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

  Andy Adler,  
  adler@sce.carleton.ca
  Canal 6204
  +1-613-520-2600 x 8785
  Office Hours: Mon 10h00–11h00 & Wed 11h00—12h00
     −By appointment

Times and Locations

Fall 2017     (Sept. 8 − Dec. 9)

Section  Activity  Day  Time  Location 
BIOM5010    LEC    Mon    11h35−14h35    Mackenzie Building 4342   

Text

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

Marks

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 (by last 3 digits of student #)
###  Q1   Q2   Q3   Q4   Q6   Q7 Prop 3SEN ETHI SUMM
160  10    7   10   10    9   10  8    9         7.5 
202  10    8    6   10   10    9  8    9        10   
204   7   10   10   10   10    9  9   10    9.5 10   
216   9   10    7    9    9   10  7.5  8         9   
254  10    8    9   10   10   10  9    8        10   
301   5    7   10    8   10   10  8.5 10         8   
311  10    4    2    8    9   10  9    9.5       8   
427  10    9    5   10   10    9  9   10         7.5 
473   8   10   10   10    9   10  8    9.5       9   
537   9    8    8    9    9    9  8   10         8.5 
597  10    8    7    9   10   10  9    9         8.5 
610             9    7    9    9  8.5  9         8   
645  10   10   10    9   10    9  9    8         8.5 
663   7    9    8   10   10    9  9    8         8.5 
673   7    5    6   10   10    9  8    7.5       7.5 
695   7    8    7    9    9    9  8.5  8         8.5 
705  10   10    8   10   10    8  7    7    9.5  9.0 
720  10   10    5   10   10   10  9    8         9.5 
724  10    7    7   10    9    9  8    9         7.5 
725   5    6    7    7   10   10  9.5  9         8   
735  10    9    7    8   10    6  8    8         8.5 
791  10   10    9   10    9    8  8    9         9   
840       10    3    8    9    8  8    9    9.5  8.5 
841   9   10    1   10   10   10  9    9         9   
845  10   10   10    8   10   10  9    9         9.5 
846  10    8   10   10    9    9  9.5 10        10   
898  10    7    6    9    9   10  7.5  8         9   
853  10    8    4    9    9   10  9.5  10       10   
866   9    9    8   10   10    9  8    8.5       8.5 
869        9    8    7    6    9  7    7         8   
946   6    8    7    8    8   10  A    8         8.5 

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. 25
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. 2
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. 30
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. 6
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. 20
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. 7 and 8
Electronic copy please.

Course Outline

Date   Activity   Quiz
Sep 11   Introduction to Biomedical Engineering.
Notes: Slides #0,
Science and Scientific literature.
Notes: Slides #1, 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
Notes: Slides #4C, Slides #4D, America's medical-technology industry [economist], Fake pharmaceuticals [economist],
  No Quiz

Sep 18, Sep 25   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), 2F (Hypotheses), 2G (Tests/Power), 2H (DETs),
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
  Sep 18: Quiz #1

Sep 25: Quiz #2

Oct 2 Oct 16   Ethical Theories: Slides #3A, Slides #3B, Slides #3C, Slides #3D,
Research Ethics: Slides #3E, Slides #3H
Online references: "Justice", Sandel [harvard], Bonnefon et al, "Autonomous Vehicles Need Experimental Ethics …"(Comments), Autonomous car game, Seven Creepy Experiments [wired], Experiments impossible today,
Suggested text for 3 sentences
Currently, repair of severed nerves must be done surgically, which is often unsuccessful. The research proposes a scaffold designed to encourage nerve growth, placed at the site of the severed nerve. The researchers found a combination of polymers which show a high success rate for nerve regrowth, which promises improved outcomes to patients with severed nerves.
  Oct 2: Quiz #3

Oct 16: Quiz #4

Oct 9   Thanksgiving — No Classes

Oct 23   Fall Break — No Classes

Nov 6
(Zakutney)
  Medical Devices, Biomedical Engineering Practice
Notes Slides #4E,
  Nov 6: Quiz #6

Oct 30 Nov 13   Cells and Electrophysiology
Notes: Slides #5A, Slides #5B (Green), Slides #5C, Slides #5D, Slides #5E, Slides #5F,

Relevant videos:

  Oct 30:
No Quiz

Nov 13:
Quiz #7

Nov. 9   Visit to Biomedical Engineering Department at CHEO, 9h00−11h00. Meet in main lobby of CHEO at 8:50am. Don't be late or you'll miss the tour!
Tour Agenda
Date: Thursday, November 9th, 2017
Time: 9:00am − 11.00am
Invitee: Students from Carleton and Ottawa University, Biomedical engineering grad students (30 students) taking the “Introduction to Biomedical Engineering” course BIOM 5010/BMG 5112.
8:50am−9:00am Kim, Rachel and Marie-Ange will meet the students at CHEO’s front door.
9:00am−9:15am The group will move to Kim’s office in Facilities Management (Room 1060). Coats and bags could be deposit. Given the small number of students, they will be divided in 2 groups.
9:15am−9:55am Rotations of presentations by the Clinical Engineering staff (20 mins each).
  • Rachel- Group 1 (Clinical Engineering Room 1197) by Mark Mini C-arm/Ultrasound/ Patient Monitor
  • Marie-Ange - Group 2 (Clinical Engineering Room 1055) by Marc B. Anesthesia machines: Zeus or Aestiva
9:55am−10:55am  Hospital Visit (~20 mins each for every site) Group will come together and rotate between Diagnostic Imaging & Dialysis Water system and PICU Flex rooms (or Neonatal Transport team). The meeting place would be:
  • Site 1: Water system: Water room, Dialysis department- Mark Heathcote, Aimee or Darryl
  • Site 2: PICU (or Neonatal Transport Team): Corridor next to the PICU 3513 room (next to elevator) by Vanessa
  • Site 3: DI: MRI corridor- Martin, Bernie & Scott (Room 6, 5, DR rooms, Diane Lupin (CT scan), Nuc Med or CathLab) Tour Guides: Rachel Zhang and Marie-Ange Janvier

Nov 20 Nov 27   Oxygen transport (heart and lungs)
Notes: Slides #6A, Slides #6B, Slides #6C, Slides #6D, Slides #6E, Slides #6F,
  Nov 20: Quiz #8

Nov 27:

Dec 4
(Speirs)
  Biomechanics
Notes: Slides #7A

Dec 7   Project Presentations: 9h30 − 12h30
Location: ME4359
9h35   Alex 9h45   Sinah 9h55   Trevor 10h05   Jennifer
10h15   Karan 10h25   Curtis 10h35   Laurie 10h45   Aishwasya
10h55 Break
11h05   Qi 11h15   Yangyu 11h25   Shuying 11h35   Simon
11h45   Ogochukwu 11h55   Kyla 12h05   Odai 12h15    

Dec 8   Project Presentations: 11h30 − 14h30
Location: ME4342
11h35   Calvin 11h45   Holly 11h55   Tarek 12h05   Mugdha
12h15   Scott 12h25   Bethany 12h35   Rinko 12h45   Naveena
10h55 Break
13h05   Mohammad 13h15   Shahin 13h25   Symon 13h35   Ashley
13h45   Hanif 13h55   Kiran Mayee 14h05   Maryam 14h15   Elliot

Dec. 15   Final Exam: 14h00−17h00

Last Updated: $Date: 2017-11-17 20:29:31 -0500 (Fri, 17 Nov 2017) $