarity. Curr Drug Metab. 2014;15(5):490-501. PubMed PMID:

Vilar S, Ryan PB, Madigan D, Stang PE, Schuemie MJ, Friedman C, Tatonetti NP, Hripcsak G. Similarity-based modeling applied to signal detection in pharmacovigilance. CPT Pharmacometrics Syst Pharmacol. 2014 Sep 24;3:e137. doi:
10.1038/psp.2014.35. PubMed PMID: 25250527; PubMed Central PMCID: PMC4211266.

Vilar S, Uriarte E, Santana L, Lorberbaum T, Hripcsak G, Friedman C, Tatonetti NP. Similarity-based modeling in large-scale prediction of drug-drug interactions. Nat Protoc. 2014 Sep;9(9):2147-63. doi: 10.1038/nprot.2014.151.
Epub 2014 Aug 14. PubMed PMID: 25122524; PubMed Central PMCID: PMC4422192.

Xu H, Aldrich MC, Chen Q, Liu H, Peterson NB, Dai Q, Levy M, Shah A, Han X, Ruan X, Jiang M, Li Y, Julien JS, Warner J, Friedman C, Roden DM, Denny JC. Validating drug repurposing signals using electronic health records: a case study
of metformin associated with reduced cancer mortality. J Am Med Inform Assoc. 2015 Jan;22(1):179-91. doi: 10.1136/amiajnl-2014-002649. Epub 2014 Jul 22. PubMed PMID: 25053577; PubMed Central PMCID: PMC4433365.

Salmasian H, Tran TH, Friedman C. Developing a formal representation for medication appropriateness criteria. AMIA Annu Symp Proc. 2014 Nov 14;2014:1911-9. eCollection 2014. PubMed PMID: 25954464; PubMed Central PMCID: PMC4420008.

Overby CL, Weng C, Haerian K, Perotte A, Friedman C, Hripcsak G. Evaluation considerations for EHR-based phenotyping algorithms: A case study for drug-induced liver injury. AMIA Jt Summits Transl Sci Proc. 2013 Mar 18;2013:130-4. eCollection 2013. PubMed PMID: 24303321; PubMed Central PMCID: PMC3814479.

Salmasian H, Freedberg DE, Friedman C. Deriving comorbidities from medical records using natural language processing. J Am Med Inform Assoc. 2013 Dec;20(e2):e239-42. doi: 10.1136/amiajnl-2013-001889. Epub 2013 Oct 31. PubMed PMID: 24177145; PubMed Central PMCID: PMC3861932.

Freedberg DE, Salmasian H, Friedman C, Abrams JA. Proton pump inhibitors and risk for recurrent Clostridium difficile infection among inpatients. Am J Gastroenterol. 2013 Nov;108(11):1794-801. doi: 10.1038/ajg.2013.333. Epub 2013
Sep 24. PubMed PMID: 24060760; PubMed Central PMCID: PMC3966060.

Li Y, Salmasian H, Vilar S, Chase H, Friedman C, Wei Y. A method for controlling complex confounding effects in the detection of adverse drug reactions using electronic health records. J Am Med Inform Assoc. 2014
Mar-Apr;21(2):308-14. doi: 10.1136/amiajnl-2013-001718. Epub 2013 Aug 1. PubMed PMID: 23907285; PubMed Central PMCID: PMC3932454.

Overby CL, Pathak J, Gottesman O, Haerian K, Perotte A, Murphy S, Bruce K, Johnson S, Talwalkar J, Shen Y, Ellis S, Kullo I, Chute C, Friedman C, Bottinger E, Hripcsak G, Weng C. A collaborative approach to developing an electronic health record phenotyping algorithm for drug-induced liver injury. J Am Med Inform Assoc. 2013 Dec;20(e2):e243-52. doi: 10.1136/amiajnl-2013-001930. Epub 2013 Jul 9. PubMed PMID: 23837993; PubMed Central PMCID: PMC3861914.

Vilar S, Uriarte E, Santana L, Tatonetti NP, Friedman C. Detection of drug-drug interactions by modeling interaction profile fingerprints. PLoS One.2013;8(3):e58321. doi: 10.1371/journal.pone.0058321. Epub 2013 Mar 8. PubMed PMID: 23520498; PubMed Central PMCID: PMC3592896.

Haerian K, Salmasian H, Friedman C. Methods for identifying suicide or suicidal ideation in EHRs. AMIA Annu Symp Proc. 2012;2012:1244-53. Epub 2012 Nov 3. PubMed PMID: 23304402; PubMed Central PMCID: PMC3540459.

Salmasian H, Freedberg DE, Abrams JA, Friedman C. An automated tool for detecting medication overuse based on the electronic health records.Pharmacoepidemiol Drug Saf. 2013 Feb;22(2):183-9. doi: 10.1002/pds.3387. Epub 2012 Dec 12. PubMed PMID: 23233423; PubMed Central PMCID: PMC3566345.

Harpaz R, Vilar S, Dumouchel W, Salmasian H, Haerian K, Shah NH, Chase HS, Friedman C. Combing signals from spontaneous reports and electronic health records for detection of adverse drug reactions. J Am Med Inform Assoc. 2013 May 1;20(3):413-9. doi: 10.1136/amiajnl-2012-000930. Epub 2012 Oct 31. PubMed PMID: 23118093; PubMed Central PMCID: PMC3628045.

Vilar S, Harpaz R, Santana L, Uriarte E, Friedman C. Enhancing adverse drug event detection in electronic health records using molecular structure similarity: application to pancreatitis. PLoS One. 2012;7(7):e41471. doi: 10.1371/journal.pone.0041471. Epub 2012 Jul 24. PubMed PMID: 22911794; PubMed Central PMCID: PMC3404072.

Haerian K, Varn D, Vaidya S, Ena L, Chase HS, Friedman C. Detection of pharmacovigilance-related adverse events using electronic health records and automated methods. Clin Pharmacol Ther. 2012 Aug;92(2):228-34. doi:10.1038/clpt.2012.54. Epub 2012 Jun 20. PubMed PMID: 22713699; PubMed Central PMCID: PMC3685297.

Vilar S, Harpaz R, Uriarte E, Santana L, Rabadan R, Friedman C. Drug-drug interaction through molecular structure similarity analysis. J Am Med Inform Assoc. 2012 Nov-Dec;19(6):1066-74. doi: 10.1136/amiajnl-2012-000935. Epub 2012 May 30. PubMed PMID: 22647690; PubMed Central PMCID: PMC3534468.

Harpaz R, DuMouchel W, Shah NH, Madigan D, Ryan P, Friedman C. Novel data-mining methodologies for adverse drug event discovery and analysis. Clin Pharmacol Ther. 2012 Jun;91(6):1010-21. doi: 10.1038/clpt.2012.50. Review. PubMed PMID: 22549283; PubMed Central PMCID: PMC3675775.

Wang W, Haerian K, Salmasian H, Harpaz R, Chase H, Friedman C. A drug-adverse event extraction algorithm to support pharmacovigilance knowledge mining from PubMed citations. AMIA Annu Symp Proc. 2011;2011:1464-70. Epub 2011 Oct 22. PubMed PMID: 22195210; PubMed Central PMCID: PMC3243206.

Li Y, Salmasian H, Harpaz R, Chase H, Friedman C. Determining the reasons for medication prescriptions in the EHR using knowledge and natural language processing. AMIA Annu Symp Proc. 2011;2011:768-76. Epub 2011 Oct 22. PubMed PMID:
22195134; PubMed Central PMCID: PMC3243251.

Vilar S, Harpaz R, Chase HS, Costanzi S, Rabadan R, Friedman C. Facilitating adverse drug event detection in pharmacovigilance databases using molecular structure similarity: application to rhabdomyolysis. J Am Med Inform Assoc. 2011 Dec;18 Suppl 1:i73-80. doi: 10.1136/amiajnl-2011-000417. Epub 2011 Sep 21. PubMed PMID: 21946238; PubMed Central PMCID: PMC3241177.

Wang X, Chase HS, Li J, Hripcsak G, Friedman C. Integrating heterogeneous knowledge sources to acquire executable drug-related knowledge. AMIA Annu Symp Proc. 2010 Nov 13;2010:852-6. PubMed PMID: 21347099; PubMed Central PMCID:

Harpaz R, Haerian K, Chase HS, Friedman C. Statistical Mining of Potential Drug Interaction Adverse Effects in FDA’s Spontaneous Reporting System. AMIA Annu Symp Proc. 2010 Nov 13;2010:281-5. PubMed PMID: 21346985; PubMed Central PMCID:

Harpaz R, Perez H, Chase HS, Rabadan R, Hripcsak G, Friedman C. Biclustering of adverse drug events in the FDA’s spontaneous reporting system. Clin Pharmacol Ther. 2011 Feb;89(2):243-50. doi: 10.1038/clpt.2010.285. Epub 2010 Dec 29. PubMed PMID: 21191383; PubMed Central PMCID: PMC3282185.

Harpaz R, Chase HS, Friedman C. Mining multi-item drug adverse effect associations in spontaneous reporting systems. BMC Bioinformatics. 2010 Oct 28;11 Suppl 9:S7. doi: 10.1186/1471-2105-11-S9-S7. PubMed PMID: 21044365; PubMed Central PMCID: PMC2967748.

Hripcsak G, Soulakis ND, Li L, Morrison FP, Lai AM, Friedman C, Calman NS, Mostashari F. Syndromic surveillance using ambulatory electronic health records. J Am Med Inform Assoc. 2009 May-Jun;16(3):354-61. doi: 10.1197/jamia.M2922. Epub 2009 Mar 4. PubMed PMID: 19261941; PubMed Central PMCID: PMC2732227.

Wang X, Hripcsak G, Markatou M, Friedman C. Active computerized pharmacovigilance using natural language processing, statistics, and electronic health records: a feasibility study. J Am Med Inform Assoc. 2009 May-Jun;16(3):328-37. doi: 10.1197/jamia.M3028. Epub 2009 Mar 4. PubMed PMID: 19261932; PubMed Central PMCID: PMC2732239.

Wang X, Hripcsak G, Friedman C. Characterizing environmental and phenotypic associations using information theory and electronic health records. BMC Bioinformatics. 2009 Sep 17;10 Suppl 9:S13. doi: 10.1186/1471-2105-10-S9-S13. PubMed PMID: 19761567; PubMed Central PMCID: PMC2745684.

Wang X, Chase H, Markatou M, Hripcsak G, Friedman C. Selecting information in electronic health records for knowledge acquisition. J Biomed Inform. 2010 Aug;43(4):595-601. doi: 10.1016/j.jbi.2010.03.011. Epub 2010 Mar 31. PubMed PMID:
20362071; PubMed Central PMCID: PMC2902678.