Biological Sequences Analysis, spring semester 2008, MTA

Overview:

The course gives an introduction to the field of sequence analysis in bioinformatics.
During the course various approaches for sequence analysis, and corresponding tools will be taught.

Teaching instructors: Nimrod Rubinstein and Dudu Burstein.

Course hours: Thursday, 08:00-10:00.

Announcements:

23.09.08:

NEW!! Final project grades and final grades

Updated Syllabus

NEW!! Mid-term quiz + answers

05.04.08: HW1,question 3c: it should be "Hras" instead of "CD4".

Assignment and quiz grades

04.06.08:Final Project:

Final project guidelines
Final project checklist
Final project example

12.06.08:
HW2:
1. The phylogeny section is cancelled
2. The assignment should be submitted by email to Dudu by Sunday 15.06.08, 20:00
HW3:
Deadline for submission is: 26.06.08, 20:00, by email to Nimrod. Submission is optional
Final project important dates:
1. Each team should send an email to Nimrod or Dudu by 19.06.08, 20:00
2. Submission deadline is 13.08.08, 20:00. Works should be emailed to the instructor


Class Date Topic Presentation
Lesson 1 28.02.2008  Computational biology -
 revolutionizing science at the turn of the century		 1Revolution.ppt
Lesson 2 06.03.2008 Large scale part I - Sequencing 2-LargeScale.ppt
Lesson 3 13.03.2008 Aligning sequences and searching databases (BLAST) 3-pairwise_alignment.ppt
Lesson 4 20.03.2008 Multiple sequence alignment 4-multiple_sequence_alignment.ppt
Lesson 5 03.04.2008 Protein Prediction and Classification 5-protein_predictions.ppt
Lesson 6 10.04.2008 Inside the Genome 6-Inside_The_Genome.ppt
Lesson 7 15.05.2008 Phylogenetic trees and their uses 7-Phylogeny.ppt
Lesson 8 29.05.2008 Large scale - microarrays 8-LargeScale part 2.ppt
8.5E-Predict.ppt
Lesson 9 04.06.2008 Functional predictions in proteins (purifying and positive selection) 9-functional predictions.ppt
 

 

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Exercises Date Topic Presentation Home work Solution
Exercise 1 20.03.2008 Databases, pairwise alignment 1-databses_pairwiseAlignment.ppt - -
Exercise 2 22.05.2008 Prosite, UCSC genome browser, MSA and phylogeny 2-prosite_UCSC_MSA_phylo.ppt - -
Exercise 3 12.06.2008 ConSeq, ConSurf, and Selecton 3-evolutionary_rates.ppt -