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Crop potential allergen detection and implementation method based on predicted weighted integration

A prediction weighting and prediction method technology, applied in special data processing applications, instruments, electrical digital data processing, etc., can solve the problems of high false positives, use restrictions, and high sensitivity, and achieve the effect of high accuracy and specificity

Inactive Publication Date: 2015-06-17
SHANGHAI JIAO TONG UNIV
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Problems solved by technology

The advantage of the FAO / WHO method is that it has high sensitivity, but the disadvantage is that it has a high number of false positives. About every 200 proteins predicted to be allergens by it are only 1 true allergen.
The second is the motif (motif)-based prediction method proposed in 2003, that is, the FAO / WHO rule 2, which uses the comparison of the protein to be tested and the allergen characteristic motifs. Compared with the sequence-based method, this method has To a certain extent, the specificity is improved and the false positive rate is reduced, but due to the limited motif of known allergens, the use of this type of method is limited
However, the detection sensitivity of this algorithm is lower than that of the FAO / WHO prediction method

Method used

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  • Crop potential allergen detection and implementation method based on predicted weighted integration
  • Crop potential allergen detection and implementation method based on predicted weighted integration
  • Crop potential allergen detection and implementation method based on predicted weighted integration

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Embodiment 1

[0028] Such as Figure 4 As shown, this embodiment includes the following steps:

[0029] Step 1, training positive set (allergen protein) and training negative set (non-allergen protein):

[0030] Allergen protein data set construction: its data sources include IUIS Allergen Nomenclature (International Union of Immunological Societies-allergen nomenclature table); Allergome (molecular database of allergen proteins), AllergenOnline (provides a protein with known allergens and allergens for risk assessment) celiac protein comparison service database), Allfam (a database of allergen protein family information), from which four species of allergen proteins of rice, wheat, corn, and soybean were extracted, and a total of 957 allergen protein information were obtained after removing redundancy , these proteins will be used as the positive set when training the model;

[0031] Non-allergen protein data set construction: To construct a feasible negative set, the following steps are...

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Abstract

The invention provides a crop potential allergen detection and implementation method based on predicted weighted integration. By utilizing weighted average of the normalized scores (WAS), prediction methods of a rule 1 and a rule 2 of FAO / WHO based on sequence similarity and a PREAL algorithm based on SVM are integrated, the performances and the coverage area of prediction are increased, and by introducing section information such as sequences and a secondary structure into a model as comprehensive as possible, allergen and non-allergen can be distinguished more clearly, so that the effect of improving the prediction accuracy is achieved.

Description

technical field [0001] The present invention relates to a technology in the field of gene detection, specifically a method for detecting potential allergens of crops based on predictive weighted integration, which is used to provide a reliable reference for the risk assessment of allergenicity of transgenic crops before they enter the food chain. Background technique [0002] Food allergy means that certain substances (mostly proteins) in food enter the body and are regarded as invading harmful substances by the immune system in the body, triggering the body's immunity and causing a series of complex reactions to the human body. About 25% of the world's population suffers from it. At present, the Chinese government regards biotechnology as one of the important ways to solve China's food security in the future, and it is very necessary to strengthen the risk assessment of allergenicity of genetically modified crops before they enter the food chain. [0003] At present, there...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/18
Inventor 李婧
Owner SHANGHAI JIAO TONG UNIV
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