BIOM 5010/BMG 5112 − Introduction to Biomedical Engineering

Description

Research ethics and methods. Engineering systems approach to analysis and modelling of human anatomy and physiology. Introduction to topics including biomechanics, electrophysiology, and computational biology. Biomedical technologies. Impact of technology on society.

Prerequisites

OCIBME and OCIECE graduate students.

Instructors

  Marie-Ange Janvier  
  mjanvier@cheo.on.ca
  +1-613-737-7600 x 3831
  Office Hours: By appointment

Times and Locations

Fall 2018     (Sept. 5 − Dec. 5)

Section  Activity  Day  Time  Location 
BMG5112/BIOM5010    LEC    Mon    19h00−22h00    CBY B012   

Text

There is no assigned text. Course material will be from class presentations and assigned readings. Links are given in the course outline.

Marks Course marks: as of 2018-10-01

Work  Value
    Assignments & Quizzes (Best 10 of 12)    30    
Project    40
− Project proposal    − 2
− Three sentence    − 2
− One page summary    − 4
− Research Ethics Application    − 8
− Draft Presentation    − 8
− Presentation    −16
Final Exam    30

Exams

Marks Policies

  • Late work Policy (without *excellent* excuse): 1) 20% if ≤ 7 days late, 2) 0 mark if > 7 days late.
  • Remarking will be via written request. Submit your concern and the original work to the instructor for remarking.
  • Academic fraud will be taken seriously. Cooperation between students for assignments is expected and encouraged; however, copying of another's work is not.

Academic Accomodations

You may need special arrangements to meet your academic obligations during the term. For an accommodation request the processes are as follows:
  • Pregnancy obligation: email the instructor with any requests for academic accommodation during the first two weeks of class, or as soon as possible after the need for accommodation is known to exist. For more details visit the Equity Services website.
  • Religious obligation: email the instructor with any requests for academic accommodation during the first two weeks of class, or as soon as possible after the need for accommodation is known to exist. For more details visit the Equity Services website.
  • Academic Accommodations for Students with Disabilities: The Paul Menton Centre for Students with Disabilities (PMC) provides services to students with Learning Disabilities (LD), psychiatric/mental health disabilities, Attention Deficit Hyperactivity Disorder (ADHD), Autism Spectrum Disorders (ASD), chronic medical conditions, and impairments in mobility, hearing, and vision. If you have a disability requiring academic accommodations in this course, please contact PMC at 613-520-6608 or pmc@carleton.ca for a formal evaluation. If you are already registered with the PMC, contact your PMC coordinator to send me your Letter of Accommodation at the beginning of the term, and no later than two weeks before the first in-class scheduled test or exam requiring accommodation (if applicable). After requesting accommodation from PMC, meet the instructor to ensure accommodation arrangements are made. Please consult the PMC website for the deadline to request accommodations for the formally-scheduled exam (if applicable).

Quizzes & Assignments

Each class will have either an assignment or quiz due. Quizzes will be the first 10 minutes of class and cover one question in the assigned list. Assignments are due at the beginning of class.

Project

By it's nature, an introductory course such as this one, can only cover a small fraction of biomedical engineering. In the project, you are asked to present an investigation into another aspect. By sharing these we hope to cover a broader view of the subject. You are encouraged to discuss with your supervisor or with me. Projects must: 1) investigate an engineering contribution to a biomedical problem 2) centre on a recent (≤10 years old) paper or set of papers. Papers must conduct experimental research. 3) report on A) the current medical state of the art, B) the engineering contribution, C) who benefits and how.
Activity      Description      Due Date
Project Proposal Proposal is 1-2 pages (double spaced). Include 1) Medical Problem, 2) Engineering Solution, 3) Description of tests and subjects, 4) High level summary of results, and 5) References (specify which is the main paper). Sep. 24
Hard copy please.

Three sentences For the paper you have selected, in three sentences, clarify: 1) the medical problem being addressed, 2) the research objective, 3) the results and significance. Aim for clarity and try to avoid being too technical. Avoid multi-line, multi-subclause, overly complex sentences. Oct. 1
Hard copy please.

Research ethics application. Complete a human (Carleton or U.Ottawa) or animal (Carleton) research ethics application for the research you are considering, or a follow-on project (could be your thesis research). (The U.Ottawa animal research form is not available outside of the online system; please use the Carleton one)
    If you are doing human research, include a Consent Form. If you are doing animal research, include an additional justification of a) scientific context of the research, and b) how the proposed study will benefit society.
Oct. 29
Hard copy please.

One page summary A critical summary. Include:
  • Background/Medical Problem
  • Goal/Objective
  • Methods (what they did)
  • Results (high level, what they got)
  • Conclusion
  • Value of paper / critisisms of paper
. One page (12pt single spaced).
Nov. 5
Hard copy please.

Midterm report (Draft Presentation) Report is a draft of your presentation: draft slides, with a text explanation of what you plan to describe for each slide. Include a workplan of what extra material is required for the final presentation. Nov. 19
Electronic copy please.

Presentation Presentations will be (8 minutes plus 2 minutes for questions) in English. Marks are based on technical content (45%), clarity of presentation (45%), and ability to answer questions (10%). Dec. ??
Electronic copy please.

Course Outline

Date   Activity  
Sep 10   Introduction to Biomedical Engineering: Slides #0,
Science and Scientific literature: Slides #1,
Notes: Plagiarism [uOttawa], Scientific Misconduct [Economist], How to read a paper, How to write a paper
Question: Scientific Misconduct: when is it a mistake and when is culpable? [BBC], sloppy seismology can lead to prison [economist.com], scientists convicted for earthquake advice cleared [economist.com]
Scientific misconduct: Manipulating Data [NationalPost], TDSB directory resigns over plagiarism, Leading Medical Device Company Ghost-Wrote Articles, Paid Physicians [Medical Daily]
Medical History, Devices and Trials: Slides #4C, Slides #4D,
Notes: America's medical-technology industry [economist], Fake pharmaceuticals [economist],
 

Sep 17 Sep 24   Ethical Theories: Slides #3A, Slides #3B, Slides #3C, Slides #3D,
Research Ethics: Slides #3E, Slides #3F,
Online references: "Justice", Sandel [harvard], Bonnefon et al, "Autonomous Vehicles Need Experimental Ethics …"(Comments), Autonomous car game, Seven Creepy Experiments [wired], Experiments impossible today,
  Quiz #1
Quiz #2

Oct 1 Oct 15   Oxygen transport (heart and lungs): Slides #6A, Slides #6B, Slides #6C, Slides #6D, Slides #6E, Slides #6F,  

Oct 8   Thanksgiving — No Classes

Oct 22   Fall Break — No Classes

Oct 29
(Greenwood)
  Medical Devices, Biomedical Engineering Practice
Slides
 

Nov 5 Nov 12
(Green)
  Cells and Electrophysiology: Slides #5A, Slides #5B, Slides #5C, Slides #5D, Slides #5E, Slides #5F,

Relevant videos:

 

Nov. 6   Visit to Biomedical Engineering Department at CHEO

Nov 19, Nov 26
(Adler)
  Statistical Methods:
Online notes: [onlinestatbook]: I(A−I), II, III(A−C), IV(A−E), VI(A−E), XI(A−E[1…6]) XII(A−E), XIII,
Slides: 2A (Statistics A), 2B (Statistics B), 2C (Graphs), 2D (Bivariate), 2E (Res Design), 2H (DETs), 2F (Hypotheses), 2G (Tests/Power),
References: t-distribution critical values, Great video on the Scientific Method, Badgraphs [Schwarz:SFU, CA] Good and Bad Graphs [Ihaka:U.Auckland, NZ]
Goosed-up graphs [Datavis.ca], Junkcharts, [xkcd]:risk,significant,correlation
 

Dec 3
(Labrosse)
  Biomechanics
Slides

Dec 5   Project Presentations, 17h00−20h00
Location: CHEO room R154 (Dr. Janvier will meet students at CHEO’s front Entrance at 16h45)
 
Dec 6   Project Presentations, 10h00−13h00
Location: uOttawa at DMS 1110.
 
Dec 7   Project Presentations, 15h00−18h00
Location: CHEO room R154 (Dr. Janvier will meet students at CHEO’s front Entrance at 14h45)

Dec. 12   Final Exam, 10h00−13h00.
uOttawa: DMS 1110 (55 Laurier)

Last Updated: $Date: 2018-11-29 20:51:06 -0500 (Thu, 29 Nov 2018) $