49 results about "Functional prediction" patented technology

The invention relates to the technical field of tumor treatment, in particular to an intelligent decision-making system for tumor precise targeted medication based on individual mutation information, which comprises a data processing layer, a variation annotation and function prediction layer, a knowledge base integration layer and a scheme decision-making engine and report visualization module. According to the intelligent decision-making system for tumor precise targeted medication based on individual mutation information, a rule engine and a prediction model are combined, dynamic priority ranking is output, multi-model fusion decision making is achieved, and clinical scene deep adaptation is achieved by predicting primary and secondary drug resistance, calculating liver and kidney function adjusting dosage and generating a combined medication time sequence scheme; through an individualized drug delivery scheme, combination drug use optimization is achieved, a visual clinical report is generated, clinical executable operation is further strengthened, and through algorithm quantification, a dynamic knowledge graph, AI auxiliary decision making and a clinical operation closed loop, the next-generation technical research direction of a tumor precise drug use system can be represented.

The invention relates to a method for classifying antihypertensive peptides by fusing sequence and structure multi-modal features and combining contrast-generative combined optimization. The method comprises the following steps: extracting sequence feature representation and structure feature representation of peptide fragments; performing multi-modal feature enhancement of comparison-generative joint optimization on the sequence feature representation and the structural feature representation; and performing peptide classification on the enhanced feature representation by using a preset Kan-Conv structure and tag smooth joint optimization classification model. According to the method, high-precision recognition of the functional activity of the antihypertensive peptide is achieved, information in the three aspects of the sequence, the structure and the generative potential space is creatively and comprehensively utilized, the blank that the structure-sequence synergistic effect is ignored in the existing peptide function prediction field is filled, and the screening efficiency and prediction reliability of the antihypertensive peptide are remarkably improved.

The invention relates to the technical field of artificial intelligence, and provides a protein function prediction method and device based on multi-modal protein data, and the method comprises the steps: obtaining protein multi-source data, carrying out the feature extraction of a protein sequence in the protein multi-source data, and obtaining a protein sequence feature; constructing a heterogeneous graph based on the protein multi-source data; performing feature coding on the heterogeneous graph by adopting a graph attention mechanism to obtain protein graph features; performing multi-modal fusion on the protein sequence features and the protein map features by adopting a gating fusion mechanism to obtain fusion features; and performing multi-label classification prediction based on the fusion features to obtain a protein function annotation result. The accuracy and robustness of protein function prediction can be improved, and the problems that in the prior art, multi-source protein data cannot be effectively integrated, and the method is sensitive to data noise are solved.

The invention discloses a new mutation-oriented pathogenicity prediction method, which comprises the following steps of: acquiring new mutation site data to be analyzed, and generating a numerical feature vector containing evolution conservative property, function prediction score and quantitative clinical evidence; constructing a feature extractor through the numerical feature vector; inputting a training data set containing a label sample and a label-free sample into the feature extractor, and updating the network parameters of the feature extractor and each header; and predicting target variation by using the feature extractor after parameter updating and the supervised classification head to obtain a pathogenicity probability, and calculating a contribution value of each feature in the numerical feature vector to the pathogenicity probability. According to the technical scheme provided by the invention, the auxiliary decision-making information conforming to the diagnosis habit of a doctor is output, the workload of manually interpreting the variation with unclear meaning is greatly reduced, and the end-to-end intelligent processing from the original sequencing data to the clinical auxiliary diagnosis is realized.

The invention provides a method and a system for predicting a cell type-specific non-coding variation function, and belongs to the technical field of bioinformatics. Comprising the steps that a DINOSNN prediction model is constructed, model training is carried out, and the model is composed of a convolution and attention mixed neural network model and a non-coding variation prediction model; obtaining all non-coding variations corresponding to each brain mental disease, inputting the non-coding variations into a DINOSNN prediction model, predicting the probability that each non-coding variation is a functional non-coding variation through a trained gradient boosting tree model, and predicting a cell type set influenced by the variation, further establishing a corresponding relationship among the brain and mental diseases, the non-coding variation and the cell type set influenced by the non-coding variation; and selecting a cell type set corresponding to the non-coding variation with the highest probability of functional non-coding variation from the non-coding variations corresponding to the brain and mental disease to be analyzed as a targeted cell set corresponding to the brain and mental disease to be analyzed.

The invention provides an RNA sequence classification method based on a Mangbar model and semi-supervised learning, and belongs to the field of bioinformatics. Firstly, multi-scale sparse features are extracted from an RNA sequence, high-dimensional features are compressed to low-dimensional potential space vectors through an encoder network, and L2 normalization is carried out to enhance feature separability. Secondly, a Mangbar model based on a selective state space model is introduced into a residual structure, and the long-range dependency relationship is efficiently modeled with low complexity; and finally, realizing unsupervised feature reconstruction and semi-supervised learning of supervised classification by constructing an encoder-decoder structure, and improving the generalization performance of the model under a small sample condition by adopting a weighted loss function. Experimental results show that the method significantly improves the F1 score in a classification task of multiple types of RNA sequences. According to the method, the long sequence modeling and labeling cost is reduced, and the method is suitable for the fields of RNA function prediction, biomedical research, disease diagnosis and the like.

The invention discloses a low-efficiency land use redevelopment function prediction method based on a graph neural network, and the method comprises the steps: S1, obtaining the land use benefit of each space unit in a learning region, dividing each space unit into a high land use benefit type, a middle land use benefit type and a low land use benefit type, selecting a space unit with a high land utilization benefit type as an urban land use configuration case library; s2, taking the urban land use configuration case library obtained in the step S1 as a sample set, and constructing and training a functional feature learning model based on a graph neural network according to the sample set; and S3, obtaining each space unit in the prediction area, inputting the space units into the functional feature learning model obtained in the step S2, and performing low-efficiency land use redevelopment function prediction. By simulating urban space function interaction and mechanism innovation, a traditional land utilization prediction normal form based on static rules and spatio-temporal evolution is broken through, and scientific support is provided for land benefit improvement and function replacement decision in urban updating.

The invention belongs to the crossing field of marine biotechnology and bioinformatics, and particularly relates to a method for high-throughput identification of natural functional oligopeptides. At present, bottlenecks still exist in development and application of various functional oligopeptides such as penetrating peptides and antibacterial peptides in non-model species, and the high adaptability of the existing functional oligopeptides in complex and diverse non-model organisms is limited mainly due to differences (amino acid preference and receptor specificity) among species. Therefore, the invention provides a method for high-throughput identification of functional oligopeptides from natural sequences of organisms by means of machine learning. According to the method, based on a biological natural protein sequence, an oligopeptide sequence set meeting a preset length condition is generated through a sliding window strategy system, a deep machine learning model is utilized to perform high-throughput functional prediction on the oligopeptide sequence, and on the basis of performing'interruption-prediction-re-comparison 'on existing functional oligopeptides, the functional oligopeptide sequence set meeting the preset length condition is obtained. The comparison threshold value for accurately identifying the functional oligopeptide can be determined, and the natural functional oligopeptide existing in the protein sequence can be effectively identified based on the threshold value. The functional oligopeptide obtained by the method has strict screening of physicochemical properties of a machine learning model and high-adaptability biological characteristics formed in species evolution. According to the method, the direct application capability of the functional oligopeptide in non-model species is remarkably improved, and an accurate and high-throughput technical means is provided for efficient development and application of the functional oligopeptide in non-model organisms.

The application discloses a Zanthoxylum bungeanum protein characteristic data-driven modeling method and system for functional expression, belongs to the technical field of food protein data modeling, obtains protein characteristic indexes, functional expression indexes and impurity interference indexes of Zanthoxylum bungeanum protein samples under different processing conditions, forms corresponding data and carries out standardization and abnormal data processing; based on the correlation degree of the protein characteristic indexes, the functional expression indexes and the impurity interference indexes, functional contribution factors and impurity domination factors are determined respectively, and comprehensive weights are generated; the protein characteristic data is weighted by using the comprehensive weights to obtain function-oriented protein characteristic data; then principal component extraction is carried out, and function-oriented principal components are screened according to the correlation between the principal components and the functional expression data and the impurity interference data; finally, a Zanthoxylum bungeanum protein functional expression prediction model is established; the application can weaken the influence of interference information such as pigments, turbidity, residual oil rate and non-protein particles on modeling, and improve the functional prediction stability.

The invention discloses a microbial data semantic processing method and system based on a graph model, and relates to the technical field of knowledge graph and microbial information processing, and the method comprises the steps: obtaining microbial data from a heterogeneous data source, and carrying out the standardization processing; constructing a domain ontology model conforming to microbial taxonomy specifications; implementing entity disambiguation and unified identifier mapping by utilizing a pre-training language model; a semantic relation triple is extracted in a mode of combining remote supervision and deep learning; constructing a microorganism knowledge attribute graph and storing the graph in a graph database; knowledge reasoning and function prediction are carried out by using a graph attention network; the method supports natural language semantic retrieval, and solves the problems that heterogeneous microorganism data integration is difficult, the naming disambiguation precision is insufficient and the function association mining capacity is limited.

The application provides a method and system for generating and predicting the function of mRNA untranslated region sequence based on coding sequence. The method comprises: constructing a pre-training data set and a downstream task data set; using the pre-training data set to perform autoregressive training on the constructed conditional generation model to obtain a UTR sequence generation model; using the downstream task data set to fine-tune the UTR sequence generation model to obtain a downstream task function prediction model; generating candidate UTR sequences based on the UTR sequence generation model, and evaluating the generation ability of the UTR sequence generation model in the non-coding region sequence generation task; and predicting the function attribute of the UTR sequence based on the downstream task function prediction model, and evaluating the prediction ability of the downstream task function prediction model in multiple UTR related downstream tasks. The application considers the synergistic relationship between UTR and CDS in the UTR sequence generation process, and improves the efficiency and rationality of UTR sequence design.

The application provides an RNA sequence classification method based on a Mamba model and semi-supervised learning, and belongs to the field of bioinformatics. First, multi-scale sparse features are extracted from the RNA sequence, high-dimensional features are compressed into low-dimensional potential space vectors through an encoder network, and L2 normalization is performed to enhance feature separability. Second, a Mamba model based on a selective state space model is introduced in a residual structure to efficiently model long-range dependencies with low complexity. Finally, a semi-supervised learning of unsupervised feature reconstruction and supervised classification is realized by constructing an encoder-decoder structure, and a weighted loss function is used to improve the generalization performance of the model under small sample conditions. Experimental results show that the method significantly improves the F1 score in the multi-class RNA sequence classification task. The application reduces the cost of long sequence modeling and labeling, and is suitable for the fields of RNA function prediction, biomedical research and disease diagnosis.

The application relates to a cerebral hemorrhage post-function prediction model establishment method, in particular to a cerebral hemorrhage post-function prediction model establishment method based on a multi-knowledge fusion model. The method is used for predicting various function grades of a cerebral hemorrhage patient after 48 hours of operation. The prediction model establishment method realizes the prediction of the function rehabilitation grade by building a multi-knowledge fusion network model. The method comprises the following steps: data preprocessing, multi-knowledge fusion network model construction, model training and prediction.

The invention discloses an enzyme function prediction method based on three-dimensional point cloud characterization and multi-modal fusion. The method comprises the following steps: extracting point cloud features on the surface of protein by using dMaSIF to characterize geometric and chemical characteristics; the point cloud features are coded through the pre-trained Point Net + +; a decoupling cross attention mechanism is adopted to fuse PointNet + + point cloud coding, Sapot network structure coding and ESM-2 sequence coding, and the network is optimized through comparison learning based on sorting loss. The invention also provides an enzyme function prediction system based on three-dimensional point cloud representation and multi-modal fusion, and the system comprises a point cloud feature extraction module, a point cloud coding module, a multi-modal fusion module and an optimization module, and is used for realizing the method. By integrating the protein three-dimensional structure, sequence and multi-source information of surface physicochemical characteristics, the functional prediction accuracy and robustness are remarkably improved, and the method has excellent performance in enzyme classification (EC number prediction) tasks.

The present disclosure provides a rational modification method of spermidine synthase (SpeE) in Bacillus subtilis, which relates to the technical fields of enzyme engineering and computational structural biology. The modification method comprises the following steps: constructing a high-confidence three-dimensional model of Bacillus subtilis SpeE, determining the key action scope by double-substrate (S-adenosyl methionine and putrescine) docking, performing virtual saturation mutation on the residues in the region, screening the optimal mutant by combining function prediction, stability analysis, molecular dynamics simulation and binding free energy calculation, and explaining the mutation mechanism from the atomic level. The SpeE mutant (such as G85S, G85A) obtained by the modification method has significantly improved catalytic efficiency and substrate binding affinity, and when applied to a whole-cell catalytic system, it can greatly improve the yield of spermidine, and is suitable for the industrialized green biosynthesis of spermidine.

The invention relates to the field of bioengineering and genetic engineering, and particularly provides a rapid digging method of isomerase genes. According to the method, on the basis of big data analysis and bioinformatics technologies, in combination with means of sequence alignment, gene expression analysis, function prediction and the like, rapid and accurate mining of isomerase genes is achieved, and powerful technical support is provided for development and application of the enzyme engineering field.

The invention relates to the technical field of gene analysis, and discloses an intelligent cancer-related gene analysis method based on weighted voting. According to the method, firstly, different calculation biological tools are used for performing preliminary prediction on a to-be-detected gene, then prediction scores of the multiple calculation biological tools are fused in a non-linear feature construction mode, and finally the prediction scores, confidence coefficients and non-linear extension features of to-be-detected variation points are input into a plurality of pre-trained first-level models. And obtaining output results of the plurality of primary models. And fusing output results of different primary models by adopting a weighted fusion method, and analyzing to obtain a function prediction result corresponding to the to-be-tested gene data based on a final fusion result. Therefore, the to-be-detected gene data can be analyzed more comprehensively, analysis results of different analysis tools and different models are integrated, and finally the reliability of the analysis results is improved on the whole.

The invention relates to a wheat low-phosphorus response transcription factor TaERF112 and application thereof, and belongs to the technical field of plant bioengineering. The low-phosphorus response transcription factor TaERF112 gene is cloned from wheat, the CDS region sequence of the gene is 882bp, 294 amino acids are encoded, the molecular weight is 31 and 572.92 Da, and the gene is hydrophilic protein. By analyzing the TaERF112 gene structure, protein physicochemical properties, subcellular localization and species evolution characteristics, the characteristics and function prediction of the gene are known. Furthermore, a wheat taerf112 mutant is created by using a CRISPR / Cas9 technology, phenotypic characters, biomass and phosphorus utilization characteristics of a transformed strain under different phosphorus conditions are evaluated, and the important effect of the wheat taerf112 mutant in regulation and control of a wheat root system and phosphorus homeostasis is preliminarily revealed. Theoretical basis and gene resources are provided for efficient genetic improvement of wheat phosphorus.

This invention relates to a method for targeted design and optimization of the 5′ untranslated region (UTR) of mRNA based on generative language models and reinforcement learning. The method includes: constructing pre-training data for the 5′ UTR; obtaining a prediction task dataset; calculating the minimum free energy (MFE) corresponding to the pre-training data; constructing a generative language model and performing phased pre-training on the generative language model using the pre-training data and the MFE to obtain a generative model and a prediction task fine-tuning model; fine-tuning the prediction task fine-tuning model based on the prediction task dataset to obtain a functional prediction model; evaluating the generative model's generation capability in the 5′ UTR sequence generation task; and performing targeted optimization design of the 5′ UTR sequence based on a reinforcement learning framework, combining the generative model and the functional prediction model. This invention can efficiently generate 5′ UTR sequences with specific biological functions, providing strong support for functional mRNA design and showing broad application prospects.

The application discloses a kind of polypeptide function prediction method and device.The method includes data set construction and data preprocessing;Establish multi-label prediction model, by feature embedding module, multi-scale convolutional neural network CNN module, BiGRU module for processing context-related sequence and classification module are composed;The network model constructed is trained using the obtained data set, and the optimization algorithm is used to improve the model feature extraction and parameter prediction performance;Then the performance of the multi-label prediction model is evaluated by calculating the accuracy, coverage, accuracy, absolute true value and absolute false value five indexes.The application effectively utilizes the correlation between labels, improves the accuracy of polypeptide function prediction, the method is strong in operability, strong in practicality, can be applied to the function prediction of eight kinds of bioactive peptides simultaneously, is a reasonable and effective prediction method, the precision of eight polypeptide functions predicted by the application is as high as 80.4%.

The invention discloses an identification method of a sequence participating in potato centromere relocation, and belongs to the technical field of plant heredity and molecular biology. According to the method, T2T-level genome data and CENH3 ChIP-seq data of different haplotypes of potatoes are integrated, sequence screening, annotation and function prediction are carried out by utilizing a bioinformatics analysis tool, and a satellite DNA sequence which is 2-3Kbp in length, is highly conserved in the same haplotype and can be specifically combined with CENH3 protein is identified. The sequence can induce CENH3 to deposit in a non-native centromere area, so that functional relocation of centromere is realized, and a core molecular element and a technical support are provided for artificial centromere construction, plant chromosome engineering and accurate genome operation. The method solves the problems that in the prior art, a functional sequence for clearly inducing centromere relocation is lacked, a CENH3 targeted recruitment mechanism model is not established and the like, and has a wide application prospect.

The invention aims to provide a method, equipment, medium and program product for determining a target enzyme expressed in a target host, and the method comprises the following steps: on the basis of amino acid sequence information and structure information corresponding to a heterologous enzyme meeting a required function and information of the target host, predicting the target enzyme by using a codon sequence prediction model, the codon sequence prediction model is used for determining codon sequence information and corresponding score information, the score information is used for comparing expression quantities of different codon sequences, the enzyme corresponding to the codon sequence with the higher score can have the higher expression quantity in the target host, and the enzyme corresponding to the codon sequence with the higher score can have the higher expression quantity in the target host. Furthermore, the enzyme efficiently expressed in the target host can be quickly screened out, and the screening cost is reduced. In addition, an enzyme function prediction model and / or an enzyme-substrate interaction prediction model can be combined to screen from the aspects of expression quantity, catalytic reaction type and / or enzyme activity and the like, so as to obtain the enzyme which is high in expression and activity and has required functions.

The application discloses a TaTCP15 gene for regulating nitrogen utilization of wheat as well as a biological material and application thereof, and identifies an upstream regulatory factor of a key gene TaNRT2.1 for regulating nitrogen utilization of wheat through a research strategy combining forward and reverse genetics, and screens and clones a TaTCP15 gene for regulating nitrogen utilization of wheat. It is shown by function prediction and identification results that the TaTCP15 gene is expressed in roots, stems and young panicles at high abundance, and after overexpression of the TaTCP15 gene in Arabidopsis and wheat, the plant height is significantly dwarfed, the ear length is shortened, the yield per plant is reduced, the thousand-grain weight is reduced, the grain length and width are reduced, the grains are round, the tillering is reduced, the heading stage is lengthened, the growth period is lengthened, and the leaf is greener. The application accumulates new data and information for in-depth research on a molecular regulation mechanism of nitrogen utilization of wheat.

The application discloses a kind of predictable phaseolus vulgaris response melatonin regulation SSR molecular markers and its application, it is related to biotechnology field.The application carries out the effectiveness identification of ordinary phaseolus vulgaris natural germplasm resources to melatonin treatment, the efficiency of melatonin treatment-cell wall-salt tolerance in ordinary phaseolus vulgaris germplasm resources is analyzed, and using the reference genome in Esembl plants database, a complete set of SSR molecular markers is developed, and according to transcriptome information, the SSR marker near response gene is mined, through polymorphism analysis and single marker analysis, two SSR markers with significant difference associated with melatonin traits are screened, can be used as the molecular marker for predicting phaseolus vulgaris response melatonin regulation, and provides technical support for the function prediction of melatonin treatment in the sprouting stage of ordinary phaseolus vulgaris.

The invention relates to a Contig perception-based protein function prediction method and system. The method comprises the following steps: obtaining a protein amino acid sequence, a nucleotide sequence corresponding to Contig and arrangement information of CDS on the Contig; splicing the protein-level features corresponding to the CDS sequence on the same Contig with the k-mer frequency vector of the Contig nucleotide sequence to generate enhanced protein-level features; setting the length of a sliding window, acquiring a plurality of fragments with fixed window lengths, which have protein function tags at the central positions of enhanced protein-level features according to a CDS sequence on the same Contig, taking one fragment as a sample, and training a function prediction network consisting of a bidirectional long-short-term memory network BiLSTM and a multilayer perceptron, and obtaining a target protein prediction probability value of each fragment. And the accuracy of protein function annotation is obviously improved.

The lncRNA function prediction method based on graph attention, storage medium and equipment belong to the field of biological information technology. In order to solve the problem that the prior lncRNA function annotation data is little in the existing lncRNA function prediction method, the protein function annotation data needs to be borrowed to indirectly predict the function of lncRNA, resulting in low accuracy. The application first extracts various lncRNA similarity information by using a graph contrast learning method based on a cross attention mechanism, generates a comprehensive similarity matrix; then extracts the features of GO terms in the GO graph by using a knowledge graph embedding model, generates a GO semantic similarity matrix; finally, a graph representation learning model combining GCN and GAT is constructed to learn the features of lncRNA and GO, and a KAN classifier is used to predict the GO function annotation information of lncRNA. The method can effectively improve the accuracy of lncRNA function prediction.

The application discloses a pathogenicity prediction method for novel variation, comprising the following steps: obtaining novel variation site data to be analyzed, and generating a numerical feature vector containing evolutionary conservation, functional prediction score and quantitative clinical evidence; constructing a feature extractor through the numerical feature vector; inputting a training data set containing labeled samples and unlabeled samples into the feature extractor, updating the feature extractor and the network parameters of each head; applying the feature extractor and the supervised classification head after parameter updating to predict target variation, obtaining pathogenicity probability, and calculating the contribution value of each feature in the numerical feature vector to the pathogenicity probability. The technical scheme provided by the application outputs auxiliary decision information conforming to the diagnosis habit of doctors, greatly reduces the work load of artificial interpretation of unknown variation, and realizes end-to-end intelligent processing from raw sequencing data to clinical auxiliary diagnosis.

The invention discloses a cranio-maxillofacial repair system based on digital simulation, particularly relates to the technical field of digital simulation, and can preliminarily predict and finely adjust a three-dimensional image of a bone defect area through mirror image overturning, functional area division and adjustment based on functional indexes, so that the actual bone defect condition is reflected more accurately. Powerful support is provided for the design of a subsequent repair scheme; by simulating the movement and function of a craniomaxillofacial surface, the function recovery condition after bone defect repair is predicted, and a function simulation quality index is output, so that a user can intuitively understand the repair effect, and a basis is provided for treatment decision making; performing conjoint analysis on the surface smoothness index, the functional simulation quality index and the simulation bone quality evaluation index, and outputting a bone reconstruction availability coefficient Ks; judging the relationship between the bone reconstruction availability coefficient and a corresponding threshold Tza; the problem that decision support cannot be scientifically provided for craniomaxillofacial repair in the prior art is solved.

The present application relates to a kind of fusion sequence and structural multimodal feature and the classification method of antihypertensive peptide combined with contrast-generative joint optimization, comprising: the sequence characteristic representation and structural characteristic representation of peptide segment are extracted;The sequence characteristic representation and structural characteristic representation are contrast-generative joint optimization multimodal feature enhancement;Using preset Kan-Conv structure and label smoothing joint optimization classification model based on, the enhanced feature representation is classified into peptide.This application realizes the high-precision identification of antihypertensive peptide functional activity, this method innovatively utilizes three aspects of information, such as sequence, structure and generative latent space, fills the blank of ignoring structure-sequence synergistic effect in the existing peptide function prediction field, significantly improves the screening efficiency and prediction reliability of antihypertensive peptide.

The invention provides a preparation method and application of a dental pulp stem cell preparation based on AI activity prediction, and the method comprises the following steps: collecting historical preparation parameters and corresponding activity indexes of the dental pulp stem cell preparation, constructing a historical database, and carrying out data preprocessing and core parameter screening; according to the method, an activity prediction model comprising a first sub-model and a second sub-model is constructed, bidirectional function prediction is realized through two-stage training, multiple types of activity indexes and comprehensive scores can be predicted based on preparation parameters, and the preparation parameters can be reversely recommended according to activity requirements; and preparing a compound preparation which takes the dental pulp stem cells as a core and PDD-ALN as a synergistic enhancement carrier based on model output. The method can accurately guide the preparation of the dental pulp stem cell preparation, and is especially suitable for the development of periodontitis treatment drugs.