open source and the human genome project - bioinformatics · the human genome project. slightly...
TRANSCRIPT
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Open Source and the HumanGenome Project
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About this talk
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•who I am
•what I do
•overview»
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•Introduction
•Crash course in Molecular biology
•The Human Genome Project
•“Gene patenting”
•Open Source bioinformatics
•The next wave
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Molecular biology:a crash course
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The central dogma
protein
RNA
DNA
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Protein synthesis and disease
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The beads of a protein chain
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Cyro-electron micrograph ofvery large protein machine
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the central dogma
Protein
RNA
DNA
the levels of protein organization
quaternary
tertiary
secondary
primary
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The big three
• Sexual reproduction• Consciousness• Protein folding
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The Human Genome Project
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slightly modified from:
Boguski: Science (1999) vol. 286, pp453-455
Growth in number of DNA sequences obtained
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Moore’s Law as applied to Intel CPUs
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The Sanger Centre
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A sequencing farm
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Sanger Centre data storage
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Progress in HGP
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Structure of a gene
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GeneSweep entries
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“Patenting genes”
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•Novelty•Invention•Utility•not Excluded
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Differences in U.S.
•Year’s grace•“Utility” narrower
�e.g. U.S. requires clinical data•Filing date
�U.S. “first to invent”
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Open Source Bioinformatics
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Ensembl aims
•Find all protein-coding genes•(guess at gene identity)•distribute the data•find additional features
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EMBOSS
•EMBOSS•NUCLEUS
�bioinformatics-specific code•AJAX
�data structures
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The next wave
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Acknowledgments• Steve Roberts• Keith Willison• Malcom Herbert• Gino Bellavia