Biomedical Informatics Classes
(Course syllabi are subject to change)
Applied Legal and Ethical Issues in Health Information Practice- BMI 586
Instructor: Joanne Valerius, MPH, RHIA
Credits: 2.0
Content: Analysis and synthesis of legal and ethical issues and the role of the Health Inforamtion Administrator will be covered in this course. AHIMA Code of Ethics and HIPAA legislation are emphasized. Emphasis is on the student's ability to analyze requests for information using critical thinking skills and applying laws is essential. Students will have opportunities to recreate forms to be inclusive of HIPAA law. Students will compare issues of paper-based and electronic health records related to confidentiality and data security. Students will develop and present presentations on course content.
Prerequisite: None
Offering: TBA
Syllabus Applied Management in Health Information Practice- BMI 585
Instructor: Joanne Valerius, MPH, RHIA
Credits: 2.0
Content: This course provides opportunities to analyze case studies pertinent to management in health information. Focus of course is onf inancial and resource management, strategic management and organizational development, evaluating the role of the health ifnormation manager in the e-management environment,a nd project management.
Prerequisite: None
Offering: TBA
Syllabus
Bioinformatics and Computational Biology I: Algorithms- BMI 550/650
Instructor: Dr. Shannon McWeeney
Credits: 4.0
Content: The course will be a problem-driven examination of the algorithmic issues in computational biology. The course will provide students with the computational fundamentals underlying the techniques covered. Students will be expected to learn basic algorithm principles, basic mathematical and statistical proofs, and molecular biology. The emphasis is on algorithm development and application to biological problems, particularly those from functional genomics studies. Topics will include: Mapping (Genetic linkage maps, physical maps), Sequencing (Whole genome sequencing: shotgun approaches and ESTs), Sequence analysis (multiple sequence alignment, fragment assembly, EST assembly, genome annotation, algorithmic side of gene finding and BLAST). Students will be evaluated on written assignments and a programming project.
Note: 4 credits includes 1 credit Lab
Prerequisite: None.
Offering: On Campus: Fall
Bioinformatics and Computational Biology II: Statistical Methods- BMI 551/651
Instructor: Dr. Shannon McWeeney
Credits: 4.0
Content: This course will be a problem-driven examination of the quantitative issues in computational biology. The course will provide students with the statistical fundamentals underlying the techniques covered. Topics will include applications involving MCMC Models, Maximum Likelihood, Random Walks, Hidden Markov Models, Estimating Genealogical Relationships and Networks. Students will be evaluated on written assignments and a programming project.
Note: 4 credits includes 1 credit Lab
Prerequisite:
Offering: On Campus: Winter
Syllabus Business of Healthcare Informatics- BMI 519/619
Instructor: John Kenagy
Credits: 3.0
Content: The goal of this course is to provide skills and knowledge in the area of business practices relating to Healthcare Information Technology. This includes departmental design and management, capital and operating budgeting, the art of the budget planning process, infrastructure design and strategic planning. Also included in this class is the process of defining system requirement, determination of return on investment, delivery modes (ASP vs. in-house), evaluation of vendors, vendor selection, contractual matters, risk analysis, project management, implementation and support strategies. Within this discussion, the pros and cons of "buy vs. build" will be evaluated. The various types of information systems will be discussed. This will include enterprise systems, developmental systems, data warehouse and decision support systems. It will also include challenges presented by various regulatory agencies and laws that have been enacted. One intent of this class is to address many of the Core Competencies of the HIMSS Certified Professional in Healthcare Information and Management System exam.
Prerequisite: BMI 510/610.
Offering: Online: Summer
Syllabus
Capstone Preparation- BMI 580
Instructor: TBA
Credits: 1.0
Prerequisite: Consent of instructor.
Capstone Project- BMI 581
Instructor: TBA
Credits: 3.0
Prerequisite: Consent of instructor.
Capstone Project and Professional Practice Experience (HIM)- BMI 588
Instructor: Joanne Valerius, MPH, RHIA
Credits: 2.0
Content: The capstone course provides the student with opportunities to synthesize the coursework learned in this program and to prepare for the transition from student to practicing professional at the Health Information Administrator level. As part of the final project for this course students will articulate a personal philosophy f quality of health information services. Requirements for this course include a 100-hour minimum professional practice experience (PPE) including a written research report. Prerequisite: Consent of instructor
Syllabus Clinical Classification Systems and Applied Reimbursement Methodologies- BMI 584
Instructor: Joanne Valerius, MPH, RHIA
Credits: 2.0 credits
Content: This course will address the case studies and applications that focus on the analysis and synthesis of clinical classification system and reimbursement methodologies affecting the role of the Health Information Manager. Students will examine coding compliance and ethical behavior and the effects on revenue issues. Use of software from AHIMA virtual lab is included. Emphasis on ability to process cases in workbook. Group and individual assignments expected.
Prerequisite: None
Offering: TBA
Syllabus Clinical Information Systems- BMI 512/612
Instructor: Dr. Dean Sittig
Credits: 3.0 credits
Content: An in-depth study of the acquisition, storage, and use of information in the electronic medical record. Students will learn about the types of information used in clinical care: text, structured data, images, and sounds. Other topics covered include: clinical vocabularies (existing schemes and their limitations); how clinical information is generated and utilized; methods of information storage and retrieval; departmental systems (laboratory, radiology, and hospital information systems); organizational systems (including financial systems and the electronic medical record); telemedicine; and the legal, regulatory, and social problems of clinical systems, including security and confidentiality.
Prerequisite: BMI 510/610.
Offering: Online: Fall, Winter, Spring
Syllabus Computer Science I: Introduction to Computer Science with Java Programming- BMI 540/640
Instructor: Dr. Judith Logan
Credits: 3.0
Content: An introduction to computer science focusing on computer representation and storage of data, structured programming, object-oriented programming, algorithms, software engineering and the Java programming language on a UNIX platform. Students must demonstrate knowledge of basic structured programming techniques for admission to the class.
Prerequisite: Prior college-level computer programming course and successful completion of a pretest.
Offering: On Campus: Fall; Online: Fall
Note: Enrollment limited to admitted Biomedical Informatics students who have completed the
introductory computer programmingprerequisite.
Syllabus Computer Science II: Computer Networks- BMI 542/642
Instructor: Justin Fletcher
Credits: 3.0
Content: An in-depth look at computer networks including communications protocols for the Internet and computer security. An opportunity will be provided to work with common networking gear and to examine network traffic. By the end of the course, students will understand the basics of how the internet operates and is standardized, as well as considerations for health care.
Prerequisite: No prerequisite, but prior completion of BMI 540 suggested.
Offering: Online: Spring
Note: Enrollment limited to admitted Biomedical Informatics students.
Syllabus Computer Science III: Databases- BMI 544/644
Instructor: Dr. Judith Logan, 3.0 credits.
Content: An in-depth look at databases and database management systems. Topics covered will include data modeling, hierarchical and relational databases, query languages (SQL), database optimization, and OLAP and data warehousing.
Prerequisite: No prerequisite, but prior completion of BMI 540 suggested.
Offering: On Campus: Winter; Online: Winter
Note: Enrollment limited to admitted Biomedical Informatics students.
Syllabus Consumer Health Informatics- BMI 520/620
Instructor: Dr. Holly Jimison
Credits: 3.0
Content: This class will focus on the implications of consumer health informatics to the practice of healthcare in a digital environment. We will address the active role that providers of health and wellness information must take to ensure that 'consumers' have access to high quality and comprehensible health information, taking into account multi-ethnic and special populations. We will focus on the patient-centered perspective at the intersection of the patient, information technologies, and healthcare practice. The format of this class will consist of online lectures, labs, web-based exercises, and student-led discussions and debates.
Prerequisite: BMI 510/610
Note: Enrollment limited to admitted Biomedical Informatics students.
Offering: On Campus: Winter, Online: Winter
Syllabus Design and Evaluation in Health Informatics- BMI 560/660
Instructor: Gorman
Credits: 3.0
Content: Research and development projects in the broad field of biomedical informatics can take many forms, from field studies that improve understanding of the tasks and information needs of users, to development projects that design, build, and deploy information systems, to studies that assess the impact of information systems on health care processes and outcomes. This course provides an overview of the concepts, vocabularies, and strategies needed to design and evaluate projects in biomedical informatics, including a breadth of methodologies drawn from qualitative research,
quantitative research, and software engineering.
Prerequisite: None
Offering: On Campus: Winter, Online: Winter
Syllabus Doctoral Symposium- BMI 657
Instructor: TBA
Credits: 3.0
Content: State-of-the-art literature synthesis in an area of research from which the student will be questioned and graded during a student symposium. Student symposia will be scheduled during several weeks during the quarter and each student presentation can last no longer than 20 minutes.
Prerequisite: Doctoral student status
Ethical, Legal, and Social Issues in Biomedical Informatics- BMI 515/615
Instructor: Dr. Holly Jimison
Credits: 2.0-3.0
Content: The goal of this course is to introduce and sensitize students to ethical, legal, and social issues arising in the use of computer-based technology and information systems in the delivery of health care. Topics will include the protection of confidentiality and privacy in an electronic environment, implications for the use of telemedicine and decision-support tools in diagnosis and treatment, and the implications of electronic communication of the physician-patient relationship. The approach will include the analysis of actual situations and case studies. This course meets the ethics requirement for biomedical informatics students in the School of Medicine Graduate Program.
Prerequisite: None
Note: Enrollment limited to admitted Biomedical Informatics students.
Offering: On Campus: Spring; Online: Spring
Syllabus Evidence-Based Medicine- BMI 536/636
Instructor: Dr. William Hersh
Credits: 3.0
Content: This hybrid course provides a rigorous introduction to the principles of evidence-based medicine (EBM). It begins with an overview of how to frame an answerable clinical question and then find the best evidence to answer it. The major categories of questions that arise in clinical practice - treatment, diagnosis, harm (etiology), and prognosis - are each covered, with instruction on what is the best type of evidence to answer questions, how to find that evidence, and how to apply it to a given patient. This is followed by units on summarizing evidence (e.g., through systematic reviews and meta-analysis), putting evidence into practice (e.g., implementing clinical practice guidelines), and the limitations of the EBM approach.
Some pre-campus coursework is required. See syllabus for details.
Prerequisite: BMI 510/610
Offering: On Campus: Hybrid Course, September 2008.
Syllabus Healthcare Data Management- BMI 582
Instructor: Joanne Valerius, MPH, RHIA
Credits: 2.0
Content: Analysis of healthcare data management theories focusing on the role of the Health Information Manager will be covered in this course. Managing processes for health data structure and content for compliance with standards, regulations, and accreditation is covered. Developing strategies for changing from a paper-based to electronic record is practiced.
Prerequisite: None
Offering: TBA
Syllabus
Healthcare Quality- BMI 537/637
Instructor: Dr. David Dorr
Credits: 3.0
Content: This course covers methods for measuring, managing and improving the quality of health care. A general overview of the health care system in the United States and beyond is followed by the quality challenges and issues in these systems. Students are also taught the principles of quality improvement and are expected to be able to apply them in practical settings. Current national efforts in performance measures, financial incentives and quality are also covered. The hybrid version of the course includes pre-campus reading assignments (see hybrid syllabus for details).
Prerequisite: BMI 530/630 or prior clinical background.
Offering: On Campus: Hybrid Course, September 2008.
Hybrid Course Syllabus Human Computer Interaction in Biomedicine- BMI 548/648
Instructor: Staff
Credits: 3.0
Content:This hybrid course will provide an overview of the principles and tools of HCI design and evaluation techniques. It will begin with 6-8 weeks of directed readings with small assignments or quizzes followed by one week on campus and then completion of a project. The on-campus portion of the course will have lectures in the morning and lab sessions in the afternoon, for 5 days. Topics to be covered include: Principles of good interface design, The iterative process of design, Surveying techniques, Discount usability testing, Cognitive processes affecting usability, Think-aloud protocols, Physiological processes that affect usability, Eye-tracking techniques, Quantitative evaluative measures, and Research topics in HCI.
Some pre-campus coursework is required. Prerequisite: None
Offering: On Campus: Hybrid Course, September 2008.
Syllabus Independent Study Information Retrieval- BMI 514/614
Instructor: Dr. William Hersh
Credits: 3.0
Content: An introduction to text information retrieval in health and biomedicine. After an introduction of models and knowledge-based information, the course covers state-of-the-art approaches to on-line content, indexing, retrieval and evaluation methods. The course then continues with research topics in information retrieval, including automated indexing and retrieval, user interfaces and digital libraries.
Prerequisite: BMI 510/610.
Offering: On Campus: Spring; Online: Spring
Syllabus Internship- BMI 504/604
Instructor: Dr. Thomas Yackel
Credits: 1.0-3.0
Content: The Internship in Medical Informatics course gives qualified students a real-world, practical experience in applied informatics. Students are matched with a mentor and contribute 8-10 hours of work per week on a mentor-defined project. The student’s work responsibilities and deliverable are negotiated with the mentor during the first week of the course.
Note: Students meet as a group periodically to discuss their progress through the internship.
Prerequisite: BMI 510
Offering: On Campus: Winter, Summer
Introduction to Biomedical Informatics- BMI 510/610
Instructor: Dr. William Hersh
Credits: 3.0
Content: An introduction to the fundamental principles of biomedical informatics, the field concerned with the acquisition, storage, and use of information in health and biomedicine. The course begins with a basic introduction to health and biomedicine as well as computing concepts. It then surveys aspects of electronic health records, decision support systems, standards, security and confidentiality, evidence-based medicine, information retrieval, bioinformatics, public health informatics, imaging informatics, nursing informatics and consumer health informatics.
Prerequisite: None.
Offering: On Campus: Fall; Online: Fall, Winter, Spring, Summer
Syllabus Introduction to Programming Instructor:Judy Logan, MD, MS
Credits:0
Content:This non-credit, online course will introduce the beginning programmer to programming structure and design, creating a solid foundation for all types of programming. The emphasis will be on procedural programming and control structures, although exercises will be in Java. The course is self-paced. You may begin it at any time and proceed at any pace as long as you complete the lessons in order. The course fulfills the prerequisite for BMI 540.
Register Here.
Syllabus IT in Health Information Practice- BMI 583
Instructor: Joanne Valerius, MPH, RHIA
Credits: 2.0
Content: This course focuses on the analysis and synthesis of Information technology and Systems that drive Health Information Management. Additionally this course will identify components of systems life cycle. Management tools for recognizing an adapting appropriate HIM technology will be emphasized.
Prerequisite: None
Offering: TBA
Syllabus Medical Decision Making- BMI 538/638
Instructor: Dr. Karen Eden
Credits: 2.0 - 3.0
Content: This course introduces the student to decision analysis (modeling of decisions). Given uncertain information and limited resources, students will learn to model uncertainty and expected outcomes of various decisions. Course will cover Bayesian theory, decision trees, patient utilities, quality of life and cost related to health outcomes. Students will apply decision analysis techniques in addressing real world problems using software (by TreeAge, Inc.) and participate in online discussion of decision analyses in the medical literature.
Prerequisite: None, but basic understanding of probability is helpful.
Offering: Online: Winter
Syllabus Mentored Teaching Prep- BMI 654
Instructor: TBA.
Credits: 1.0
Content: Development of contract with mentor for teaching experience. Decisions will be made regarding lectures, deadlines, scope and topics to be covered. Prepare lesson plans, course materials with Mentor (syllabus, calendar, lectures).
Prerequisite: Doctoral student status
Mentored Teaching- BMI 655
Instructor: TBA.
Credits: 3.0
Content: Students teach a subject area course under the mentorship of a faculty member.
Prerequisite: Doctoral student status, BMI 654
Organizational Behavior and Management- BMI 517/617
Instructor: Dr. Joan Ash
Credits: 3.0
Content: The most important functions of managers in an organization include understanding and motivating individuals and organizing structural systems within which they can work in a productive manner. This course will review the concepts, issues and practices of organizational behavior at the individual, group and organizational levels. Students will practice applying these concepts in simulated situations to improve personal effectiveness in groups or organizations. At the individual level, topics will include perception, decision-making, values, attitudes, job satisfaction, and motivation. The group level topics are work teams, communication, leadership, power and politics, conflict and negotiation. Organizational level topics include organizational structure, work design, human resources policies, organizational culture and change.
Prerequisite: None.
Offering: Online: Spring; On Campus: Hybrid Course, September 2008.
Spring Syllabus
Hybrid course syllabus Practice of Health Care - BMI 530/630
Instructor: Dr. Paul Gorman
Credits: 3.0
Content: This course introduces the biomedical informatics student to clinical practice, including the underlying biology and manifestations of selected disease states, the information gathering and reasoning processes used to detect, understand and treat diseases, the health professionals who provide and support care and the clinical settings in which care occurs. In addition to class time, students will observe clinicians caring for patients in real world settings.
Prerequisite: None
Offering: On Campus: Fall; Online: Fall
Syllabus Practicum: Biomedical Informatics- BMI 509/609
Instructor: TBA
Credits: 1.0 - 3.0
Content: A practical hands-on experience in an operational biomedical informatics setting at OHSU, a local health software vendor, or a hospital/health system.
Prerequisite: Consent of instructor.
Project Management in Informatics- BMI 518/618
Instructor: Patricia Tidmarsh
Credits: 3.0
Content: The goal of this course is to introduce students to managing biomedical informatics projects. Students will learn the principles of project management, including planning, scheduling, monitoring, and reporting, will develop written presentations, and will become facile with project management software. Students will be required to complete a group project in an operational informatics setting, presenting the results in written form. Enrollment limited to admitted Biomedical Informatics students.
Prerequisite: None.
Offering: On Campus: Winter; Online: Winter
Syllabus Public Health Informatics- BMI 521/621
Instructor: JA Magnuson
Credits: 3.0
Content: Recent events underscore the need for a strong public health information infrastructure. Public Health Informatics is the study of how public health information is generated, collected, transferred, and shared. This course is designed to introduce both biomedical informatics and public health students to public health informatics. Course topics will include the information needs of public health professionals; barriers and requirements of a public health information infrastructure; data and process standards; electronic health records; electronic data exchange, including security issues; data registries and sources; evidence-based public health and community health assessment; public health informatics tools, such as GIS; public health reporting and surveillance, including communicable disease, environmental, syndromic, and bioterrorism surveillance.
Prerequisite: None
Offering: Online: Summer
Syllabus Qualitative Research Methods- BMI 561/661
Instructor: Dr. Joan Ash
Credits: 3.0
Content: Qualitative research methods are used to address why, what, how questions and often triangulated with quantitative methods. This hybrid course will be useful for students taking Organizational Behavior and Management in Informatics when writing their cases. Informaticians who evaluate or conduct research within organizations will find this course a useful foundation when considering data gathering options. Required reading prior to first on-campus session: Crabtree, Miller textbook (see textbook list for details).
Prerequisite: BMI 510/610
Note: Enrollment limited to admitted Biomedical Informatics students.
Offering: On Campus: Hybrid Course, June 2008.
Syllabus Quantitative Research Methods- BMI 562/662
Instructor: TBA
Credits: 3.0
Content: This course reviews a variety of study designs used in biomedical informatics and outcomes research. These include experimental designs (completely randomized designs, randomized block designs, nested designs, two-way factorial designs, crossover designs, and repeated measures models), observational study designs (cohort designs, case/control designs, cross-sectional designs) and prediction designs (with both linear and logistic regression approaches). For each study design, appropriate statistical analyses and use of statistical software (SPSS) will also be covered. Estimation of statistical power and required sample sizes for various study designs will be discussed.
Prerequisite: PHPM 524 and BMI 560 or consent of instructor.
Offering: Not available 2008-2009
Reading and Conference(Instructor TBA)
Readings in Bioinformatics and Computational Biology- BMI 553/653
Instructor: Dr. Shannon McWeeney
Credits: 1.0 credit
Content: This is a seminar style course requiring significant student participation and will address new and emerging technologies and/or methodologies.
Prerequisite: 550 and 551
Offering: On Campus: Spring
Research in Bioinformatics and Computational Biology- BMI 552/652
Instructor: Eilis Boudreau
Credits: 3.0
Content: In this research course, participating faculty will meet in the first week to discuss their research interests and areas in which they are willing to supervise enrolled students. Students will work independently with the research mentor (or mentors) throughout the quarter. Research presentations will be given at the end of the quarter by all students.
Prerequisite: 550 and 551
Offering: On Campus: Spring
Research(Instructor TBA)
Research, Statistics, and Quality Applied to Health Information Management Practice- BMI 587
Instructor: Joanne Valerius, MPH, RHIA
Credits: 2.0
Content: This course will focus on case studies and application of Health Statistics, Biomedical Research and Quality Management as it relates specifically to the role of the Health Information Management Professional. Related course BMI 537 and Public Health course PHPM 524 provide in-depth content in quality management and biomedical research. This course emphasizes applying and synthesizing information rather than basic knowledge.
Prerequisite: PHPM 524 and BMI 537 or experience in quality management/statistics
Offering: TBA
Syllabus Scientific Writing and Communication for Informatics Students- BMI 570/670
Instructor: Kathryn Pyle Krages
Credits: 2.0
Content: The focus of this course is technical writing and communication. Students will draft abstracts and papers; write for their courses and theses; and learn about writing for publication in scientific journals and grant proposals. Topics also include bibliographic database searching and presentations and posters for scientific meetings. Students will complete and present both individual and group writing projects.
Prerequisite: None
Note: Enrollment limited to 12 admitted Biomedical Informatics students. Course offered on a Pass/Fail basis.
Offering: On Campus: Fall; Online: Spring
Syllabus Seminar- BMI 507/607
Instructor: TBA
Credits: TBA.
Content: A course for special topics in biomedical informatics to be organized by a group of students or faculty.
Prerequisite: Doctoral student status or consent of instructor.
Offering:TBA
Software Engineering- BMI 546/646
Instructor: Dr. Aaron Cohen
Credits: 3.0
Content: This course covers the basic principles of software engineering geared towards providing students with a solid understanding of the process of producing quality software systems on time and on budget. The main activities in software process models are covered in detail, including: proposal creation, requirements gathering and specification, architecture design, software development methodologies, verification and testing, quality management and maintenance. Students will be expected to demonstrate their mastery of the material by the creation of written documentation for several of these main activities on a hypothetical software project of their choice, as well as by answering homework questions based on assigned reading and passing written exams.
Prerequisite: BMI 540/640 or Consent of Instructor.
Offering: On Campus: Spring
Syllabus Text Mining- BMI 511/611
Instructor: Dr. Aaron Cohen
Credits: 3.0
Content: This class will provide a broad overview of text mining technology, evaluation and application to biomedicine. The focus will be on the current state of the art in both techniques and application of those techniques to the biomedical domain. Supervised and unsupervised machine learning algorithms will be covered, as well as natural language processing (NLP) techniques, such as named entity recognition (NER), that are commonly used in biomedical text mining. Approaches to evaluation, and the pros and cons of various alternatives, will be covered as well.
Prerequisite: BMI 510/610 and BMI 540/640, or consent of instructor.
Offering: TBA
Thesis/Dissertation(Instructor TBA)
Note: The information included in this catalog was accurate at the time of publication. Information described in this catalog may change without notice. Not all courses are offered each academic year and faculty assignments may change.4/10/08.
