CN-120526844-B - Genome DNA automatic extraction and purification system based on algorithm model

CN120526844BCN 120526844 BCN120526844 BCN 120526844BCN-120526844-B

Abstract

The invention relates to the field of biotechnology and automation, in particular to an automatic extraction and purification system for genome DNA based on an algorithm model. The system comprises a sample processing module, a parameter calculation module, a training unit and a prediction unit, wherein the sample processing module collects initial biomass data and historical experimental data to construct real sample characteristics and historical sample characteristics, the parameter calculation module constructs sub-models corresponding to all operation phases of DNA extraction, the sub-models comprise the training unit and the prediction unit, the training unit trains the historical sample characteristics as a training set, the prediction unit inputs the real sample characteristics into the trained sub-models to obtain the optimal operation parameters, and the extraction module receives the optimal operation parameters to set the optimal operation parameters of the automatic equipment and then extracts the DNA. The invention can remarkably improve the automation level of DNA extraction, improve the efficiency and simultaneously can meet the precision requirement of the modern biotechnology.

Inventors

ZOU QIN
LIANG BAOXIA
CHEN JINHUI
YE JINGTONG
XIE JINQUAN
LIANG QINGRU

Assignees

广东科贸职业学院

Dates

Publication Date: 20260505
Application Date: 20250520

Claims (2)

1. The genome DNA automatic extraction and purification system based on the algorithm model is characterized by comprising a sample processing module, a parameter calculation module, an extraction module and a model optimization iteration module; The sample processing module is used for constructing real sample characteristics by measuring the optical density value OD600 of a sample at the wavelength of 600nm or measuring the absorbance at the wavelength of 405nm and combining the sample type identified by the bar code with the type of the kit; the parameter calculation module is used for respectively constructing mutually independent sub-models for the four operation stages of cracking, centrifuging, washing and eluting according to a gradient lifting tree algorithm, and outputting optimal operation parameters corresponding to each operation stage of DNA extraction through the sub-model corresponding to each operation stage; the training unit is used for training the submodel corresponding to each operation stage of DNA extraction by taking the historical sample characteristics as a training set to obtain a trained submodel, wherein the parameter mean value corresponding to each operation stage of DNA extraction in the historical sample characteristics is taken as an initial predicted value, the initial predicted value and the true value are subjected to residual fitting by iteration construction decision tree, and a regularization strategy is introduced to limit the depth of the decision tree and set the minimum leaf node sample number; The prediction unit is used for inputting the real sample characteristics into the trained submodel and obtaining the optimal operation parameters corresponding to each operation stage of DNA extraction; The extraction module is used for receiving the optimal operation parameters corresponding to each operation stage of DNA extraction, performing DNA extraction after setting the optimal operation parameters on the automation equipment, dynamically adjusting the cracking time and the amount of the cracking liquid by taking an OD600 value as an index in a cracking stage, optimizing a washing strategy according to a column membrane flow rate in a washing stage, setting an abnormal termination mechanism, and taking the adjusted parameters and abnormal data into training data again for optimizing GBDT models to form a data-driven automatic optimization closed loop; The model optimization iteration module is used for detecting the extracted DNA to generate a detection result, constructing an experiment report according to the optimal operation parameters and the detection result of the current sub-model, and optimizing and iterating the sub-model corresponding to each operation stage of DNA extraction by taking the experiment report as a training set of a training unit until the set condition is met.
2. The automated genomic DNA extraction and purification system based on an algorithm model according to claim 1, wherein the optimal operating parameters for each of the operating phases comprise: the cracking stage comprises the consumption of a cracking solution, the cracking temperature and the cracking time; the centrifugal stage comprises centrifugal rotation speed and centrifugal time; the washing stage comprises the dosage of rinsing liquid and the washing times; the elution stage is that the temperature and the elution volume of the eluent.

Description

Genome DNA automatic extraction and purification system based on algorithm model Technical Field The invention relates to the field of biotechnology and automation, in particular to an automatic extraction and purification system for genome DNA based on an algorithm model. Background Extraction and purification of genomic DNA are basic steps of molecular biology experiments, are widely applied to the fields of gene sequencing, disease diagnosis, species identification, bioengineering and the like, and with rapid development of high-throughput sequencing technology, the requirements of laboratories on automation, standardization and high efficiency of DNA extraction are increasingly urgent, however, the traditional DNA extraction method has significant limitations. In terms of parameter setting, the existing automation equipment mostly adopts fixed operation parameters, such as cracking time, centrifugal rotating speed and the like, and cannot dynamically adjust the flow according to sample types (such as high protein in blood), so that the DNA yield and purity of complex samples are unstable, and from the aspect of operation experience, when the complex samples (such as microorganisms difficult to crack) are faced, the parameters can be optimized only by manually carrying out a large number of pre-experiments, so that time and labor are consumed, and standardized operation is difficult to realize. In the aspect of real-time monitoring, the traditional system lacks the capability of real-time monitoring of key indexes (such as turbidity of the pyrolysis liquid and conductivity of the washing liquid), and cannot correct an operation strategy in time in the experimental process, so that experimental failure is easily caused by impurity residues or operation deviation. In addition, due to frequent manual intervention and complicated operation steps, the traditional method is difficult to adapt to a high-flux experimental scene, and the overall efficiency is low. Disclosure of Invention In order to solve the problems in the prior art, the invention provides an automatic extraction and purification system for genome DNA based on an algorithm model. The system comprises a sample processing module, a parameter calculation module, a training unit and a prediction unit, wherein the sample processing module collects initial biomass data and historical experimental data to construct real sample characteristics and historical sample characteristics, the parameter calculation module constructs sub-models corresponding to all operation phases of DNA extraction, the sub-models comprise the training unit and the prediction unit, the training unit trains the historical sample characteristics as a training set, the prediction unit inputs the real sample characteristics into the trained sub-models to obtain the optimal operation parameters, and the extraction module receives the optimal operation parameters to set the optimal operation parameters of the automatic equipment and then extracts the DNA. The invention can remarkably improve the automation level of DNA extraction, improve the efficiency and simultaneously can meet the precision requirement of the modern biotechnology. The invention adopts the following technical scheme that the genome DNA automatic extraction and purification system based on the algorithm model comprises a sample processing module, a parameter calculation module and an extraction module; the sample processing module is used for acquiring initial biomass data and constructing real sample characteristics, acquiring experimental data extracted from historical DNA and constructing historical sample characteristics; The parameter calculation module is used for constructing sub-models corresponding to all operation phases of DNA extraction according to a gradient lifting tree algorithm, and outputting optimal operation parameters corresponding to all operation phases of DNA extraction through the sub-models corresponding to all operation phases; the training unit is used for training the submodels corresponding to each operation stage of DNA extraction by taking the historical sample characteristics as a training set to obtain a trained submodel; The prediction unit is used for inputting the real sample characteristics into the trained submodel and obtaining the optimal operation parameters corresponding to each operation stage of DNA extraction; the extraction module is used for receiving the optimal operation parameters corresponding to each operation stage of DNA extraction, and performing DNA extraction after setting the optimal operation parameters on the automatic equipment. Further, the system also comprises a model optimization iteration module; The model optimization iteration module is used for detecting the extracted DNA to generate a detection result, constructing an experiment report according to the optimal operation parameters and the detection result of the current sub-model, and optimizin