Methods of detecting DNA variation in sequence data

Details Methods of detecting DNA variation in sequence data Methods of detecting DNA variation in sequence data

2008-07-15

2008-07-15

Clow, Lori A. (Department: 1631)

Data processing: measuring, calibrating, or testing

Measurement system in a specific environment

Biological or biochemical

C702S020000, C435S006120

Reexamination Certificate

active

07400980

ABSTRACT:
A method for detecting DNA variation. First, by aligning trace data of a sample DNA sequence to trace data of a reference DNA sequence to produce an aligned sample DNA sequence. Then, inputting the trace data of the bases of both the reference DNA sequence and the aligned sample DNA sequence for a particular frame number into a non-linear mathematical function of an anti-correlation calculation scheme for all the frame numbers. Minimal values will be produced at the particular frame number for DNA base trace data of the aligned sample DNA sequence which are not a variation as compared to the reference DNA sequence. Values above the minimal values will be produced at the particular frame number for DNA base trace data of the aligned sample DNA sequence which are a variation as compared to the reference DNA sequence.

REFERENCES:
Bonfield et al. (Nucleic Acids Research (1998) vol. 26, No. 14, pp. 3404-3409).
Staden et al. (Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins, Second Edition, Chapter 13. Sequence Assembly and Finishing Methods. Baxevanis et al. Eds., 2001, John Wiley and Sons, Published on the web on Jan. 11, 2001).

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