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