Shawn N Murphy

Summary

Affiliation: Harvard University
Country: USA

Publications

  1. pmc Serving the enterprise and beyond with informatics for integrating biology and the bedside (i2b2)
    Shawn N Murphy
    Laboratory of Computer Science, Massachusetts General Hospital, Boston, Massachusetts 02129, USA
    J Am Med Inform Assoc 17:124-30. 2010
  2. pmc Strategies for maintaining patient privacy in i2b2
    Shawn N Murphy
    Laboratory of Computer Science, Massachusetts General Hospital, Boston, Massachusetts, USA
    J Am Med Inform Assoc 18:i103-8. 2011
  3. pmc Improving case definition of Crohn's disease and ulcerative colitis in electronic medical records using natural language processing: a novel informatics approach
    Ashwin N Ananthakrishnan
    Gastrointestinal Unit, Massachusetts General Hospital, Boston, Massachusetts 02114, USA
    Inflamm Bowel Dis 19:1411-20. 2013
  4. pmc Normalization of plasma 25-hydroxy vitamin D is associated with reduced risk of surgery in Crohn's disease
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, MA 02114, USA
    Inflamm Bowel Dis 19:1921-7. 2013
  5. pmc Colonoscopy is associated with a reduced risk for colon cancer and mortality in patients with inflammatory bowel diseases
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, Massachusetts Harvard Medical School, Boston, Massachusetts Department of Medicine, Massachusetts General Hospital, Boston, Massachusetts Electronic address
    Clin Gastroenterol Hepatol 13:322-329.e1. 2015
  6. pmc Mortality and extraintestinal cancers in patients with primary sclerosing cholangitis and inflammatory bowel disease
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, MA, United States Harvard Medical School, Boston, MA, United States Electronic address
    J Crohns Colitis 8:956-63. 2014
  7. pmc Serum inflammatory markers and risk of colorectal cancer in patients with inflammatory bowel diseases
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, Massachusetts Harvard Medical School, Boston, Massachusetts Electronic address
    Clin Gastroenterol Hepatol 12:1342-8.e1. 2014
  8. doi request reprint Limbic system white matter microstructure and long-term treatment outcome in major depressive disorder: a diffusion tensor imaging study using legacy data
    Wouter S Hoogenboom
    Depression Clinical and Research Program, Department of Psychiatry, Massachusetts General Hospital, Boston, MA, USA
    World J Biol Psychiatry 15:122-34. 2014
  9. pmc Mode of childbirth and long-term outcomes in women with inflammatory bowel diseases
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Crohn s and Colitis Center, Massachusetts General Hospital, 165 Cambridge Street, 9th Floor, Boston, MA, 02114, USA
    Dig Dis Sci 60:471-7. 2015
  10. pmc Association between reduced plasma 25-hydroxy vitamin D and increased risk of cancer in patients with inflammatory bowel diseases
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, Massachusetts Harvard Medical School, Boston, Massachusetts Electronic address
    Clin Gastroenterol Hepatol 12:821-7. 2014

Collaborators

Detail Information

Publications34

  1. pmc Serving the enterprise and beyond with informatics for integrating biology and the bedside (i2b2)
    Shawn N Murphy
    Laboratory of Computer Science, Massachusetts General Hospital, Boston, Massachusetts 02129, USA
    J Am Med Inform Assoc 17:124-30. 2010
    ..The current version of this software has been released into the public domain and is available at the URL: http://www.i2b2.org/software...
  2. pmc Strategies for maintaining patient privacy in i2b2
    Shawn N Murphy
    Laboratory of Computer Science, Massachusetts General Hospital, Boston, Massachusetts, USA
    J Am Med Inform Assoc 18:i103-8. 2011
    ..Some of these challenges arise from a misperception that the problem should be solved technically when actually the problem needs a holistic solution...
  3. pmc Improving case definition of Crohn's disease and ulcerative colitis in electronic medical records using natural language processing: a novel informatics approach
    Ashwin N Ananthakrishnan
    Gastrointestinal Unit, Massachusetts General Hospital, Boston, Massachusetts 02114, USA
    Inflamm Bowel Dis 19:1411-20. 2013
    ....
  4. pmc Normalization of plasma 25-hydroxy vitamin D is associated with reduced risk of surgery in Crohn's disease
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, MA 02114, USA
    Inflamm Bowel Dis 19:1921-7. 2013
    ..Vitamin D may have an immunologic role in Crohn's disease (CD) and ulcerative colitis (UC). Retrospective studies suggested a weak association between vitamin D status and disease activity but have significant limitations...
  5. pmc Colonoscopy is associated with a reduced risk for colon cancer and mortality in patients with inflammatory bowel diseases
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, Massachusetts Harvard Medical School, Boston, Massachusetts Department of Medicine, Massachusetts General Hospital, Boston, Massachusetts Electronic address
    Clin Gastroenterol Hepatol 13:322-329.e1. 2015
    ..However, there have been no reports of whether colonoscopy examination reduces the risk for CRC in patients with IBD...
  6. pmc Mortality and extraintestinal cancers in patients with primary sclerosing cholangitis and inflammatory bowel disease
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, MA, United States Harvard Medical School, Boston, MA, United States Electronic address
    J Crohns Colitis 8:956-63. 2014
    ..PSC is associated with increased risk for colorectal cancer (CRC). However, whether PSC is associated with increased risk of extraintestinal cancers or affects mortality in an IBD cohort has not been examined previously...
  7. pmc Serum inflammatory markers and risk of colorectal cancer in patients with inflammatory bowel diseases
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, Massachusetts Harvard Medical School, Boston, Massachusetts Electronic address
    Clin Gastroenterol Hepatol 12:1342-8.e1. 2014
    ..No prior studies have examined association between C-reactive protein (CRP) or erythrocyte sedimentation rate (ESR) elevation and risk of CRC in an IBD cohort...
  8. doi request reprint Limbic system white matter microstructure and long-term treatment outcome in major depressive disorder: a diffusion tensor imaging study using legacy data
    Wouter S Hoogenboom
    Depression Clinical and Research Program, Department of Psychiatry, Massachusetts General Hospital, Boston, MA, USA
    World J Biol Psychiatry 15:122-34. 2014
    ..We used data collected as part of routine clinical care to study white matter integrity of the brain's limbic system and its association to treatment response...
  9. pmc Mode of childbirth and long-term outcomes in women with inflammatory bowel diseases
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Crohn s and Colitis Center, Massachusetts General Hospital, 165 Cambridge Street, 9th Floor, Boston, MA, 02114, USA
    Dig Dis Sci 60:471-7. 2015
    ..Inflammatory bowel diseases [IBD; Crohn's disease (CD), ulcerative colitis] often affect women in their reproductive years. Few studies have analyzed the impact of mode of childbirth on long-term IBD outcomes...
  10. pmc Association between reduced plasma 25-hydroxy vitamin D and increased risk of cancer in patients with inflammatory bowel diseases
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, Massachusetts Harvard Medical School, Boston, Massachusetts Electronic address
    Clin Gastroenterol Hepatol 12:821-7. 2014
    ..The effects of low plasma 25-hydroxy vitamin D (25[OH]D) on outcomes other than bone health are understudied in patients with IBD. We examined the association between plasma level of 25(OH)D and risk of cancers in patients with IBD...
  11. pmc Thromboprophylaxis is associated with reduced post-hospitalization venous thromboembolic events in patients with inflammatory bowel diseases
    Ashwin N Ananthakrishnan
    Division of Gastroenterology, Massachusetts General Hospital, Boston, Massachusetts Harvard Medical School, Boston, Massachusetts Electronic address
    Clin Gastroenterol Hepatol 12:1905-10. 2014
    ..We analyzed the frequency of VTE after IBD-related hospitalization, risk factors for post-hospitalization VTE, and the efficacy of prophylaxis in preventing post-hospitalization VTE...
  12. doi request reprint An electronic health records study of long-term weight gain following antidepressant use
    Sarah R Blumenthal
    Center for Experimental Drugs and Diagnostics, Department of Psychiatry, Massachusetts General Hospital, Boston2Psychiatric and Neurodevelopmental Genetics Unit, Department of Psychiatry, Massachusetts General Hospital, Boston
    JAMA Psychiatry 71:889-96. 2014
    ..Short-term studies suggest antidepressants are associated with modest weight gain but little is known about longer-term effects and differences between individual medications in general clinical populations...
  13. pmc Lipid and lipoprotein levels and trend in rheumatoid arthritis compared to the general population
    Katherine P Liao
    Brigham and Women s Hospital, Boston, Massachusetts
    Arthritis Care Res (Hoboken) 65:2046-50. 2013
    ..Determining these differences is important in understanding the role of lipids in CV risk in RA...
  14. pmc Apps to display patient data, making SMART available in the i2b2 platform
    Nich Wattanasin
    Partners HealthCare System, Boston, MA, USA
    AMIA Annu Symp Proc 2012:960-9. 2012
    ..In i2b2, viewing the patient in an EMR-like view enables a natural-feeling medical review process for each patient...
  15. pmc QT interval and antidepressant use: a cross sectional study of electronic health records
    Victor M Castro
    Partners Research Computing, Partners HealthCare System, One Constitution Center, Boston, MA 02129, USA
    BMJ 346:f288. 2013
    ..To quantify the impact of citalopram and other selective serotonin reuptake inhibitors on corrected QT interval (QTc), a marker of risk for ventricular arrhythmia, in a large and diverse clinical population...
  16. pmc Stratification of risk for hospital admissions for injury related to fall: cohort study
    Victor M Castro
    Center for Experimental Drugs and Diagnostics, Department of Psychiatry, Massachusetts General Hospital, Simches Research Building 6th floor, 185 Cambridge St, Boston, MA 20114, USA Partners Research Computing, Partners HealthCare System, One Constitution Center, Boston, MA 02129, USA Laboratory of Computer Science and Department of Neurology, Massachusetts General Hospital, Boston, MA 02114, USA
    BMJ 349:g5863. 2014
    ..To determine whether the ability to stratify an individual patient's hazard for falling could facilitate development of focused interventions aimed at reducing these adverse outcomes...
  17. pmc Scalable Collaborative Infrastructure for a Learning Healthcare System (SCILHS): architecture
    Kenneth D Mandl
    Children s Hospital Informatics Program at Harvard MIT Health Sciences and Technology, Boston, Massachusetts, USA Center for Biomedical Informatics, Harvard Medical School, Boston, Massachusetts, USA Harvard Catalyst, Harvard Medical School, Boston, Massachusetts, USA Department of Pediatrics, Harvard Medical School, Boston, Massachusetts, USA
    J Am Med Inform Assoc 21:615-20. 2014
    ..SCILHS adapts and extends an existing national research network formed on an advanced IT infrastructure built with open source, free, modular components. ..
  18. pmc SHRINE: enabling nationally scalable multi-site disease studies
    Andrew J McMurry
    Center for Biomedical Informatics, Harvard Medical School, Boston, Massachusetts, United States of America
    PLoS ONE 8:e55811. 2013
    ..The wide range of study objectives and growing adoption suggest that SHRINE may be applicable beyond the research uses and participating hospitals named in this report...
  19. pmc Query Health: standards-based, cross-platform population health surveillance
    Jeffrey G Klann
    Partners HealthCare, Boston, Massachusetts, USA Harvard Medical School, Boston, Massachusetts, USA Massachusetts General Hospital, Boston, Massachusetts, USA
    J Am Med Inform Assoc 21:650-6. 2014
    ..Here we review Query Health activities, including a standards-based methodology, an open-source reference implementation, and three pilot projects...
  20. pmc Association between low density lipoprotein and rheumatoid arthritis genetic factors with low density lipoprotein levels in rheumatoid arthritis and non-rheumatoid arthritis controls
    Katherine P Liao
    Division of Rheumatology, Immunology and Allergy, Brigham and Women s Hospital, Boston, Massachusetts, USA
    Ann Rheum Dis 73:1170-5. 2014
    ..Our objective was to determine the association of established LDL and RA genetic alleles with LDL levels in RA cases compared with non-RA controls...
  21. pmc Feasibility of studying brain morphology in major depressive disorder with structural magnetic resonance imaging and clinical data from the electronic medical record: a pilot study
    Wouter S Hoogenboom
    Depression Clinical and Research Program, Department of Psychiatry, Massachusetts General Hospital, Boston, MA 02114, United States
    Psychiatry Res 211:202-13. 2013
    ..The use of EMR data for psychiatric research may provide a timely and cost-effective approach with the potential to generate large study samples reflective of the real population with the illness studied...
  22. pmc The SMART Platform: early experience enabling substitutable applications for electronic health records
    Kenneth D Mandl
    Children s Hospital Informatics Program at Harvard MIT Health Sciences and Technology, Boston, Massachusetts, USA
    J Am Med Inform Assoc 19:597-603. 2012
    ..The authors believe this is a promising approach to driving down healthcare costs, supporting standards evolution, accommodating differences in care workflow, fostering competition in the market, and accelerating innovation...
  23. pmc Extracting principal diagnosis, co-morbidity and smoking status for asthma research: evaluation of a natural language processing system
    Qing T Zeng
    Decision Systems Group, Brigham and Women s Hospital, Boston, MA, USA
    BMC Med Inform Decis Mak 6:30. 2006
    ..The text descriptions in electronic medical records are a rich source of information. We have developed a Health Information Text Extraction (HITEx) tool and used it to extract key findings for a research study on airways disease...
  24. pmc Modeling disease severity in multiple sclerosis using electronic health records
    Zongqi Xia
    Department of Neurology, Brigham and Women s Hospital, Boston, Massachusetts, United States of America Harvard Medical School, Boston, Massachusetts, United States of America Program in Medical and Population Genetics, Broad Institute, Cambridge, Massachusetts, United States of America
    PLoS ONE 8:e78927. 2013
    ....
  25. doi request reprint Taking advantage of continuity of care documents to populate a research repository
    Jeffrey G Klann
    Partners HealthCare, Boston, Massachusetts, USA Harvard Medical School, Boston, Massachusetts, USA Massachusetts General Hospital, Boston, Massachusetts, USA
    J Am Med Inform Assoc 22:370-9. 2015
    ..We validate this approach by creating a small repository at Partners Healthcare automatically from C-CDA documents...
  26. doi request reprint Current state of information technologies for the clinical research enterprise across academic medical centers
    Shawn N Murphy
    Partners HealthCare System, Inc, Research Computing, Charlestown, Massachusetts, USA
    Clin Transl Sci 5:281-4. 2012
    ..These differences appeared to be partially due to a set of openly available applications that have emerged to occupy an important place in the landscape of clinical research enterprise-level support at AMC's...
  27. pmc TYK2 Protein-Coding Variants Protect against Rheumatoid Arthritis and Autoimmunity, with No Evidence of Major Pleiotropic Effects on Non-Autoimmune Complex Traits
    Dorothée Diogo
    Division of Rheumatology, Immunology, and Allergy, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts, United States of America Division of Genetics, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts, United States of America Program in Medical and Population Genetics, Broad Institute, Cambridge, Massachusetts, United States of America Partners HealthCare Center for Personalized Genetic Medicine, Boston, Massachusetts, United States of America
    PLoS ONE 10:e0122271. 2015
    ..Together, our results demonstrate the role of TYK2 in the pathogenesis of RA, SLE and IBD, and provide supporting evidence for TYK2 as a promising drug target for the treatment of autoimmune diseases. ..
  28. pmc Antidepressant response in patients with major depression exposed to NSAIDs: a pharmacovigilance study
    Patience J Gallagher
    Psychiatric and Neurodevelopmental Genetics Unit, Department of Psychiatry, Massachusetts General Hospital, Boston, USA
    Am J Psychiatry 169:1065-72. 2012
    ..CONCLUSIONS These results support an association between NSAID use and poorer antidepressant outcomes in major depressive disorder but indicate that some of the observed effect may be a result of confounding...
  29. pmc A translational engine at the national scale: informatics for integrating biology and the bedside
    Isaac S Kohane
    Harvard Medical School Center for Biomedical Informatics, Boston, Massachusetts 02115, USA
    J Am Med Inform Assoc 19:181-5. 2012
    ..i2b2 has been adopted by over 60 academic health centers internationally...
  30. pmc The Shared Health Research Information Network (SHRINE): a prototype federated query tool for clinical data repositories
    Griffin M Weber
    Information Technology, Harvard Medical School, 107 Avenue Louis Pasteur, Boston, MA 02115, USA
    J Am Med Inform Assoc 16:624-30. 2009
    ..This will guide us in creating a future technical architecture that is scalable to a national level, compliant with ethical guidelines, and protective of the interests of the participating hospitals...
  31. pmc Computing health quality measures using Informatics for Integrating Biology and the Bedside
    Jeffrey G Klann
    Laboratory of Computer Science, Massachusetts General Hospital, Boston, MA 02129, United States
    J Med Internet Res 15:e75. 2013
    ..Informatics for Integrating Biology and the Bedside (i2b2) is one of the analytical databases used as part of the Office of the National Coordinator (ONC)'s Query Health platform to move toward this goal...
  32. pmc Similar risk of depression and anxiety following surgery or hospitalization for Crohn's disease and ulcerative colitis
    Ashwin N Ananthakrishnan
    Crohn s and Colitis Center, Division of Gastroenterology, Massachusetts General Hospital, Boston, MA 02114, USA
    Am J Gastroenterol 108:594-601. 2013
    ..The objective of this study is to examine whether there is a difference in the risk of psychiatric comorbidity following surgery in CD and UC...
  33. pmc Rapid identification of myocardial infarction risk associated with diabetes medications using electronic medical records
    John S Brownstein
    Children s Hospital Informatics Program at the Harvard MIT Division of Health Sciences and Technology, Boston, Massachusetts, USA
    Diabetes Care 33:526-31. 2010
    ..Our use of usual care electronic data sources from a large hospital network represents an innovative approach to rapid safety signal detection that may enable more effective postmarketing drug surveillance...
  34. pmc Genetic basis of autoantibody positive and negative rheumatoid arthritis risk in a multi-ethnic cohort derived from electronic health records
    Fina Kurreeman
    Division of Rheumatology, Immunology, and Allergy and Division of Genetics, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts 02115, USA Program in Medical and Population Genetics, Broad Institute, Cambridge, Massachusetts 02142, USA
    Am J Hum Genet 88:57-69. 2011
    ....