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Microarray methods

A microarray and subsequence technology, applied in biochemical equipment and methods, microbiological determination/inspection, material inspection products, etc., can solve problems such as optimizing hybridization conditions, increasing cross-hybridization and hybridization errors

Inactive Publication Date: 2008-12-31
西蒙斯单倍体有限公司
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Problems solved by technology

However, this approach is also believed to have flaws, one of the main problems being that since all probes are located on a single microarray chip, only one set of hybridization conditions can be employed for any given probe set.
This deficiency increases the potential for cross-hybridization and hybridization errors due to the inability to optimize hybridization conditions (such as ionic strength and temperature) individually for each probe

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Embodiment Construction

[0017] The present application presents an alternative approach to designing microarray probe sets capable of identifying genetic characteristics (such as single nucleotide polymorphisms; SNPs) or genetic linkage characteristics (such as phenotype) of organisms. This approach differs significantly from the in silico and in vivo methods used by skilled artisans to design probes suitable for screening samples by microarrays. Prior art methods involve detailed consideration of differences in nucleotide sequence, eg, found in alleles of a gene. Once such differences are identified, probes can be designed that specifically hybridize to a target nucleotide sequence within the gene. The hybridization pattern with the probe provides allelic information. This approach poses problems given that the hybridization of the oligonucleotide probe to the target sequence is suboptimal, so only simple Watson-Crick base pairing needs to be considered. Thus, the nucleotide sequence of the probe ...

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Abstract

The present invention provides a method for identifying a microarray probe set capable of identifying a member of a group of related nucleotide sequences, the method comprising the steps of providing a candidate probe set comprising at least one probe capable of differentially hybridizing to two or more members of the group of related nucleotide sequences, testing reactivity of the probe set against two or more members of the group of related nucleotide sequences, and observing the degree of difference in the patterns of reactivity of the probe set for the two or more members of the group of related nucleotide sequences.

Description

field of invention [0001] The present invention relates to methods for the detection of specific nucleic acid sequences in a sample containing a large number of such sequences, such as those derived from the complete genetic complements of mRNAs or genes of prokaryotic or eukaryotic cells. In particular, the invention relates to methods of screening probes for microarray applications. Background of the invention [0002] Microarray technology has revolutionized the field of genetics by providing the means to screen test mixtures containing nucleic acid molecules with large numbers of unique probes. Microarray analysis is known in the art as a classic 'precision in-precision out' technique. Based on sound experimental design, optimized procedures, properly designed array elements, perfectly designed probe sets, pure samples, robust manufacturing and surface chemistry, high quality screening, and properly employed sample tracking, quantification and data mining Experimentati...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/68G01N33/53G06F17/00
CPCC12Q1/6881C12Q2600/156
Inventor M·J·西蒙斯
Owner 西蒙斯单倍体有限公司
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