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Lecture Notes for
2003
The PPT files are subject to significant change up
to 4 PM the day of the lecture
(Tue). The lecture videos are usually available Wed afternoon. To watch
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Sep 16 |
Integrate 1: Minimal Biosystems:
BioComplexity; Replication; Exponential growth; Logistic equations;
Statistics of single DNAs.
MS-PPT
| PDF
| Video |
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Sep 23 |
Integrate 2: Optimal BioSystems:
Comparative genomics; metabolic, structural, & regulatory
network optimization concepts.
MS-PPT
| PDF
| Video
Section
1 notes | Biology Section Video | CS
Section Audio (The first 7.5 minutes of the audio are
inaudible) |
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Sep 30 |
DNA 1: Genotyping: What sequencing tells
us about populations, polymorphisms, pharmacogenomics; statistics
& databases.
MS-PPT
| PDF
| Video
Section
2 notes | Biology Section Video | Bio
Section notes |
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Oct 7 |
DNA 2: Biome sequencing: What it tells us
about conserved functions. Dynamic programming, Blast,
Multi-alignment, HiddenMarkovModels.
MS-PPT
| PDF
| Video
Section
3 notes | Biology Section Video | CS
Section Audio (covering material from sections 2 and 3) | Bio
Section notes |
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Oct 14 |
RNA 1: Quantitation concepts; Microarrays,
library sequencing
MS-PPT
| PDF
| Video
Section
4 notes | Biology Section Video
Using
Microarrays (in-lab photos, PDF) |
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Oct 21 |
RNA 2: Clustering by gene or condition and other
regulon data sources Nucleic acid motifs; the nature of biological
"proofs".
MS-PPT
| PDF
| Video
Section
notes | Notes
w/answers | Biology Section Video |
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Oct 28 |
Protein 1: 3D structural genomics, homology,
catalytic and regulatory dynamics, function & drug design.
MS-PPT
| PDF
| Video
Section
notes | Biology Section Video |
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Nov 4 |
Protein 2: Mass spectrometry, post-synthetic
modifications, quantitation of proteins, metabolites, &
interactions.
MS-PPT
| PDF
| Video
Section
notes | Biology Section Video |
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Nov 11 |
Networks 1: Systems Biology, Metabolic kinetic
& flux balance optimization methods
MS-PPT
| PDF
| Video
Section
notes | Biology Section Video |
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Nov 18 |
Networks 2: Molecular computing, self-assembly,
genetic algorithms, neural networks
MS-PPT
| PDF
| Video
Section
notes | Biology Section Video |
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Nov 25
Dec 9
Dec 16 |
Networks 3: The future of computational biology:
Cellular, developmental, social, ecological & commercial models.
MS-PPT
| PDF
| Video
Section
notes | Biology Section Video
Student presentations: final project
Video
Student presentations: final project
Video |
Lectures for 2000-1,2001-2,
2002-3. |
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