450 results about "Omics" patented technology

A spatial omics multi-modal fusion method under a single cell level comprises the following steps: extracting spatial morphological characteristics of differential expression genes and cell nucleuses from spatial transcriptome data, single cell sequencing data and histological images, and realizing field adaptation among different platforms by using a conditional variation auto-encoder. And based on a probability inference model, fusing spatial transcriptome expression, unicellular omics and morphological characteristics, and jointly inferring the type and gene expression level of each cell. A spatial cell network is constructed through a graph attention mechanism, and spatial diffusion and recognition of cell types in a full slice range are realized. In combination with a multi-omics enhancement module, undetected gene and protein expression is completed based on expression similarity, and prediction consistency is improved through spatial correction. According to the method, high-resolution reconstruction of single-cell multi-omics information in a three-dimensional space is realized, the information coverage and spatial resolution of spatial omics data are improved, and an efficient and low-cost solution is provided for spatial biology and precise medical research.

The invention discloses a metabonomics data batch correction method based on multi-kernel learning, and belongs to the cross technical field of bioinformatics and analytical chemistry. According to the method, the multi-kernel learning technology is utilized, the advantages of different kernel functions are fused in a self-adaptive mode, a model conforming to data reality is constructed, complex drift characteristics of metabolite signals are accurately captured, and efficient and accurate normalization processing of metabonomics data is achieved. Compared with traditional data standardization methods such as SVR and LOESS, the method has the advantages that the performance is excellent in the aspect of reducing the metabolite peak intensity variability, and the data stability is remarkably improved. In the subsequent multivariate statistical analysis, the classification accuracy is greatly improved, the comparability among different batches of data is also remarkably enhanced, reliable data support can be provided for discovery of disease biomarkers, and the method plays a key role in large-scale metabonomics research.

The invention provides an EGFR wild-type lung adenocarcinoma prognosis risk assessment method based on multi-omics and machine learning, and the method comprises the steps: obtaining multi-omics and clinical data of lung adenocarcinoma, obtaining a data set, and carrying out the multi-omics consensus clustering, and obtaining a molecular typing result; high-risk subtype specific candidate genes are identified, a candidate prognosis gene set is obtained, multi-algorithm machine learning comparison optimization is carried out, and a modeling strategy is obtained; performing feature screening and model training to obtain a multi-omics feature model so as to calculate an individual risk score of the to-be-tested sample; the individual risk score and the clinical staging information are utilized to obtain a clinical column diagram and a survival prediction result, then the flow of the multi-omics feature model, the individual risk score and the survival result is Web to obtain a clinical system, and a lung adenocarcinoma prognosis risk assessment result is output. The invention can realize an objective, accurate, generalizable and multifunctional prognosis evaluation and treatment guidance tool, and has important clinical application value and wide industrialization prospect.

The invention provides a cross-omics sparse feature selection system and method based on hierarchical causal modeling, and the system comprises a data input and preprocessing module which is used for receiving multi-omics original data of a multivariate sample; the hierarchical causal structure learning module is connected with the data input and adaptive preprocessing module and is used for constructing a cross-omics hierarchical causal topology; the causal-oriented sparse feature selection module is connected with the hierarchical causal structure learning module; and the model retraining and integration module is used for constructing a three-layer weighted integration discrimination model based on the screened markers, optimizing the fusion weight of each layer through a gradient descent algorithm, and outputting a final prediction result. According to the method, the protein-metabolism biological hierarchy relationship and serum-urine complementary information are fully utilized, and the method has good generalization ability and can be widely applied to marker mining and prediction modeling of cancers, metabolic diseases and the like, so that the accuracy and reliability of precise medical treatment are improved.

The invention discloses a multi-omics cancer subtype recognition method, system and device based on density sensing cluster structure guide contrast learning and a medium, and belongs to the technical field of bioinformatics and artificial intelligence crossing. The method comprises the following steps: acquiring and preprocessing multi-omics data; constructing an omics specific auto-encoder and learning potential representation; constructing a density sensing cluster block in the potential space; constructing a cross-omics positive and negative sample pair based on cluster block sample overlapping; difficult negative sample mining; constructing a cluster block level cross-omics contrast learning target, and training and updating; a self-supervised soft refinement mechanism is introduced to dynamically enhance a cluster structure; and carrying out multi-loss joint optimization and model iteration training. According to the method, the robustness and the stability of a cancer subtype recognition result can be improved, high-dimensional, multi-source and multi-noise multi-omics data can be efficiently modeled and analyzed, good generalization ability and application potential are achieved, and reliable technical support can be provided for cancer subtype research, patient stratified analysis and precise medical aid decision making.

The invention discloses a multi-omics data integration and classification method, system and device based on hierarchical attention, and is applied to the field of precise medical big data analysis. The method comprises the following steps: firstly, generating feature embedding and feature importance scores through a plurality of parallel feature-level attention modules; then, embedding and inputting all the characteristics of the omics into a unified omics-level attention module, and generating omics embedding and omics importance scores; and finally, a classification prediction task is executed based on omics embedding, and a classification result is output for disease classification. The invention completely abandons a traditional dependency graph convolutional network and an integration normal form of variants of the dependency graph convolutional network, and provides a universal hierarchical attention integration architecture. The framework supports classification tasks of any complex diseases, is not limited by omics data types and combination modes, not only is remarkably superior to a traditional integration normal form in classification performance, but also shows a unique negative generalization distance, and proves that the framework has excellent generalization ability. Meanwhile, features and omics importance scores automatically output by the model provide a powerful analysis tool for biomarker discovery and precise diagnosis and treatment of complex diseases.

The invention relates to a hepatocellular carcinoma gene knockout target library based on multiple omics and a screening method of the hepatocellular carcinoma gene knockout target library, and the gene knockout target library for precise treatment of hepatocellular carcinoma is finally obtained through data collection and integration, data screening and target verification in sequence. According to the invention, through multi-omics data integration and bioinformatics analysis, key driving genes of hepatocellular carcinoma are systematically screened, and the important effects of the genes in occurrence, development, metastasis, drug resistance and immune escape of hepatocellular carcinoma are disclosed; the genes not only deepen the understanding of the hepatocellular carcinoma molecular mechanism, but also provide important theoretical basis and potential intervention targets for the development of targeted therapy and personalized therapy strategies.

The invention relates to the technical field of bioinformatics, in particular to a method for typing acute respiratory distress syndrome biological subtypes. The method comprises the following steps: a) acquiring multi-omics data and carrying out standardized preprocessing; the multi-omics data comprises transcriptomics data, proteomics data and metabonomics data of a biological sample source; b) constructing a similarity network of each group by using a similarity fusion network (SNF), and obtaining a uniform sample similarity matrix through multi-group network fusion and iteration; multiple collaborative principal component analysis (MCIA) is adopted to carry out dimension reduction on multi-omics data so as to realize visualization of a clustering result; carrying out multi-omics joint discrimination modeling under the guidance of SNF clustering by using a data integration analysis (DIABLO) method so as to identify key feature variables; and carrying out biological subtype classification based on the clustering result of the steps.

The invention discloses a spatial transcriptome data analysis method based on artificial intelligence, and belongs to the technical field of spatial transcriptomics data analysis. Firstly, self-adaptive normalization and hypervariant gene screening preprocessing are carried out on original gene expression data; then constructing a hierarchical map integrating spatial proximity and transcription similarity, and ensuring the connectivity and robustness of the map through a dynamic radius pruning and neighborhood inheritance strategy; dividing positive and negative sample sets based on the atlas, and inputting a type modulation contrast graph auto-encoder for training; and finally, spatial domain identification and downstream function analysis are completed based on the low-dimensional potential representation or reconstructed gene expression matrix output by the model. The method effectively improves the accuracy and stability of spatial domain recognition, adapts to multi-technology-source data, enhances the biological interpretability of model output, and can be widely applied to biomedical scenes such as tumor microenvironment analysis and organ development research.

The invention discloses a disease risk assessment method and screening device based on a multi-group student physical collaborative digital network, and relates to the field of intelligent medical detection. In order to solve the defect that multi-omics-level system collaborative analysis and robust risk assessment are difficult to realize in the prior art, the technical scheme provided by the invention is as follows: acquiring a plasma sample, acquiring a spectral signal by adopting an attenuated total reflection Fourier transform infrared spectrum, and establishing a plasma spectrum digital information space; the method comprises the following steps: constructing a biological collaborative digital network containing four nodes of protein, lipid, saccharides and nucleic acid based on pathophysiology priori knowledge, and defining node strength, edge weight and network collaborative efficiency; a health baseline configuration file is established by using a health sample, a standardized deviation score of a to-be-tested sample is calculated, a comprehensive risk score is obtained, a disease screening result is output in combination with a machine learning model, and digital evaluation of multi-omics collaborative characteristics is realized. The method is suitable for non-invasive rapid screening and risk assessment work of neurodegenerative diseases and mental diseases.

The invention relates to the technical field of health risk prediction, in particular to a metabonomics-radiomics prediction method for chronic subdural hematoma recurrence risk, which comprises the following steps: acquiring a CT image and extracting edge gray fluctuation, constructing fluctuation parameters in combination with metabolome data, screening coordination characteristics to generate a risk combination, and predicting a chronic subdural hematoma recurrence risk. Feature pairs consistent in trend are extracted to form a collaborative channel, and a feature matrix is constructed to generate an input vector set; according to the method, disturbance features are extracted through a CT image edge gray level path, a cross-modal fluctuation trend comparison mechanism is established in combination with patient brain metabolism indexes, biological consistency between the features is enhanced, feature combinations with uncoordinated changes are eliminated, feature pairs with collaborative structure and function trends are screened, and a linkage path is constructed. The evolution relation from structural disturbance to metabolic response is reflected, channel data sorting and recombination improve the difference of input characteristics, the stability and accuracy of recurrence discrimination are enhanced, and the systematicness and interpretability of risk assessment are improved.

Method, system and computer-accessible medium can be provided for generating one or more drug conjugates of one or more small molecules. For example, with such exemplary method, system and computer-accessible medium, a multimodal discriminative model can be trained to predict at least one peptide-ligand binding for one or more DNA ligands, a generative nucleotide model can be trained to generate a plurality of compounds. Further, a feedback can be provided from the multimodal discriminative model to fine-tune the generative nucleotide model so as to facilitate the generation of the drug conjugate(s).

The invention discloses a stem cell metabolism marker omics analysis method, device, equipment and medium, relates to the technical field of biomedicine, is applied to a computer device, and comprises the following steps: carrying out non-targeted detection on a to-be-detected sample of a target object to obtain an original mass spectrum; wherein the sample to be detected is a serum sample or a cell sample; preprocessing the original mass spectrogram to obtain a metabolite matrix in a standardized format; performing principal component analysis and partial least square discriminant analysis on the metabolite matrix, and determining a metabolic marker from the metabolite matrix according to an obtained analysis result; obtaining fragment information of the metabolic marker based on a collision-induced dissociation mode, and searching for a structural annotation of the metabolic marker from a human metabolome database based on the fragment information; and constructing a metabolic pathway map of the metabolic marker according to the structural annotation of the metabolic marker. The accuracy of omics analysis of the stem cell metabolism marker is improved.

The invention belongs to the technical field of gene identification, and discloses a method for integrating multi-omics data to enhance genome prediction and candidate gene identification, candidate gene identification is verified through multi-layer evidence integration, and the verification comprises priority ordering based on gene contribution scores, function enrichment analysis, generic genome network verification and CRISPR / Cas9 experimental verification. Evaluation on a corn population (n = 174) containing complete genomics, transcriptomics, translational omics and proteomics maps shows that the framework is remarkably improved in grain character prediction and is improved by 2.9-12.3% compared with a genome selection baseline, and meanwhile candidate genes verified by experiments are recognized. The invention further verifies the universality of the framework to five traits on an arabidopsis thaliana population, and provides an open source software platform to promote the practical application of the framework in a breeding plan.

The invention discloses a space transcriptome and space metabolome integration method based on deep learning. The method comprises the following steps: firstly, acquiring original space transcriptomics data and original space metabonomics data of a biological tissue, and performing data preprocessing to obtain a preprocessed biological tissue data set; then, aligning space metabonomics data in the preprocessed biological tissue data set to space transcriptomics data, unifying data resolution, obtaining corrected space metabonomics data, and updating the biological tissue data set; and finally, generating to-be-integrated sample data from the newest biological tissue data set, inputting the to-be-integrated sample data into the spatial multi-omics data integration model, and outputting final joint embedding by the model, so that cross-modal and cross-sample effective integration of the data can be realized. According to the method, the problems of form and resolution inconsistency and batch effect caused by technical difference of ST and SM data are solved, and high-precision and interpretable spatial multi-omics integration analysis is realized.

The invention provides a method and a system for predicting early gastric cancer prognosis by a circulating marker, and relates to the technical field of auxiliary diagnosis. The method comprises the following steps: performing multi-omics detection on a blood sample based on a preset sampling time sequence to obtain a multi-dimensional time sequence characteristic data set containing three groups of heterogeneous data of circulating tumor DNA, exosomes and protein markers; calculating a change slope and a fluctuation variance of the heterogeneous data in adjacent time sequence intervals, constructing a dynamic variation feature matrix in combination with a standard attenuation weighting factor, and deeply mining spatial cross-correlation and sequence dependence features of the matrix to generate a multi-modal fusion feature fingerprint; and performing regression operation on the feature fingerprints by using an integrated learning stack model to obtain a dynamic prognosis risk score, and further retrieving a risk hierarchical mapping table to generate a prognosis evaluation result containing a survival curve. According to the method, multi-modal heterogeneous data can be effectively fused, the biological dynamic characteristics in the tumor postoperative recovery phase are captured, and the accuracy and timeliness of early gastric cancer prognosis prediction are remarkably improved.

The invention discloses a laying hen genetic disease knowledge graph construction and intelligent decision support system. The system comprises a genetic disease weak supervision graph extraction module, a disease multi-factor diagnosis module, a group health risk clustering module, a multi-omics graph analysis module, a genetic disease knowledge graph construction module and an intelligent decision support module. According to the system, laying hen genes, physiological indexes, breeding environments and multi-omics data are collected through gene sequencing and the like, a gene disease association graph is generated through weak supervision graph extraction, a disease diagnosis result is generated through multi-factor diagnosis, health risk grades are divided through risk clustering, and an association graph is generated through multi-omics analysis; and a genetic disease knowledge graph is constructed, and an intelligent decision scheme is generated in combination with real-time data and an algorithm. The system improves the accuracy of laying hen genetic disease prevention and control and the intelligent level of breeding management, guarantees the economic benefits of breeding, and is suitable for large-scale breeding scenes of laying hens.

The invention belongs to the technical field of biological information, and particularly relates to a cancer molecular subtype recognition method based on self-adaptive pellet multi-view image clustering. The method comprises the following steps: acquiring a multi-omics data set of cancer molecules, and constructing a pellet set for each kind of omics data in the multi-omics data set; constructing a biological network structure chart according to the particle ball set; fusing the biological network structure diagrams of the omics data to obtain a unified graph; inputting the unified graph into a pre-trained heterogeneous graph neural network for processing to obtain a cancer molecular subtype recognition result; according to the method, multi-scale biological structure features in multiple omics data can be captured at the same time, collaborative optimization of molecular network topology and patient characterization is achieved, and therefore the accuracy of cancer molecular subtype recognition results is improved.

The invention provides a liver cancer onset risk prediction method and system, and belongs to the technical field of liver cancer onset risk prediction. The method comprises the following steps: carrying out longitudinal multi-omics data acquisition on a target individual to generate an individualized multi-omics time sequence data set; constructing an individualized liver cancer evolution graph based on the data set; according to the individualized liver cancer evolution graph, quantifying a liver microenvironment pressure field in combination with a medical imaging technology, and performing space-time coupling on a pressure field quantification result and a multi-omics time sequence data set to generate a liver cancer dynamic risk evolution trajectory; through longitudinal multi-omics data acquisition and individualized liver cancer evolution graph construction, a liver microenvironment pressure field is quantified in combination with a medical imaging technology, dynamic and accurate prediction of the liver cancer occurrence risk is realized, and the prediction accuracy is remarkably improved.

Described herein are methods such as multi-omic methods for assessing a disease such as cancer. The multi-omic methods may integrate proteomic, transcriptomic, genomic, lipidomic, or metabolomic data. The method screening diseases or disease states. Also described herein are methods for screening for diseases or disease states from biological samples. The methods may include assessing whether a nodule, mass, or cyst is cancerous.

The invention belongs to the technical field of biological materials and biological information, and provides a space phosphorylation modification omics detection method. According to the detection method disclosed by the invention, proteomics analysis can be carried out on trace sample phosphorylation, 4259 phosphorylation sites can be identified by 5 micrograms of peptide fragments, and the credibility of 3506 sites is greater than 0.75.

The invention discloses a multi-layer heterogeneous network unicellular organism network inference method based on meta-path enhancement, which mainly comprises a gene regulation knowledge base enhanced multi-layer heterogeneous network construction module for integrating an external gene interaction network and multiple omics data such as scRNA-seq, scATAC-seq, ST and the like; constructing a single-cell multi-omics multilayer heterogeneous network containing cell-cell, cell-gene and gene-gene relationships, and fusing spatial constraints to consider cell positions and tissue structures; and the feature enhancement module based on the meta-path explores complex semantics of the network by designing a multi-hop meta-path mode, designs an adaptive multi-view learning framework and a multi-round enhancement mechanism, and optimizes feature representation by using cell-gene interaction and cross-modal attention fusion. The unicellular biological network can be effectively deduced, the deduction accuracy and biological interpretation are remarkably improved, the method plays an important role in understanding the cell biological process, developing and treating diseases and the like, has good expandability, and can further integrate multi-modal omics data such as proteomics and metabonomics.

The invention discloses a diabetes risk prediction method and system based on multiple omics markers, and relates to the technical field of biomedical engineering, and the method comprises the steps: collecting multiple omics data of a plurality of basic time points and a plurality of metabolic stress trigger points of a subject; according to the method, a sampling mode of combining a basic time point and a metabolic stress trigger point is adopted, and dynamic network marker identification is matched, so that a disease early warning time window is greatly advanced, and the critical state change before the disease attack can be effectively captured; multiple omics data are integrated to construct a four-dimensional matrix, a subtype specificity module is mined in combination with a time sequence causal Bayesian network, and prediction comprehensiveness and subtype pertinence are improved; feature weights are dynamically distributed through reinforcement learning, and prediction precision and generalization ability are both considered in combination with a digital twinborn enhanced model architecture; the model architecture has clear biological mechanism association, outputs a multi-task prediction result, and provides an interpretable personalized basis for clinical intervention.

The invention discloses a disease-related anomaly localization protein prediction method based on deep learning, and the method comprises the steps: carrying out the protein prediction based on the proteomics expression data of normal and disease samples and a known protein interaction network in a normal state; respectively constructing a protein interaction network under the activity characteristics of the sample pathway and the disease state; the proteomics expression data and the pathway activity characteristics are fused through a cross attention mechanism, and protein characterization characteristics with pathway perception ability are constructed; respectively predicting protein subcellular localization under the normal and disease states by using a graph attention network model based on the protein characterization characteristics and the protein interaction network corresponding to the normal and disease states; disease-related abnormal localization proteins are identified by comparing predicted protein subcellular localization in normal and disease states. The method can efficiently and accurately identify the abnormal localization protein related to the disease, and has important scientific research value and application prospect.

The invention discloses a hepatocellular carcinoma prognosis and immune response prediction method based on multi-omics machine learning, and relates to the technical field of biomedicine and artificial intelligence crossing, and the method comprises the following steps: S1, constructing a multi-omics data set for model training and verification; s2, performing feature integration and clustering analysis on the multi-omics data to obtain corresponding hepatocellular carcinoma molecular subtype distribution; s3, constructing a hepatocellular carcinoma prognosis model based on Cox regression combined with a random survival forest, identifying 11 core immune genes and corresponding weight coefficients by training the model, and constructing an immunotherapy response index IMLIRI score; and S4, carrying out clinical application on the IMLIRI score. According to the method, through multi-omics data integration and multi-queue external verification, the influence of data deviation and queue heterogeneity on the model performance is reduced, so that the method shows stable prediction performance in hepatocellular carcinoma queues with different sources and different pathogenesis backgrounds, and the reliability and generalizability of the model in clinical application are improved.

The invention relates to a disease-specific quantitative trait locus identification method based on multi-omics integration. The method comprises the following steps: acquiring variation sites of whole genome sequencing data of a target object, and molecular phenotypes and molecular abundance of molecular phenotype data; determining an association significance probability value of an association pair formed by the variation point and the molecular phenotype based on the variation point and the molecular abundance, and screening a first association pair from the association pair based on the association significance probability value and condition analysis; determining a consistent second association pair in the normal association pair and the disease association pair, and determining a third association pair with a disease interaction effect in the second association pair; calculating a first effect estimation value and a second effect estimation value of each third association pair; and based on the first effect estimation value and the second effect estimation value of the third correlation pair, determining a target correlation pair related to the Parkinson's disease, and taking the target correlation pair as the identified quantitative trait site. By adopting the method, the Parkinson's specific pathogenic heritable variation can be accurately identified.

The invention belongs to the technical field of compound analysis and identification, and discloses application of a metabonomics analysis technology to identification of lycium seed oil. According to the metabonomics analysis technology, the characteristic components of the lycium seed oil are identified through Log2 Fold Channel and VIP values, and the screening conditions for identifying the characteristic components of the lycium seed oil are | Log2 Fold Channel | > 1.5, and VIP < gt >; the method specifically comprises the steps of sample preparation, non-targeted metabonomics analysis, extraction and identification of characteristic peaks, similarity analysis, difference analysis and screening of differential markers. According to the method, a non-targeted metabonomics analysis method is adopted, various metabolic components in the lycium barbarum seed oil can be undiscriminately covered, the limitation that a traditional identification technology only aims at a few indexes is broken through, the unique characteristic components of the lycium barbarum seed oil can be accurately screened out, and the accuracy and specificity of an identification result are greatly improved.

The invention discloses a gene expression map generation method and device based on spatial omics hierarchical reconstruction, a storage medium and equipment, relates to the technical field of biological information, and mainly aims to solve the problem of poor generation accuracy of an existing gene expression map. Comprising the following steps: acquiring original transcriptome data of a tissue gene; the gene data are predicted based on a hybrid neural network model, target slice space transcriptome data are obtained, the hybrid neural network model comprises a regulation and control niche network, a cell niche network and a cell communication prediction network, and a contrast diffusion bridge is constructed in the regulation and control niche network; a multi-modal condition diffusion bridge is constructed in the cell ecological niche network, and an optimal transport stream matching diffusion bridge is constructed in the cell communication prediction network; and taking the target slice space transcriptome data as an anchor slice to carry out space stream matching alignment to obtain an alignment result, and reconstructing the target slice space transcriptome data based on the alignment result to obtain a gene expression map of the tissue gene.

This invention provides a non-cytotoxic, in vivo compatible proximity labeling method for peroxidases, Hi-APEX, and its applications, belonging to the field of biotechnology. This invention provides a method for labeling interacting proteins, neighboring proteins, and / or neighboring RNA. By introducing TP probes, it completely overcomes the core limitation of peroxidase dependence on H2O2 without sacrificing the original high spatiotemporal resolution. The method provided by this invention exhibits significantly superior technical effects compared to existing technologies in terms of reduced toxicity, enabling in vivo application, precise analysis of redox-sensitive processes, dynamic tracking of protein transport, and simultaneous spatial multi-omics analysis. It provides a powerful tool for life science research and drug development, possessing significant scientific value and broad application prospects.

This invention provides a multi-omics diagnostic model for inflammatory bowel disease (IBD), along with its biomarker screening method, applications, and reagent kits. Currently, there is no gold standard for diagnosing IBD, leading to many unidentifiable suspected cases in clinical practice. This invention utilizes information on the abundance of gut bacteria, the functional genes of gut bacteria, and the content of intestinal metabolites to establish a predictive model for IBD. Furthermore, this invention integrates the above two types of omics information and the prediction across three information dimensions to establish a predictive model with impressive predictive capabilities. The method and model of this invention can assist in the diagnosis and differentiation of IBD.