BYM 516 E
Basics of Biomedical Informatics
2014-2015
Dr. Serkan Türkeli
Dr. Serkan Türkeli
E-posta: serkanturkeli@yahoo.com/
sturkeli@itu.edu.tr
Internet: serkanturkeli.minmba.com
Scope, Purpose and
Description
This course is designed to provide the
student an overview of the medical
informatics and h...
Required Readings Tim Benson, Principles of Health
Interoperability: HL7 and SNOMED, Springer
2009 978-1-84882-802-5.
Jose...
Grading
Criteria
Students will be evaluated using the following criteria:
Active, Meaningful Participation 25%
Midterm Pro...
Course Schedule
Week 1: Introduction and Overview
Course Introduction
Student Introduction
What is Medical Informatics?
We...
Week 8: Modeling of HIS (health information system)
Week 9: Standards in medical informatics
Week 10: Medical Decision Sup...
Objectives and Goal
At the end of this course, students will be able to
• Define medical informatics
• Define information ...
Resources 1: Online resources
1. AHRQ National Resource Center for Health IT
http://healthit.ahrq.gov/
2. National Coordin...
Resources 2: Major professional
organizations
1. American Medical Informatics Association (AMIA)
http://www.amia.org/
2. H...
Resources 3: Academic journals
1. Journal of the American Medical Informatics Association (JAMIA)
http://www.jamia.org/
2....
First assignment
Bernstam, E. V., Smith, J. W., & Johnson, T. R. (2010).
What is Biomedical Informatics? Journal of Biomed...
Articles 1: Introduction to
Medical Informatics
1) Haux R. Medical informatics: past, present, future. Int J Med
Inform. 2...
Articles 2: EHR
1) Fernandopulle, R. and N. Patel (2010). "How The Electronic Health
Record Did Not Measure Up To The Dema...
Articles 3: Electronic Health
Record Safety and Regulation
1) Koppel R, Metlay JP, Cohen A, Abaluck B, Localio AR, Kimmel ...
Articles 4: Meaningful Use of Electronic
Health Records and Impact on the EHR
Market
1) Blumenthal, D. (2010). "Launching ...
Articles 5: Health Information
Technology and Health Reform
1) Fisher, E. S., M. B. McClellan, et al. (2009). "Fostering A...
Articles 6: Interoperability
1) Kuperman, G. J. Health-information exchange: why are we doing it, and what are we doing?
J...
Articles 7: Process and Workflow
1) Zheng K, Haftel HM, Hirschl RB, O'Reilly M, Hanauer DA. Quantifying the impact of
heal...
Article 7: Natural Language
Processing
1) Murff, H. J., F. FitzHenry, et al. (2011). "Automated Identification of
Postoper...
Articles 8: mHealth
1) Hawn, C. (2009). "Take Two Aspirin And Tweet Me In The Morning: How Twitter,
Facebook, And Other So...
Contact
Contact: Dr. Serkan Türkeli
E-posta: serkanturkeli@yahoo.com
sturkeli@itu.edu.tr
Office hour Wed. 13.30-17.30 (Ple...
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Giris basics of biomedical informatics general

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At the end of this course, students will be able to
• Define medical informatics
• Define information management, information technology and informatics
• Define concepts of medical informatics
• Selecting best techniques to manage a medical informatics project.

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Giris basics of biomedical informatics general

  1. 1. BYM 516 E Basics of Biomedical Informatics 2014-2015 Dr. Serkan Türkeli
  2. 2. Dr. Serkan Türkeli E-posta: serkanturkeli@yahoo.com/ sturkeli@itu.edu.tr Internet: serkanturkeli.minmba.com
  3. 3. Scope, Purpose and Description This course is designed to provide the student an overview of the medical informatics and how it relates to healthcare operations. This course introduces students to the procedures, tools, and techniques used in planning and managing medical informatics projects. Students will learn computer- based tools in health care, human computer interfaces, an introduction to computer applications in medicine, electronic health record, database, knowledge-based systems, medical decision and analysis, introduction to health information systems: communication and networks, telemedicine and Internet applications, advance topics in biomedical informatics.
  4. 4. Required Readings Tim Benson, Principles of Health Interoperability: HL7 and SNOMED, Springer 2009 978-1-84882-802-5. Joseph Tan, Healthcare Information Systems and Informatics: Research and Practices
  5. 5. Grading Criteria Students will be evaluated using the following criteria: Active, Meaningful Participation 25% Midterm Project Written Deliverable and Presentation 35% Final Project Written Deliverable and Presentation 40%
  6. 6. Course Schedule Week 1: Introduction and Overview Course Introduction Student Introduction What is Medical Informatics? Week 2: Data, Information, Knowledge, Wisdom Hierarchy Week 3: Electronic Medical (Health) Records Week 4: Hospital information systems Week 5: Interoperability (HL7, Medical Terminology… ) Week 6: Clinical support systems Week 7: Midterm1
  7. 7. Week 8: Modeling of HIS (health information system) Week 9: Standards in medical informatics Week 10: Medical Decision Support Systems What makes an organization intelligent? Week 11: Telemedicine Week 12: Privacy and security in healthcare Week 13: Final Projects Presentation Week 14: Final
  8. 8. Objectives and Goal At the end of this course, students will be able to • Define medical informatics • Define information management, information technology and informatics • Define concepts of medical informatics • Selecting best techniques to manage a medical informatics project.
  9. 9. Resources 1: Online resources 1. AHRQ National Resource Center for Health IT http://healthit.ahrq.gov/ 2. National Coordinator for Health Information Technology http://healthit.hhs.gov/ 3. Health IT Stimulus News http://www.ihealthbeat.org/ 4. OpenClinical http://www.openclinical.org/ 5. CPOE.org http://www.cpoe.org/ 6. Certification Commission for Health Information Technology (CCHIT) http://www.cchit.org/
  10. 10. Resources 2: Major professional organizations 1. American Medical Informatics Association (AMIA) http://www.amia.org/ 2. Health Information and Management System Society (HIMSS) http://www.himss.org/ 3. International Medical Informatics Association (IMIA) http://www.imia.org/ 4. Certi cation Commission for Healthcare Information Technology (CCHIT) http://www.cchit.org/ 5. Health Level 7 (HL7) http://www.hl7.org/
  11. 11. Resources 3: Academic journals 1. Journal of the American Medical Informatics Association (JAMIA) http://www.jamia.org/ 2. Journal of Medical Internet Research (JMIR) http://www.jmir.org/ 3. Journal of Biomedical Science (JBS) http://www.springerlink.com/content/112912/ 4. International Journal of Medical Informatics (IJMI) http://www.intl.elsevierhealth.com/journals/ijmi/ 5. Methods of Information in Medicine (MIM) https://www.schattauer.de/index.php?id=704
  12. 12. First assignment Bernstam, E. V., Smith, J. W., & Johnson, T. R. (2010). What is Biomedical Informatics? Journal of Biomedical Informatics, 43(1), 104-110. Write a two-pages paper about « the future of medical informatics».
  13. 13. Articles 1: Introduction to Medical Informatics 1) Haux R. Medical informatics: past, present, future. Int J Med Inform. 2010; 79(9): 599-610 2) Hersh, W. (2009). A Stimulus to Define Informatics and Health Information Technology. BMC Medical Informatics and Decision Making, 9, 24. 3) Himmelstein DU, Wright A, Woolhandler S. Hospital Computing and the Costs and Quality of Care: A National Study. Am J Med 2009; 123(1):40-46 4) Shcherbatykh I, Holbrook A, Thabane L et al. Methodologic Issues In Health Informatics Trials: The Complexities of Complex Interventions. JAMIA 2008; 15:575-580 5) J. Walker, P. Carayon, N. Leveson, R. Paulus, J. Tooker, H. Chin, A. Bothe, and W. Stewart, “EHR Safety: The Way Forward to Safe and Effective Systems,” Journal of the American Medical Informatics Association 15 (2008): 272-277.
  14. 14. Articles 2: EHR 1) Fernandopulle, R. and N. Patel (2010). "How The Electronic Health Record Did Not Measure Up To The Demands Of Our Medical Home Practice." Health Affairs 29(4): 622-628. 2) O’Malley, A., J. Grossman, et al. (2009). "Are Electronic Medical Records Helpful for Care Coordination? Experiences of Physician Practices." Journal of General Internal Medicine 25(3): 177-185. 3) Bates, D. W. and A. Bitton (2010). "The Future Of Health Information Technology In The Patient-Centered Medical Home." Health Affairs 29(4): 614-621. 4) Bates, D. W. & Gawande, A. A.(2003). Patient Safety: Improving Safety with Information Technology. The New England Journal of Medicine, 348, 2526-2534 5) Gans, D., Kralewski, J., Hammons, T., & Dowd, B. (2005). Medical Groups’ Adoption of Electronic Health Records And Information Systems. Health Affairs, 24(5) 1323-1333.
  15. 15. Articles 3: Electronic Health Record Safety and Regulation 1) Koppel R, Metlay JP, Cohen A, Abaluck B, Localio AR, Kimmel SE, Strom BL. Role of computerized physician order entry systems in facilitating medication errors. JAMA 293(10): 1197-203, 2005 Mar 9. http://jama.ama-assn.org/content/293/10/1197.full 2) Han YY, Carcillo JA, Venkataraman ST, et al. Unexpected increased mortality after implementation of a commercially sold computerized physician order entry system. Pediatrics 2005;116:1506-1512. http://pediatrics.aappublications.org/content/116/6/1506.full 3) H. Singh, S. Mani, D. Espadas, N. Petersen, V. Franklin, and L. A. Petersen, “Prescription Errors and Outcomes Related to Inconsistent Information Transmitted through Computerized Order Entry,” Archives of Internal Medicine 169, no. 10 (2009): 982-989. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2919338/pdf/nihms131429.pdf 4) J. Walker, P. Carayon, N. Leveson, R. Paulus, J. Tooker, H. Chin, A. Bothe, and W. Stewart, “EHR Safety: The Way Forward to Safe and Effective Systems,” Journal of the American Medical Informatics Association 15 (2008): 272-277. http://171.67.114.118/content/15/3/272.full.pdf 5) F. Schulte and E. Schwartz, “FDA, Obama Digital Medical Records Team at Odds over Safety Oversight,” Huffington Post, August 3, 2010. http://huffpostfund.org/stories/2010/08/fda-obama- digital- medical-records-team-odds-over-safety-oversight
  16. 16. Articles 4: Meaningful Use of Electronic Health Records and Impact on the EHR Market 1) Blumenthal, D. (2010). "Launching HITECH." N Engl J Med 362(5): 382-385. http://proquest.umi.com.proxy.lib.umich.edu/pqdweb?did=1955840561&Fmt=7&clientI d=17822 &RQT=309&VName=PQD 2) Blumenthal, D. and M. Tavenner (2010). "The "Meaningful Use" Regulation for Electronic Health Records." N Engl J Med: 1006-1114. http://proquest.umi.com.proxy.lib.umich.edu/pqdweb?did=2102399491&Fmt=7&clientI d=17822&RQT=309&VName=PQD 3) Tai, Betty, et al. "Meaningful use of electronic behavioral health data in primary health care." Science translational medicine 4.119 (2012): 119mr3-119mr3. 4) Jha AK. Meaningful Use of Electronic Health Records: The Road Ahead. JAMA. 2010. http://jama.ama-assn.org/content/304/15/1709.full 5) Maxson, E., S. Jain, et al. (2010). "The Regional Extension Center Program: Helping Physicians Meaningfully Use Health Information Technology." Annals of Internal Medicine 153(10): 666- 670
  17. 17. Articles 5: Health Information Technology and Health Reform 1) Fisher, E. S., M. B. McClellan, et al. (2009). "Fostering Accountable Health Care: Moving Forward In Medicare." Health Affairs 28(2): w219-231. http://proquest.umi.com.proxy.lib.umich.edu/pqdweb?did=1865634431&sid=6&F mt=4&clientId=17822&RQT=309&VName=PQD 2) Landon, B. E., J. M. Gill, et al. (2010). "Prospects For Rebuilding Primary Care Using The Patient-Centered Medical Home." Health Affairs 29(5): 827-834. http://proquest.umi.com.proxy.lib.umich.edu/pqdweb?did=2037442611&Fmt=7&c lientId=1782 2&RQT=309&VName=PQD 3) Bates, D. W. and A. Bitton (2010). "The Future Of Health Information Technology In The Patient-Centered Medical Home." Health Affairs 29(4): 614-621. http://proquest.umi.com.proxy.lib.umich.edu/pqdweb?did=2013981611&Fmt=7&c lientId=1782 2&RQT=309&VName=PQD 4) Bitton A, Flier LA. Jha AK. (2012). "Health information technology in the era of care delivery reform: To what end?" JAMA: The Journal of the American Medical Association 307(24): 2593- 2594.
  18. 18. Articles 6: Interoperability 1) Kuperman, G. J. Health-information exchange: why are we doing it, and what are we doing? J Am Med Inform Assoc. 2011. http://jamia.bmj.com.proxy.lib.umich.edu/content/18/5/678.full.pdf 2) Williams, C., F. Mostashari, et al. (2012). "From The Office Of The National Coordinator: The Strategy For Advancing The Exchange Of Health Information." Health Affairs 31(3):527-536. 3) Lenert, L., D. Sundwall, et al. (2012). "Shifts in the architecture of the Nationwide Health Information Network." Journal of the American Medical Informatics Association. 4) Adler-Milstein J, J. A. K. (2012). "Sharing clinical data electronically: A critical challenge for fixing the health care system." JAMA: The Journal of the American Medical Association 307(16): 1695-1696. 5) Micky Tripathi. The Dangers of Too Much Ambition in Health Information Exchange. Ihealthbeat. June 22, 2012. http://m.ihealthbeat.org/perspectives/2012/the-dangers-of-too- much-ambition- in-health-information-exchange.aspx 6) Frisse, M. E., K. B. Johnson, et al. (2011). "The financial impact of health information exchange on emergency department care." Journal of the American Medical Informatics Association.
  19. 19. Articles 7: Process and Workflow 1) Zheng K, Haftel HM, Hirschl RB, O'Reilly M, Hanauer DA. Quantifying the impact of health IT implementations on clinical workflow: a new methodological perspective. J Am Med Inform Assoc. Jul-Aug 2010;17(4):454-461. 2) Rebuge, Álvaro, and Diogo R. Ferreira. "Business process analysis in healthcare environments: A methodology based on process mining." Information Systems 37.2 (2012): 99-116. 3) Niazkhani Z, Pirnejad H, Berg M, Aarts J. The impact of computerized provider order entry systems on inpatient clinical workflow: a literature review. J Am Med Inform Assoc. Jul-Aug 2009;16(4):539-549. 4) Lanham HJ, Leykum LK, McDaniel RR, Jr. Same organization, same electronic health records (EHRs) system, different use: exploring the linkage between practice member communication patterns and EHR use patterns in an ambulatory care setting. J Am Med Inform Assoc. Aug 24 2011. 5) Unertl, K. M., L. L. Novak, et al. (2010). "Traversing the many paths of workflow research: developing a conceptual framework of workflow terminology through a systematic literature review." Journal of the American Medical Informatics Association 17(3): 265-273.
  20. 20. Article 7: Natural Language Processing 1) Murff, H. J., F. FitzHenry, et al. (2011). "Automated Identification of Postoperative Complications Within an Electronic Medical Record Using Natural Language Processing." JAMA: The Journal of the American Medical Association 306(8): 848-855. 2) Jha, A. K. (2011). "The Promise of Electronic Records." JAMA: The Journal of the American Medical Association 306(8): 880-881. 3) Hanauer, D. A. (2006). EMERSE: the electronic medical record search engine, American Medical Informatics Association. 4) Seyfried, L., D. A. Hanauer, et al. (2009). "Enhanced identification of eligibility for depression research using an electronic medical record search engine." International Journal of Medical Informatics 78(12): e13-e18. 5) Thomas, Anil A., et al. "Extracting data from electronic medical records: validation of a natural language processing program to assess prostate biopsy results." World journal of urology 32.1 (2014): 99-103.
  21. 21. Articles 8: mHealth 1) Hawn, C. (2009). "Take Two Aspirin And Tweet Me In The Morning: How Twitter, Facebook, And Other Social Media Are Reshaping Health Care." Health Affairs 28(2): 361-368. http://content.healthaffairs.org/content/28/2/361.full.pdf+html?sid=aeb4be03-9e52- 4aff-ace6-34d62eebb6e1 2) Klasnja, P. and W. Pratt (2011). "Healthcare in the pocket: Mapping the space of mobile-phone health interventions." Journal of Biomedical Informatics. http://ac.els- cdn.com/S1532046411001444/1-s2.0-S1532046411001444- main.pdf?_tid=85e90388ad092b496d68c42ebda23d68&acdnat=1343920403_c3a b4bbc90ea791a95675e8b6550b8c7 3) Feder, J. L. (2010). "Cell-Phone Medicine Brings Care To Patients In Developing Nations." Health Affairs 29(2): 259-263. http://proquest.umi.com.proxy.lib.umich.edu/pqdweb?did=1970293501&Fmt=7&cli entId=17822&RQT=309&VName=PQD 4) Kahn, James G., Joshua S. Yang, and James S. Kahn. "‘Mobile’health needs and opportunities in developing countries." Health Affairs 29.2 (2010): 252-258. 5) Free, Caroline, et al. "The effectiveness of mobile-health technologies to improve health care service delivery processes: a systematic review and meta-analysis." PLoS medicine 10.1 (2013): e1001363.
  22. 22. Contact Contact: Dr. Serkan Türkeli E-posta: serkanturkeli@yahoo.com sturkeli@itu.edu.tr Office hour Wed. 13.30-17.30 (Please send an email for appointment)

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