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A methylation and action technology, applied in the field of biological information, can solve the problems of high cost, time-consuming, limitation, etc., and achieve the effect of low cost and time saving
Active Publication Date: 2014-02-05
SHENZHEN INST OF ADVANCED TECH
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[0007] The embodiment of the present invention provides a method and device for predicting methylation, aiming to solve the problem that the method for measuring methylation provided by the prior art is not only very time-consuming, but also expensive and limited by enzyme reactions. question
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Embodiment 1
[0047] figure 1 The implementation process of the method for predicting methylation provided by Embodiment 1 of the present invention is shown, and the details are as follows:
[0048] In step S101, the methylation data is downloaded.
[0049] In this embodiment, the methylation data can be obtained by downloading the website: http: / / dbptm.mbc.nctu.edu.tw / download.php, and the data comes from the database: dbPTM. The downloaded data is stored in the files Methylation_K.txt and Methylation_R.txt. Methylation_K.txt includes the data of methylation by lysine (K), and Methylation_R.txt includes the data of methylation by arginine (R). The role of the data, in the specific implementation, it is necessary to classify and predict the data in the two documents Methylation_K.txt and Methylation_R.txt respectively.
[0050] In step S102, the original protein sequence data is obtained according to the methylated data.
[0051] In this embodiment, the process of obtaining raw protein s...
Embodiment 2
[0114] figure 2 A specific structural block diagram of the methylation prediction device provided by Embodiment 2 of the present invention is shown. For the convenience of description, only the parts related to the embodiment of the present invention are shown. The methylation prediction device 2 includes: a data download unit 21 , an original data acquisition unit 22 , a preprocessing unit 23 , an encoding unit 24 and a classification unit 25 .
[0115] Wherein, the data downloading unit 21 is used for downloading the methylated data;
[0116] Raw data acquisition unit 22, configured to acquire raw protein sequence data according to the methylated data;
[0117] A preprocessing unit 23, configured to preprocess the original protein sequence data to obtain a positive data set and a negative data set;
[0118] An encoding unit 24, configured to encode the character string data in the positive data set and the negative data set to obtain numerical data;
[0119] The classifi...
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Abstract
The invention is suitable for the technical field of biological information and provides a method and a device for predicting methylation. The method comprises the following steps of: downloading to obtain methylated data; according to the methylated data, acquiring original protein sequence data; carrying out preprocessing on the original protein sequence data to obtain a positive data set and a negative data set; carrying out encoding on character string data in the positive data set and the negative data set to obtain numeric data; carrying out modeling on the numeric data in the positive data set and the negative data set by utilizing a classification algorithm, calculating the optimal division mode according to a model obtained by modeling, and finally, according to the division mode, dividing the data which need to be predicted whether to be methylated into two categories in a centralized mode, wherein one category is the methylated data and the other category is data which are not methylated. According to the invention, personnel do not need to participate, a graph also does not need to be drawn, time can be saved and cost is low.
Description
technical field [0001] The invention belongs to the technical field of biological information, and in particular relates to a method and a device for predicting methylation. Background technique [0002] Methylation is an important modification of proteins and nucleic acids. It regulates the expression and shutdown of genes. It is closely related to many diseases such as cancer, aging, and Alzheimer's. It is one of the important research contents of epigenetics. Therefore, understanding the mechanism of specific methylation will affect many fields of current molecular biology, and will also be of great help to disease-related research and drug design. [0003] Joseph Ecker of the Salk Institute for Biological Studies and colleagues have just used high-throughput sequencing to reveal a complete map of all methylcytosines in human embryonic stem cells. Meissner of the Whitehead Research Institute in the United States also drew a similar map. Using high-throughput bisulfite s...
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