Data processing: measuring – calibrating – or testing – Measurement system in a specific environment – Biological or biochemical
Reexamination Certificate
2005-06-20
2009-12-22
Brusca, John S (Department: 1631)
Data processing: measuring, calibrating, or testing
Measurement system in a specific environment
Biological or biochemical
C536S024300
Reexamination Certificate
active
07636637
ABSTRACT:
The present invention provides novel method for increasing the efficiency and accuracy of high-throughput mutation mapping and genome resequencing by using a variable length probe selection algorithm to rationally select probes used in designing oligonucleotide arrays synthesized by Maskless Array Synthesis (MAS) technology. Also disclosed is a variable length probe selection algorithm used in designing such oligonucleotide arrays.
REFERENCES:
patent: 5143854 (1992-09-01), Pirrung et al.
patent: 6228575 (2001-05-01), Gingeras et al.
patent: 6375903 (2002-04-01), Cerrina et al.
patent: 6468744 (2002-10-01), Cronin et al.
patent: 2003/0235822 (2003-12-01), Lokhov et al.
patent: WO 01/05935 (2001-01-01), None
Albert et al. Light-directed 5′-3′ synthesis of complex oligonucleotide microarrays. Nucleic Acids Research, vol. 31, p. e35 (2003).
Anthony et al. Effect of Secondary Structure on single Nucleotide Polymorphism Detection wit a Porous Microarray Matrix; Implications for Probe Selection. BioTechniques vol. 34, pp. 1082-1089 (2003).
Rouillard et al. (OligoArray 2.0: design of oligonucleotide probes for DNA microarrays using a thermodynamic approach. Nucleic Acids Research vol. 31, pp. 3057-3062 (2003).
Hacia, J.G., “Resequencing and mutational analysis using oligonucleotide microarrays,” Nature Genetics Supplement 21:42-47 (1999).
Saiki, R.K., et al., “Genetic analysis of amplified DNA with immobilized sequence-specific oligonucleotide probes,” Proc. Natl. Acad. Sci. USA 86:6230-6234 (1989).
Anderson, M.L.M., “Hybridization Strategy,” Gene Probe 2: A Practical Approach, Hames et al. (ed.), IRL Press, Oxford pp. 1-29 (1995).
Nuwaysir, E.F., et al., “Gene Expression Analysis Using Oligonucleotide Arrays Produced by Maskless Photolithography,” Genome Research 12:1749-1755 (2002).
Wood, W.I., et al., “Base composition-independent hybridization in tetramethyl-ammonium chloride: A method for oligonucleotide . . . ,” Proc. Natl. Acad. Sci. USA 82:1585-1588 (1985).
Herold, Keith E. & Avraham Rasooly: Oligo Design: a computer program for development of probes for oligonucleotide microarrays; BioTechniques, vol. 35: 1216-1221 (Dec. 2003).
Singh-Gasson, Sangeet et al.: Maskless fabrication of light-directed oligonucleotide microarrays using a digital micromirror array; Nature Biotechnology, vol. 17: 974-978 (1999).
Albert Thomas
Green Roland
Norton Jason
Brusca John S
Quarles & Brady LLP
Roche NimbleGen, Inc.
LandOfFree
Variable length probe selection does not yet have a rating. At this time, there are no reviews or comments for this patent.
If you have personal experience with Variable length probe selection, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Variable length probe selection will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-4131918