Machine Learning Summer School 2007 - Tuebingen

Introduction to bioinformatics

author:Gunnar Rätsch, Max Planck Institute
published: Aug. 20, 2007, recorded: August 2007, views: 2889

Slides

Slides
0:00	Machine Learning in Bioinformatics
0:55	Overview
2:22	Part I: Introduction to Bioinformatics
2:41	What is Bioinformatics? - Page 1
3:28	What is Bioinformatics? - Page 2
4:23	The Subject of Bioinformatics
4:41	The Three Kingdoms of Life
5:12	Basic Unit of Life: the Cell
5:45	Biology of the Cell
6:37	Short History of Genomics
7:59	Discovery of the Nuclein (Friedrich Miescher, 1869)
9:24	Structure of DNA
9:33	DNA Double Helix - Page 1
10:26	DNA Double Helix - Page 2
10:31	Chromosomes and DNA
11:17	Central Dogma
13:12	The Genome Encodes Genes
14:41	Protein Sequence
15:03	Levels of Protein Structure
15:48	Proteins Have Complex Shapes
16:14	Functions of Proteins - Page 1
17:05	Functions of Proteins - Page 2
17:21	Functions of Proteins - Page 3
17:30	Functions of Proteins - Page 4
18:33	Most Popular Types of Measurement Data
18:40	- Functions of Proteins - Page 4 - Part 2
19:00	- Central Dogma - Part 2
19:29	- The Genome Encodes Genes - Part 2
20:24	- Central Dogma - Part 3
21:12	- Most Popular Types of Measurement Data - Part 2
22:32	DNA Sequences
24:25	Population Data - Page 1
25:56	Population Data - Page 2
29:07	Gene Expression
31:37	Expression (of Proteins, Metabolites)
33:09	3D-Structures (of Proteins)
33:51	Interactions
34:30	Further Available Data Types . . .
35:05	Why Analyze These Data?
36:40	Lots of Different, Specialized Problems
37:04	Find Structure in DNA
38:27	Predict Protein Properties
39:54	Relate Molecular to Macroscopic Data
41:14	History of Bioinformatics
42:48	Bioinformatics
43:07	Challenges for Machine Learning
45:28	Resources

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Description

I will start by giving a general introduction into Bioinformatics, including basic biology, typical data types (sequences, structures, expression data and networks) and established analysis tasks. In the second part, I will discuss the problem of predictive sequence analysis with Support Vector Machines (SVMs). I will introduce a series of kernels suitable for different analysis tasks. Furthermore I will discuss the basic data structures needed for large scale learning and how to combine kernels for heterogeneous data. In the third part, I will focus on Hidden Markov models and discriminative alternatives like Conditional Random Fields and Hidden Markov SVMs suitable for segmentation tasks frequently appearing in Bioinformatics. In the last part I will present three applications in greater detail: A large margin alignment algorithm, computational gene finding and the identification of polymorphisms from resequencing arrays.

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Reviews and comments:

1 Chandan Datta, September 3, 2007 at 4:06 p.m.:

I hope Part 1 is uploaded soon

2 Manuel, November 20, 2007 at 9:33 a.m.:

Great, but the audio could have been better

3 macias, January 6, 2008 at 8:11 p.m.:

I can download part 1 but I cannot download any other part:
Playing http://velblod2.ijs.si/2007/pascal/ml....
Resolving velblod2.ijs.si for AF_INET6...
Couldn't resolve name for AF_INET6: velblod2.ijs.si
Resolving velblod2.ijs.si for AF_INET...
Connecting to server velblod2.ijs.si[193.2.4.216]: 80...
Cache size set to 320 KBytes

4 CLEMENT MWEYA, July 31, 2008 at 3:06 p.m.:

I really need to watch these video lectures but my internet connection in Tanzania has a very low speed. I can't even watch 1 minute online.
I need your help. Need to download these video lectures so as I can be able to watch them and revise.
Will help me a lot to integrate my basic science with bioiformatics
MSc Medical Parasitology and Entomology student
my email address is mweyaclement@gmail.com

5 Bipin Singh University of Allahabad, September 10, 2008 at 8:05 p.m.:

the video lectures are extremely good but there is some audio error at some point which could br resolved.Please provide the videos in .zip for easy and fast download.

6 Saad The Islamia Univ Pakistan, December 4, 2008 at 11:38 p.m.:

Excellent Tutorial ... Thanks for upload

7 m.rezaei, February 6, 2009 at 10:25 p.m.:

Due to low connection speed, it was impossible for me to
watch this video. Is it possible to download these videos?
I would appreciate if this is the case.

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