A method to determine the filter matrix in four-dye fluorescence-based DNA sequencing.
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 x 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.
Huang
W
W
Biomedical Computer Laboratory, Washington University, St. Louis, MO 63130, USA.
Yin
Z
Z
Fuhrmann
D R
DR
States
D J
DJ
Thomas
L J
LJ
D000465:Algorithms; D005456:Fluorescent Dyes; D008433:Mathematics; D017422:Sequence Analysis, DNA / Q000379:methods*
D005456:Fluorescent Dyes