When |
Where |
Who |
Mon 4-5 |
36-112 |
Shibal |
Tue 1:30-2:30 |
38-166 |
Pushpita |
Wed 4:30-5:30 |
34-301 |
Helen |
Introduces students to machine learning in healthcare, including the nature of clinical data and the use of machine learning for risk stratification, disease progression modeling, precision medicine, diagnosis, subtype discovery, and improving clinical workflows. Topics include causality, interpretability, algorithmic fairness, time-series analysis, graphical models, deep learning and transfer learning. Guest lectures by clinicians from the Boston area and course projects with real clinical data emphasize subtleties of working with clinical data and translating machine learning into clinical practice.
The schedule for classes is under significant revision throughout the semester.
Please visit our Canvas site to
access all slide decks, recitation materials, and more.
|
Class | Date | Lecture & Materials | Assignments |
---|---|---|---|---|
Overview of Clinical
Care & Data |
1 | Tue, Feb 6 |
Introduction: What makes healthcare unique? Reading: |
|
2 |
Thu, Feb 8 |
Overview of Clinical Care Reading: |
PS
0 out |
|
3 |
Tue, Feb 13 |
Overview of Clinical Data Science Reading: |
PS0 due |
|
ML with Clinical Text,
Imaging, Physiological, and Administrative Data |
4 |
Thu, Feb 15 |
Risk Stratification from Structured Health Data Reading:
|
ps1
out |
|
Tue, Feb 20
|
No class -- Monday schedule of classes | ||
5 | Thu, Feb 22 |
Cautionary Tales; Discussion of Project Ideas; Guest
speaker Dr. Leo Anthony Celi, BIDMC & IMES-LCP Description of possible class projects; Dr. Celi and Dr. Alexander Dale, MIT Solve Director of Global Programs. Reading:
|
||
6 | Tue, Feb 27 |
Risk Stratification as Regression; and Physiological Time-Series Reading: |
see potential project list |
|
7 |
Thu, Feb 29 |
Intro to Clinical NLP
Reading: Beam AL, Kompa B, Schmaltz A, Fried I, Weber
G, Palmer N, et al. Clinical
Concept Embeddings Learned from Massive Sources of
Multimodal Medical Data. In: Biocomputing
2020, p. 295-306.
|
ps1 due ps2 out |
|
8 |
Tue, Mar 5 |
Contemporary Clinical NLP Methods
[Pushpita]
Reading:
|
fill our project
preference form |
|
9 |
Thu, Mar 7 |
Survival Analysis, Censoring,
Proportional Hazard Models
Reading: |
||
Causal Inference
|
10 |
Tue, Mar 12 |
Causal Inference, Conditional Treatment
Effects Reading for lectures 10 and 11 (feedback form to be submitted after lecture 11): |
|
11 |
Thu, Mar 14 |
Causal Inference, continued, and Intro to
Reinforcement Learning |
ps2 due ps3 out |
|
12 |
Tue, Mar 19 |
Causal Inference, continued; policies,
instrumental variables, bias from unmeasured confounders No additional reading |
||
13 |
Thu, Mar 21 |
Dataset Shift Reading:
|
||
Real World Deployment Challenges
|
Mar 25-29 |
Spring Break -- No classes |
||
14 |
Tue, Apr 2 |
Learning with Noisy Labels, Weak Supervision
& In-context learning [Pushpita] Reading:
|
ps3 due |
|
15 |
Thu, Apr 4 | The future of EHRs; guest lecture by Dr.
Monica Agrawal Reading:
|
ps4
out |
|
16 |
Tue, Apr 9 |
ML for Drug Discovery and Repurposing; Guest
lecture by Prof. Jim Collins Reading: Stokes JM, Yang K, Swanson K, Jin W,
Cubillos-Ruiz A, Donghia NM, et al. A
Deep Learning Approach to Antibiotic Discovery.
Cell. 2020 Feb;180(4):688-702.e13.
|
||
17 |
Thu, Apr 11 |
Human-AI Collaboration in Clinical ML; guest
lecture by Hussein Mozannar Reading: |
||
18 |
Tue, Apr 16 |
Interpretability [Shibal and Helen] Reading:
|
ps4 due |
|
19 |
Thu, Apr 18 |
ML for Medical Imaging: algorithms &
applications; guest lecture by Dr. Alexander Goehler Readings:
|
||
20 |
Tue, Apr 23 |
Genomics in Medicine: practices and ethics;
guest lecture by Sarah Faye Gurev, Courtney Shearer, and
Rose Orenbuch Reading:
|
|
|
21 |
Thu, Apr 25 |
Methods for genomics in medicine; guest
lecture by Sarah Faye Gurev, Courtney Shearer, and Rose
Orenbuch Reading:
|
||
22 |
Tue, Apr 30 |
Fairness; Guest lecture by Prof. Marzyeh
Ghassemi Reading:
|
||
23 |
Thu, May 2 |
Flipping the clinic with AI: Medicine in the
absence of primary care; Guest lecture by Dr. Isaac Kohane,
Harvard Dept. of Biomedical Informatics
|
||
24 |
Tue, May 7 |
Privacy and Confidentiality Reading:
|
||
25 |
Thu, May 9 |
Regulation, Law and Deployment; Guest lecture
by Christopher Conley, JD, BU Law School Readings: |
||
26 |
Tue, May 14 |
Student Project Presentations -- Grier Room
(34-401), using posters |
||
May 20, 9am-noon |
Final Exam at Johnson Ice Rink |
Many of the lectures are associated with related papers that
should help you think about the lecture topic. For each reading
assignment, you are expected to submit a brief summary of the
three most important ideas of the paper, as short bullet points.
We are recruiting a group of doctors with interesting clinical
problems to mentor teams of students who will work on them. We
will form teams and match to problems/mentors a few weeks into the
class. We will release the project guidelines and detailed
information in Canvas. For now, please look at the list of proposed
projects here.
Scenarios:
Although you may choose to use generative AI tools to help think
through problems, any work you turn in is your responsibility.
Pedagogically, you will also learn much more from working through
any problem than from copying its answer from a tool or other
source. We may ask you to explain the rationale for an answer if
it appears that it is not original to you.