Gene Recognition and Cross-annotation

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Gene Structure

The Structure of a Gene

Gene Recognition

Approaches for Gene Recognition

Overall Performance of Approaches

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A New Approach: Cross-species Comparison

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Comparing Human and Mouse DNA

Idea for Gene Recognition

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Algorithm of GLASS

Our Database

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A Gene Model

Exon Signals

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Acknowledgements

Dictionary Based Approach

Learning and Statistical Approaches to Gene Recognition

Other Approaches to Gene Recognition

Overall Performance of Approaches

ICE (Identification of Coding Exons) Program

ICE Sample Output

The Subproblem

The Dictionary

Use Dictionary to Find All Longest Common Matches of Length at Least k

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Example: Human Id3 Gene Matched to Non-redundant OWL Protein Dictionary Using k=8

Dynamic Programming Algorithm

Example of Novel Application

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Author: Bonnie Berger

Email: bab@theory.lcs.mit.edu

Home Page: http://theory.lcs.mit.edu/~bab/01-18.417-home.html

Other information:
18.417 Fall 2001 - Bonnie Berger - For class use only