Fall term 2006
Readings will be from papers provided on the class web site and the text, Shortliffe, E.H., et al. Medical Informatics: Computer Applications in Health Care and Biomedicine, 3rd Ed. Springer, 2006. Because the 3rd edition was not available at the start of class, we provided assigned chapters from the 2nd edition on-line. Because of copyright issues, these are available only to students in the class.
Note: The syllabus is still tentative and will be evolving as we get commitments from guest lecturers, decide on reading assignments, etc.
Class# |
Date |
Lecturer | Topic | Readings to be done before class | Assignments, notes, ... |
---|---|---|---|---|---|
1 |
9/7 |
psz | Introduction: Goals and organization of the healthcare system. Relationship between clinical care and research in biomedicine. How research is done in the era of high-throughput genetic and genomic data. | Shortliffe, Ch. 2. Ch 1 provides rudimentary background info. (Obviously, this one time, you may read these after class!) | |
2 |
9/12 |
psz | Clinical Data, Organization and Standards | What is HL7? (describes older, pre-3.0 version, which is in common use), What is HL7? (describes broader current standard-setting process), DICOM Overview, Shortliffe, Ch 9 | HW1 posted |
3 |
9/14 |
psz | Terminologies, Coding, and Natural Language Processing | Shortliffe, Ch. 6. Medical Natural Language Processing (notes). | |
4 |
9/19 |
mfr | Introduction to BioInformatics | Statistics and Functional Genomics | |
5 |
9/21 |
mfr | The Genome | SNPs, Haplotype Tagging | |
6 |
9/26 |
mfr | Sequencing | Complex Traits, Genetic dissection & prognosis | HW1 due |
7 |
9/28 |
Hamish Fraser, Partners in Health | Telemedicine and Health Records for the Developing World: HIV & MDR-TB treatment, and OpenMRS | Implementing EMR for Developing Countries, Open-source EMR for DC, Impact of a TB EMR System in Peru | HW2 posted |
8 |
10/3 |
Alvin Kho | Gene Expression I: High-Throughput Measurement Methods | ||
9 |
10/5 |
Alvin Kho | Gene Expression II: Applications to Cancer Biology | Cancer Stem Cells: An Old Idea—A Paradigm Shift (alternative source, if you can't download that file for free), Why we are losing the war on cancer? Predicting Survival within the Lung Cancer Histopathological Hierarchy Using a Multi-Scale Genomic Model of Development | |
-- |
10/10 |
Columbus Day: Class Holiday | |||
10 |
10/12 |
Keith Strier, Deloitte | The Health IT Industry's View | Complexity and the Adoption of Innovation in Health Care, Health Care Industry Pays Steep Price for Ignoring IT, EHRs are the problem, not the solution | HW2 due |
11 |
10/17 |
Gil Alterovitz | Proteomics | Proteomics | HW3 posted |
12 |
10/19 |
Gil Alterovitz | Interactomics | Topological Analysis of Biomolecular Networks | |
13 |
10/24 |
Isaac Kohane | Genetic Privacy | GenePing, Health-Information Altruists — A Potentially Critical Resource (+ letter followup) | |
14 |
10/26 |
psz | Security, Privacy and Confidentiality | National Standards to Protect the Privacy of Personal Health Information (see especially the Privacy Rule summary and research descriptions) | HW3 due |
15 |
10/31 |
Ken Mandl | Biosurveillance and Public Health | Implementing Syndromic Surveillance: A Practical Guide Informed by the Early Experience, and Empirical Evidence for the Effect of Airline Travel on Inter-Regional Influenze Spread in the United States | |
16 |
11/2 |
psz | Decision Support I | Chapter 3 in text, Owens & Sox, Probabilistic Clinical Reasoning. | |
17 |
11/7 |
John Halamka, Caregroup | National Health Information Infrastructure | Health Care IT Collaboration, e-Prescribing | |
18 |
11/9 |
psz | Decision Support II | Pople, H. "Heuristic Methods for Imposing Structure on Ill-Structured Problems: The Structuring of Medical Diagnostics" | |
19 |
11/14 |
Asher Schachter | Predictive modeling in drug development | Clinical trial data: to disclose or not to disclose? |
(AMIA Meeting, Washington DC) |
20 |
11/16 |
psz | Patient Monitoring | Chapter 17 in text, Gardner & Shabot, "Patient Monitoring Systems". | |
21 |
11/21 |
psz | Workflow and Systematizing Health Care | Interruptive Communication, Interdisciplinary communication as a source of medical error, Chapter 4, in text | Last class before drop date (11/22). |
-- |
11/23 |
Thanksgiving: Class Holiday | |||
22 |
11/28 |
psz | Patient Identification, registries, data sharing | A Theory for Record Linkage | |
23 |
11/30 |
psz | Natural Language Processing on Clinical Data | Chapter 8, in text | |
24 |
12/5 |
psz | Decision Support III (future trends) | Text, Chapters 9 (Imaging) and 24 (Fagan and Shortliffe's prognostications) | |
25 |
12/7 |
Student Project Presentations | |||
26 |
12/12 |
Student Project Presentations |