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Method for identifying differential genes of gene chips

A gene chip and identification method technology, applied in the field of molecular biology, can solve the problems of difficulty in estimating sensitivity and specificity, small number of samples, and high price of gene chips.

Inactive Publication Date: 2016-02-10
GENERGY BIO TECH SHANGHAI CO LTD
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

However, in practice, due to the high price of the gene chip and the small number of samples, the current analysis method of this type of chip data is basically an empirical algorithm, and its sensitivity and specificity are difficult to estimate and have large errors.

Method used

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Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0015] Step 1, performing normalization processing on the gene data of the chip to obtain the normalized data D of the gene data of each chip;

[0016] This step is mainly used to extract the genetic data on the chip and perform normalization processing to facilitate subsequent comparison. For example, GenePixpro4.0 is used to obtain the expression value data at the gene level, and then the chip data is normalized between chips.

[0017] Step 2, obtaining the known gene sequence library L;

[0018] The gene sequence library here can be obtained from various public methods. In addition, the gene sequence library here can be limited to the genes that need to be confirmed by the chip; or the gene library of the category to which the target gene of the chip belongs can also be selected. The principle is to complete gene comparison coverage as much as possible. And get the normalized data DL of each gene in the library.

[0019] Step 3, set the difference threshold T; the thres...

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Abstract

The invention belongs to the technical field of molecular biology and discloses a method for identifying differential genes of gene chips. The method is characterized by including steps: subjecting chip gene data to normalization to obtain normalized data D of the chip gene data; acquiring a known gene sequence library L and normalized expression DL of the chip gene data; setting a difference threshold T, and comparing genes in the gene chips with genes in a gene pool to obtain differences DIFF, wherein DIFF=D-DL; if the differences DIFF of all genes in the gene pool and genes in the gene chips are larger than the threshold T, defining the genes as differential genes. The method is applicable to small-sample gene chip experimental design and overcomes the defect of difficulty in identification of differential genes of small-sample gene chips according to conventional methods.

Description

technical field [0001] The invention belongs to the technical field of molecular biology and the field of information technology. The invention relates to a gene chip differential gene identification method, and the method is suitable for the gene chip experimental design of small samples. Background technique [0002] Gene chip refers to regularly arrange many oligonucleotides or cDNA fragments with known sequences on the substrate, and hybridize the sample to be tested with the principle of complementary pairing of the chip. The chip is scanned by the fluorescent detection system, and the computer system is used to detect and compare the fluorescent signals on each probe, so that the experimental results can be obtained quickly. Gene chips can quickly, accurately and efficiently detect the expression levels of a large number of genes, and only need a small amount of samples. Gene chip technology is effective and widely used. [0003] The identification of differential ...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/68
Inventor 严冰冰易雪莲邹晓文孔祥生
Owner GENERGY BIO TECH SHANGHAI CO LTD