Harvard University, fas   
Fall 2003   

 

Biophysics 101

Genomics and Computational Biology

George Church, Ph.D. (HMS)


 

 

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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 the videos, you’ll need to have RealPlayer (www.real.com) installed.

 

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Sep 16

Integrate 1: Minimal Biosystems: BioComplexity; Replication; Exponential growth; Logistic equations; Statistics of single DNAs.
MS-PPT | PDF | Video

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)

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

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

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)

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

Oct 28

Protein 1: 3D structural genomics, homology, catalytic and regulatory dynamics, function & drug design.
MS-PPT | PDF | Video
Section notes | Biology Section Video

Nov 4

Protein 2: Mass spectrometry, post-synthetic modifications, quantitation of proteins, metabolites, & interactions.
MS-PPT | PDF | Video
Section notes | Biology Section Video

Nov 11

Networks 1: Systems Biology, Metabolic kinetic & flux balance optimization methods
MS-PPT | PDF | Video
Section notes | Biology Section Video

Nov 18

Networks 2: Molecular computing, self-assembly, genetic algorithms, neural networks
MS-PPT | PDF | Video
Section notes | Biology Section Video

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.

 

 

 

 

 

 

Ancient history of Biophysics 101

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