lect 16.3 - Microarray analysis with Bioconductor & R...

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Microarray analysis with Bioconductor & R Aedín Culhane http://compbio.dfci.harvard.edu/courses/bioconductor
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Tutorial and Demos (provided in training session) • Introduction to R – From bio503 http://isites.harvard.edu/icb/icb.do?keyword=k16416 – See course website for further lecture notes, homework and useful web links • Introduction to Bioconductor – Previous lectures, tutorial and useful links – http://compbio.dfci.harvard.edu/courses/bioconductor/
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Our bodies are pretty Our bodies are pretty amazing amazing What defines normal What defines normal physiology or disease, physiology or disease, How do we define a cancer How do we define a cancer subtype or patient subtype or patient population population How to predict response How to predict response to drug treatment in a to drug treatment in a clinical trial clinical trial We need to learn a little cell We need to learn a little cell biology biology
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what regulates each cell? At the core of each cell is the nucleus which contains the DNA. At the core of each cell is the nucleus which contains the DNA. DNA which we inherit from our parents. The cell DNA which we inherit from our parents. The cell ’s blueprints s blueprints
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DNA Evolved over millions of Evolved over millions of years. years. The DNA from a single The DNA from a single human cell has a length human cell has a length of ~1.8 m (but a width of of ~1.8 m (but a width of ~2.4 nanometers). ~2.4 nanometers). It contains 3 billion base It contains 3 billion base pairs pairs That a lot of information That a lot of information
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February 2001: Completion of the Draft Human Genome Public HGP Celera Genomics Slide from Prof J Quackenbush
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Beyond the Genome Project Beyond the Genome Project • The Genome Project gave us a preliminary, catalogue of genes • The challenge now is to place those genes into a biological context • We want to discover gene functions, disease associations, and to link genes together in networks and pathways • One way to approach this problem is to ask, “What genes turn on and off under various circumstances?” Slide from Prof J Quackenbush
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1 2 3 4 5 6 7 8 9 10 S1 S3 S5 S7 S9 S11 0 50 100 150 200 250 300 350 400 450 500 Following gene expression through Following gene expression through physiological and pathological changes physiological and pathological changes Normal Normal Pre Pre -Cancerous Cancerous Cancer Cancer A B C E x p r e s i o n L v l A B C A B C Slide from Prof J Quackenbush
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The Pivotal Role of RNA RNA is the RNA is the intermediary intermediary between the genes and the proteins between the genes and the proteins that are the that are the “machinery machinery ” of the cell. of the cell.
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The Central Dogma of Molecular The Central Dogma of Molecular Biology Biology DNA DNA - information storage, can be duplicated.
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This note was uploaded on 07/29/2010 for the course BIOC BIOC2808 taught by Professor Dr.jjwang during the Fall '09 term at HKU.

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lect 16.3 - Microarray analysis with Bioconductor & R...

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