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A method to determine the filter matrix in four‐dye fluorescence‐based DNA sequencing
Author(s) -
Huang Weian,
Yin Zhongbin,
States David J.,
Thomas Lewis J.,
Fuhrmann Daniel R.
Publication year - 1997
Publication title -
electrophoresis
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.666
H-Index - 158
eISSN - 1522-2683
pISSN - 0173-0835
DOI - 10.1002/elps.1150180106
Subject(s) - computer science , preprocessor , matrix (chemical analysis) , cluster analysis , divergence (linguistics) , dna sequencer , chromatography , dna sequencing , dna , chemistry , artificial intelligence , linguistics , philosophy , biochemistry
In a previous paper (Yin et al., Electrophoresis 1996, 17 , 1143–1150), an automated method for matrix determination in four‐dye fluorescence‐based DNA sequencing was presented. As a continuation of that work, we have developed an alternative method to estimate the matrix from raw sequence data. The method uses an iterative clustering technique to associate each 4 × 1 data vector with one column of the desired filter matrix, using Kullback's I‐divergence as a distance measure. The method requires less preprocessing of the data and less computation than the approach described by Yin et al. ( Electrophoresis 1996, 17 , 1143–1150). An example demonstrating applicability of the proposed method to Applied Biosystems sequencer data is given.