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Detecting Polymorphisms in
Mouse Genome
Phillip Tao
Advisor: Eleazar Eskin
Grad Student: Emrah Kostem
Ruby on Rails
Using Ruby on Rails to create web server
 MySQL to store data
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Display data gathered using BLAT
Pygr
Python based tool for sequencing data
 Can compare two or more strains
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Tried using to find inversions
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Takes too long / too resource intensive
BLAT
Similar in function to Pygr
 Significantly less memory intensive
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Will be used to find and map polymorphisms
Roadmap
Significantly less progress than expected
 Web server mostly functional by January
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Winter quarter to map polymorphisms
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Spring quarter to use map of polymorphisms
and predict phenotype