NEWS AND ANNOUNCEMENTS

12/3: The project presentation ppt template is here and also in the class schedule below
12/3: I will be available for project presentations on Monday 12/10 and Tuesday 12/11 from 12-6PM. Please send me email to schedule 30 minutes slot of your choice.



COURSE SCHEDULE & SLIDES



Date Topic Slides PDF Updated Notes/Assignments
9/4 Ch1: Biology Primer 1.0 Course intro slides ; 1.1 Biology Primer
9/3 4PM Welcome to the new academic year and to W4761!!
9/6 Ch1: Biology Primer 1.2 Basic Experimental Methods
9/6 11AM --
9/11 Ch2: Sequence Alignment 2.1 Pairwise Sequence Alignment
9/10 7PM Assignment 2.1: Pairwise Alignment
Assignment 2.1: Solutions
9/13 Rosh Hashana; Happy New Year!! No Class
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9/18 Ch2: Sequence Alignment 2.2 Scoring Matrices
9/18 12:30PM --
9/20 Ch2: Sequence Alignment 2.3 Searching Sequence Databases
9/25 1:30AM --
9/25 Ch2: Sequence Alignment 2.4 Multiple Sequence Alignment
9/25 1:30PM Assignment 2.4: Multiple Sequence Alignment (Posted 9/27)
Assignment 2.4: Solutions
9/27 Ch3: Phylogenetics 3.1 Introduction to Phylogenetics
9/27 11:00AM --
10/2 Ch3: Phylogenetics 3.2 Computing Phylogeny
10/2 3:00PM --
10/4 Ch3: Phylogenetics 3.3 Markovian Models
10/4 2:00PM --
10/9 Ch4: Hidden Markov Models (HMM) 4.1 HMM Introduction
4.2 Computing Likelihood
4.3 HMM Training
Updated 4.3; 2PM 10/11 --
10/11 Ch4: Hidden Markov Models (HMM) 4.4 HMM Applications
3PM 10/18 updated Assignment 4.4: Hidden Markov Modeling (Posted 10/16)
Assignment 4.4: Solutions
10/16 Ch5: Microarrays 5.1 Microarrays Introduction
11:45AM 10/16 --
10/18 Ch5: Microarrays 5.2 Microarrays Basic Analysis
2PM 10/18 --
10/23 Ch5: Microarrays 5.3 Microarrays Advanced Analysis
12:30PM 10/25 Assignment 5.3: SVM classification (Posted 11/1)
10/25 Ch6: Regulatory Networks 6.1 Introduction to Regulatory Mechanisms
12:30PM 10/25 --
10/30 Ch6: Regulatory Networks 6.2 Analyzing Regulation
2PM 10/30 --
11/1 Ch6: Regulatory Networks 6.3 Boolean Network Models
1:30PM 11/8 --
11/6 Elections Day University Holiday
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11/8 Ch6: Regulatory Networks 6.4 Synthetic Biology
1:30PM 11/8 --
11/13 Ch 7: Bayesian Networks Techniques Prof. D. Pe'er's notes
Spring 07 Slides by Prof D. Pe'er
11/15 Ch7: Bayesian Networks Techniques Spring 07 --
11/20 Ch8: Network Topology 8.1 Introduction
12:30 11/20 --
11/22 Happy ThanksGiving!!! University Holiday
Spring 07 --
11/27 Ch8: Network Topology 8.2 Network Motifs
11/27 2PM --
11/29 Ch8: Network Topology 8.3 Network Dynamics
11/29 2:30PM --
12/4 Ch9: Metabolic Networks Project PPT Template
9.1 Introduction; Flux Based Analysis
12/4 12:30PM --
12/6 Ch9: Metabolic Networks 9.2 Applications
; Concluding Notes
12/6 1PM --