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Computational Analysis of Transcript Identification Using GenBank.

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Presentation on theme: "Computational Analysis of Transcript Identification Using GenBank."— Presentation transcript:

1 Computational Analysis of Transcript Identification Using GenBank

2 Differentiation of hematopoietic cells

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6 Genome-wide gene expression

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18 SAGE (Serial Analysis of Gene Expression)

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21 SAGE & GLGI Overview

22 SAGE tags match to many genes (Tags from Hashimoto S, et al. Blood 94:837, 1999)

23 Tag Frequency Groups for 10-base Tag Set Containing 878,938 Tags for UniGene Human

24 Unique Tags among 878,938 EST Derived Tags

25 Unique Tags among 32,851 Gene Derived Tags

26 Converting tag into longer 3’ sequence

27 Generation of Longer 3'cDNA for Gene Identification (GLGI)

28 UniGene Human 3’ Part Length Distribution

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30 Number of Tags which Move for k to k+25

31 Unique Tags among 878,938 EST Derived Tags

32 Unique Tags among 32,851 Gene Derived Tags

33 Idealized Construction

34 Random Model

35 Ideal Case Tag Count Progression

36 Myeloid Tag Matches with UniGene Human SAGE Tag Reference Database

37 SAGE Tag Processing with GIST

38 k-mer tree

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40 GIST Performance with Improved IO

41 Conspirators Sanggyu Lee Janet D. Rowley San Ming Wang Terry Clark Andrew Huntwork Josef Jurek L. Ridgway Scott


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