Table of contentsThe HAMAP project
Going from microbial genomes to microbial proteomes
Microbial genome sequencing
Complete genomes of human pathogens
From a genome to a proteome
Some preliminary assumptions
A typical day in the life of a modern bioinformatician
What can we do in SWISS-PROT to cope with all these microbial genome sequences?
HAMAP
Access to proteomes of complete microbial genomes
Categorization of the annotations tasks for a complete microbial proteome
General flow chart
HAMAP flow chart 1
HAMAP flow chart 2
Automatic annotation of microbial proteins with “0 neighbor”
An example: Before automatic annotation (1)
An Example: After automatic annotation (2)
Inteins annotation
Pre-annotation of proteins belonging to large/complex families
Automatic annotation of proteins belonging to specified families (1)
Automatic annotation of proteins belonging to specified families (2)
An excerpt of an entry in the microbial organism rule file (1)
An excerpt of an entry in the microbial organism rule file (2)
An example of a family rule (1)
An example of a family rule (2)
An example of a family rule (3)
An example of a family rule (4)
Examples of checking rules
Additional clean up tasks
Integrating high throughput proteomics information
The case of the Escherichia coli proteome
Extension of HAMAP
The HAMAP project participants
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