From ac6af0539a706bdcfb12ed6e65a1bd00ead8b1d5 Mon Sep 17 00:00:00 2001 From: marinkaz Date: Sat, 2 Mar 2024 18:50:48 -0500 Subject: [PATCH] Add lecture on ethical and legal considerations for biomedical AI --- _modules/week-12.md | 9 +++++---- _modules/week-13.md | 6 +++--- _modules/week-14.md | 6 +++--- lectures/module6/index.md | 2 +- lectures/module6/week12.md | 21 --------------------- lectures/module6/week13.md | 20 +++++++++----------- lectures/module6/week14.md | 23 +++++++++++++++++++++++ lectures/{week14.md => week12.md} | 8 ++++---- 8 files changed, 48 insertions(+), 47 deletions(-) delete mode 100644 lectures/module6/week12.md create mode 100644 lectures/module6/week14.md rename lectures/{week14.md => week12.md} (96%) diff --git a/_modules/week-12.md b/_modules/week-12.md index d560f03..ca00593 100644 --- a/_modules/week-12.md +++ b/_modules/week-12.md @@ -2,12 +2,13 @@ title: Week 12 --- -AI-guided drug design, small-molecule generation, molecule optimization, identification and characterization of therapeutic targets, design of chemical and genetic perturbations +Introduction to ethical frameworks, data privacy, regulation and liability aspects of AI -Apr 18 -: **Module 6**{: .label .label-blue }**Lecture**{: .label .label-purple }[Generative AI Part I](/BMI702/lectures/module6/week12) - : [Slides](#), [Reading List](/BMI702/lectures/module6/week12) +April 18 +: **Lecture**{: .label .label-purple }[Ethical and legal considerations for biomedical AI ](/BMI702/lectures/week14) + : [Slides](#), [Reading List](/BMI702/lectures/week12) Apr 19 : **Quiz**{: .label .label-green }[Week 13 pre-class quiz](#) (due Apr 25) : [Canvas](https://canvas.harvard.edu/courses/134015) + diff --git a/_modules/week-13.md b/_modules/week-13.md index 452ec22..8d45901 100644 --- a/_modules/week-13.md +++ b/_modules/week-13.md @@ -2,10 +2,10 @@ title: Week 13 --- -Protein design and digital twins +AI-guided drug design, small-molecule generation, molecule optimization, identification and characterization of therapeutic targets, design of chemical and genetic perturbations Apr 25 -: **Module 6**{: .label .label-blue }**Lecture**{: .label .label-purple }[Generative AI Part II](/BMI702/lectures/module6/week13) +: **Module 6**{: .label .label-blue }**Lecture**{: .label .label-purple }[Generative AI Part I](/BMI702/lectures/module6/week13) : [Slides](#), [Reading List](/BMI702/lectures/module6/week13) Apr 26 @@ -14,4 +14,4 @@ Apr 26 Apr 26 : **PSet due**{: .label .label-yellow }[PSet 3: Biomedical imaging methods and applications](#) - : [Canvas](https://canvas.harvard.edu/courses/134015) \ No newline at end of file + : [Canvas](https://canvas.harvard.edu/courses/134015) diff --git a/_modules/week-14.md b/_modules/week-14.md index 332e4e7..24e480d 100644 --- a/_modules/week-14.md +++ b/_modules/week-14.md @@ -2,9 +2,9 @@ title: Week 14 --- -Introduction to ethical frameworks, data privacy, regulation and liability aspects of AI +Protein generation and optimization, other emerging uses of generative AI May 2 -: **Lecture**{: .label .label-purple }[Ethical and legal considerations for biomedical AI ](/BMI702/lectures/week14) - : [Slides](#), [Reading List](/BMI702/lectures/week14) +: **Module 6**{: .label .label-blue }**Lecture**{: .label .label-purple }[Generative AI Part II](/BMI702/lectures/module6/week14) + : [Slides](#), [Reading List](/BMI702/lectures/module6/week14) diff --git a/lectures/module6/index.md b/lectures/module6/index.md index 6e9ed66..10a999c 100644 --- a/lectures/module6/index.md +++ b/lectures/module6/index.md @@ -1,6 +1,6 @@ --- layout: default title: M6 - Generative AI -nav_order: 9 +nav_order: 10 has_children: true --- diff --git a/lectures/module6/week12.md b/lectures/module6/week12.md deleted file mode 100644 index 7a550aa..0000000 --- a/lectures/module6/week12.md +++ /dev/null @@ -1,21 +0,0 @@ ---- -layout: page -title: Generative AI Part I -nav_order: 1 -parent: M6 - Generative AI -description: BMI 702 - Foundations in Biomedical Informatics II - Biomedical Artificial Intelligence ---- - -# Week 12 - Generative AI Part I - -## Required Reading (Week 12 Pre-Class Quiz) - -* [A deep learning approach to antibiotic discovery](https://www.sciencedirect.com/science/article/pii/S0092867420301021) -* [Sparse dictionary learning recovers pleiotropy from human cell fitness screens](https://www.cell.com/cell-systems/fulltext/S2405-4712(21)00488-9) - -## Optional Reading - -* [Applications of machine learning in drug discovery and development](https://www.nature.com/articles/s41573-019-0024-5) -* [Artificial intelligence foundation for therapeutic science](https://www.nature.com/articles/s41589-022-01131-2) -* [Therapeutics Data Commons](https://tdcommons.ai) -* [Identification of disease treatment mechanisms through the multiscale interactome](https://www.nature.com/articles/s41467-021-21770-8) \ No newline at end of file diff --git a/lectures/module6/week13.md b/lectures/module6/week13.md index 3cf6222..1b1bc85 100644 --- a/lectures/module6/week13.md +++ b/lectures/module6/week13.md @@ -1,23 +1,21 @@ --- layout: page -title: Generative AI Part II -nav_order: 2 +title: Generative AI Part I +nav_order: 1 parent: M6 - Generative AI description: BMI 702 - Foundations in Biomedical Informatics II - Biomedical Artificial Intelligence --- -# Week 13 - Generative AI Part II +# Week 13 - Generative AI Part I ## Required Reading (Week 13 Pre-Class Quiz) -* [Biomarkers as drug development tools: discovery, validation, qualification and use](https://www.nature.com/articles/s41584-018-0005-9) -* [Machine learning identifies candidates for drug repurposing in Alzheimer's disease](https://www.nature.com/articles/s41467-021-21330-0) - +* [A deep learning approach to antibiotic discovery](https://www.sciencedirect.com/science/article/pii/S0092867420301021) +* [Sparse dictionary learning recovers pleiotropy from human cell fitness screens](https://www.cell.com/cell-systems/fulltext/S2405-4712(21)00488-9) ## Optional Reading -* [Zero-shot prediction of therapeutic use with geometric deep learning and clinician centered design](https://www.medrxiv.org/content/10.1101/2023.03.19.23287458) -* [Can you teach old drugs new tricks?](https://www.nature.com/articles/534314a) -* [The potential of artificial intelligence to improve patient safety: a scoping review](https://www.nature.com/articles/s41746-021-00423-6) -* [Population-scale identification of differential adverse events before and during a pandemic](https://www.nature.com/articles/s43588-021-00138-4) -* [Clinical biomarkers in drug discovery and development](https://www.nature.com/articles/nrd1130) \ No newline at end of file +* [Applications of machine learning in drug discovery and development](https://www.nature.com/articles/s41573-019-0024-5) +* [Artificial intelligence foundation for therapeutic science](https://www.nature.com/articles/s41589-022-01131-2) +* [Therapeutics Data Commons](https://tdcommons.ai) +* [Identification of disease treatment mechanisms through the multiscale interactome](https://www.nature.com/articles/s41467-021-21770-8) \ No newline at end of file diff --git a/lectures/module6/week14.md b/lectures/module6/week14.md new file mode 100644 index 0000000..27e3487 --- /dev/null +++ b/lectures/module6/week14.md @@ -0,0 +1,23 @@ +--- +layout: page +title: Generative AI Part II +nav_order: 2 +parent: M6 - Generative AI +description: BMI 702 - Foundations in Biomedical Informatics II - Biomedical Artificial Intelligence +--- + +# Week 14 - Generative AI Part II + +## Required Reading (Week 14 Pre-Class Quiz) + +* [Biomarkers as drug development tools: discovery, validation, qualification and use](https://www.nature.com/articles/s41584-018-0005-9) +* [Machine learning identifies candidates for drug repurposing in Alzheimer's disease](https://www.nature.com/articles/s41467-021-21330-0) + + +## Optional Reading + +* [Zero-shot prediction of therapeutic use with geometric deep learning and clinician centered design](https://www.medrxiv.org/content/10.1101/2023.03.19.23287458) +* [Can you teach old drugs new tricks?](https://www.nature.com/articles/534314a) +* [The potential of artificial intelligence to improve patient safety: a scoping review](https://www.nature.com/articles/s41746-021-00423-6) +* [Population-scale identification of differential adverse events before and during a pandemic](https://www.nature.com/articles/s43588-021-00138-4) +* [Clinical biomarkers in drug discovery and development](https://www.nature.com/articles/nrd1130) \ No newline at end of file diff --git a/lectures/week14.md b/lectures/week12.md similarity index 96% rename from lectures/week14.md rename to lectures/week12.md index 918c4a6..c5f3efa 100644 --- a/lectures/week14.md +++ b/lectures/week12.md @@ -1,13 +1,13 @@ --- layout: page -title: Week 14 - Ethical & Legal -nav_order: 10 +title: Week 12 - Ethical & Legal +nav_order: 9 description: BMI 702 - Foundations in Biomedical Informatics II - Biomedical Artificial Intelligence --- -# Week 14 - Ethical & Legal Considerations for Biomedical AI +# Week 12 - Ethical & Legal Considerations for Biomedical AI -## Required Reading (Week 14 Pre-Class Quiz) +## Required Reading (Week 12 Pre-Class Quiz) * [Privacy in the age of medical big data](https://www.nature.com/articles/s41591-018-0272-7) * [Ethical and legal aspects of ambient intelligence in hospitals](https://jamanetwork.com/journals/jama/fullarticle/2759956)