Patents
Literature
12 results about "Pathway analysis" patented technology
Efficacy Topic
Property
Owner
Technical Advancement
Application Domain
Technology Topic
Technology Field Word
Patent Country/Region
Patent Type
Patent Status
Application Year
Inventor
In bioinformatics research, pathway analysis software is used to identify related proteins within a pathway or building pathway de novo from the proteins of interest. This is helpful when studying differential expression of a gene in a disease or analyzing any omics dataset with a large number of proteins. By examining the changes in gene expression in a pathway, its biological causes can be explored. Pathway is the term from molecular biology which depicts an artificial simplified model of a process within a cell or tissue. A typical pathway model starts with an extracellular signaling molecule that activates a specific receptor, thus triggering a chain of protein-protein or protein-small molecule interactions. Pathway analysis helps to understand or interpret omics data from the point of view of canonical prior knowledge structured in the form of pathways diagrams. It allows finding distinct cell processes (Cellular processes), diseases or signaling pathways that are statistically associated with selection of differentially expressed genes between two samples. Often but erroneously pathway analysis is used as synonym for network analysis (functional enrichment analysis and gene set analysis).
Multi-omics deep learning based colorectal cancer liver metastasis detection method and system
The application discloses a kind of based on multi-omics deep learning colorectal cancer liver metastasis detection method and system, comprising: extracting the feature gene group with CRC transfer-metabolic dual function, and construct CRC transfer risk prediction model foundation, based on analysis CRC transfer risk probability to screen the molecular marker with CRC transfer nature and CRLM specific characteristics as initial candidate biomarker;Meanwhile, from the metabolome to obtain the differential expression metabolite corresponding to CRLM patient sample and LCRC patient sample metabolome, and the enrichment pathway analysis of transcriptome and metabolome is combined to construct CRLM multi-layer core metabolic network, for the screening core biomarker of colorectal cancer liver metastasis accurate detection in accordance with, entire method can effectively screen the biomarker for detecting colorectal cancer liver metastasis.
Owner:ZHEJIANG UNIV
A disease treatment target discovery and drug prediction method based on multi-omics network and deep learning model
This invention relates to a method for disease therapeutic target discovery and drug prediction based on multi-omics networks and deep learning models, belonging to the interdisciplinary field of bioinformatics and artificial intelligence drug discovery. The method includes: integrating genomic expression profiles and common molecular interaction data from disease and control groups to construct a candidate whole-genome network; refining the network based on expression profile data through systematic modeling and the AIC criterion to obtain the real molecular interaction network; extracting the core network using the master network projection method and identifying key targets through pathway analysis; predicting candidate drugs interacting with the targets using a pre-trained deep neural network model; and finally screening potential therapeutic drugs based on multi-dimensional criteria such as regulatory ability, sensitivity, and toxicity. This invention achieves a complete integration from disease mechanism analysis to drug prediction, and is particularly suitable for complex diseases such as atopic dermatitis. It can systematically discover precise targets and efficiently predict repositionable drugs, significantly improving R&D efficiency.
Owner:NINGBO CHSIRGA METAL PROD CO LTD
A polypeptide with methylation function at n-position of a genus amaryllidaceae alkaloid compound, and a coding gene and application thereof
The application provides a polypeptide with N-methylation function of an Amaryllidaceae alkaloid compound, a coding gene and application thereof, and belongs to the technical field of bioengineering. The polypeptide is selected from the following (a) a polypeptide consisting of an amino acid sequence shown in SEQ ID NO. 1; (b) a polypeptide consisting of an amino acid sequence shown in SEQ ID NO. 2. The application provides a new key enzyme element for Amaryllidaceae alkaloid biosynthesis pathway analysis, metabolic engineering modification and synthetic biology research, has important scientific research value and potential industrial application prospect, meanwhile, the technical scheme is complete, the application range is wide, and the stability and anti-avoidance capability of patent protection can be improved.
Owner:NORTHWESTERN POLYTECHNICAL UNIV
A comorbidity mechanism identification method and system based on complement-coagulation axis and ceRNA network
The application relates to a comorbidity mechanism identification method and system based on a complement-coagulation axis and a ceRNA network, and relates to the technical field of biomedical testing. The method comprises the following steps: integrating transcriptome expression characteristics of different diseases and performing immune pathway analysis, taking the complement-coagulation axis as a breakthrough point, identifying an inflammatory signal module shared by endometriosis and subacute cutaneous type red lupus, and further screening candidate target points with cross expression characteristics and immune regulation functions. At the regulation mechanism level, a circRNA-miRNA-mRNA ternary regulation network containing a circRNA node is constructed to obtain more complete non-coding regulation axis information; meanwhile, a plurality of algorithms are introduced to cooperatively screen and verify an independent data set, a repeatable, verifiable and expandable molecular mechanism mining process is formed, and thus the comorbidity mechanism identification analysis between diseases is realized, and technical support and path reference are provided for comorbidity mechanism research of autoimmune diseases.
Owner:FOSHAN MATERNAL & CHILD HEALTH CARE HOSPITAL
A Metabolomics Chromatographic Peak Extraction Method Based on Secondary Mass Spectrometry Qualitative Results
This invention discloses a method for extracting metabolomics chromatographic peaks based on secondary mass spectrometry qualitative results. This method starts with secondary mass spectrometry in metabolomics, utilizing the qualitative results from the secondary mass spectrometry in a qualitative library, combined with XCMS (XML Cryptographic Message Syntax) peak extraction results to obtain more comprehensive chromatographic peak information. This invention starts with the secondary mass spectrometry characteristics that contain more mass spectrometry information and have clear chemical meanings, improving the accuracy of chromatographic peak extraction and clarifying the specific biological significance of metabolomics chromatographic peaks. This is beneficial for further discovery of metabolomics differentials, pathway analysis, and interpretation of biological significance. Figure 1 in the accompanying drawings is a flowchart of this invention.
Owner:DALIAN CHEM DATA SOLUTION TECH CO LTD
Single-cell pathway analysis method developed based on Overlapping Group Lasso
This invention proposes a single-cell pathway analysis method based on Overlapping Group Lasso. The model's logistic form is used to regress gene expression data and cell state for each cell. A Stability Selection algorithm is employed, performing multiple sampling regressions on the data and retaining the pathways with the most stable screening frequency as the final result. The specific steps are as follows: Step 1: Mathematical expression and preprocessing of the input cell gene expression matrix, pathway data, and cell labels; Step 2: Establishing a regression model; Step 3: Solving the regression model; Step 4: Stability selection. The model selects independent variable groups at the pathway level and, based on the characteristics of Overlapping Group Lasso, decomposes the effects of overlapping genes in different genomes, effectively avoiding the influence of overlapping gene effects.
Owner:ACAD OF MATHEMATICS & SYSTEMS SCIENCE - CHINESE ACAD OF SCI
Serum biomarkers for diagnosis and disease activity assessment of takayasu arteritis and application thereof
The application provides serum biomarkers for diagnosing and evaluating the activity of aortitis and application, and relates to the field of disease activity evaluation. The serum biomarkers are serum proteins: HP and ORM1. HP and ORM1 are determined as two new serum biomarkers through comprehensive proteomics analysis; gene ontology and Kyoto Encyclopedia of Genes and Genomes pathway analysis are carried out using a DAVID database; a protein-protein interaction network is constructed using Metascape. A random forest model is trained using a caret package, and a nomogram is visualized using an rms package. Serum samples are obtained, and the serum levels of HP and ORM1 are determined using a commercial ELISA kit; they are significantly related to disease activity, and are involved in inflammation / immune processes in aortitis, so the markers have the potential to serve as an auxiliary tool for monitoring the activity of aortitis.
Owner:THE FIRST AFFILIATED HOSPITAL OF MEDICAL COLLEGE OF XIAN JIAOTONG UNIV
Multi-omics data conjoint analysis and model training method and device, equipment and medium
The invention relates to the technical field of data processing, in particular to a multi-omics data conjoint analysis and model training method and device, equipment and a medium, and the method comprises the steps: constructing a graph structure based on prior biological knowledge, selecting a center feature from vertexes of the graph structure, and taking other vertexes except the center feature in the graph structure as edge features; constructing a layer network layer based on the graph structure, wherein the first layer is an edge feature with the shortest path from each center feature as a hop in the graph structure; training a preset disease mechanism model by using the training sample to obtain a trained disease mechanism model; a biological pathway transmission layer in the disease mechanism model is used for transmitting the information of the molecular characteristics of the first layer in the molecular characteristics of the sample to the direct connection characteristics in the first layer, gradually transmitting the information of the edge molecular characteristics to the central characteristics of the zero layer, and obtaining the updated central characteristics for disease analysis. According to the technical scheme, path analysis details can be explained.
Owner:THE CHINESE UNIV OF HONG KONG (SHENZHEN)
PRAK signaling pathway analysis method and system
The application relates to the technical field of data processing, and discloses a PRAK signal pathway analysis method and system. The method comprises the following steps: collecting circRNA expression profiles, miRNA regulation data and PRAK pathway protein phosphorylation data by high-throughput sequencing technology to form a comprehensive data set, mining molecular interaction relationships to construct a pathway connection matrix containing three regulation axes of P38-PRAK-HSP27, VEGFA-PRAK and PRAK-GTPBP4-RhoA, predicting the PRAK pathway activation strength value by using a graph neural network algorithm, extracting the response characteristic markers of a chemotherapy-resistant type, an apoptosis-sensitive type and a proliferation regulation type, and matching an optimal PRAK pathway intervention target point combination. The application solves the technical problem that the existing PRAK signal pathway analysis method cannot intelligently process multi-omics data and accurately predict the pathway activity state.
Owner:TIANJIN TUMOR HOSPITAL
A method and system for analyzing components of a kidney-tonifying and essence-nourishing compound
This invention relates to the field of traditional Chinese medicine component analysis technology, and discloses a method and system for component analysis of kidney-tonifying and essence-nourishing compounds. The method includes physically disrupting the sample and performing multi-solvent gradient extraction to generate a multidimensional digital fingerprint; based on this, a dynamic component network model is constructed with characteristic peaks as nodes and inter-peak correlation strength and activity synergy as edges; pharmacological prior knowledge rules are injected into the model, and by calculating structure-activity relationships and metabolic pathway correlations, core functional component clusters, potential auxiliary component clusters, and inter-cluster regulatory pathways are identified; based on the identification results, targeted experiments are designed for verification and model optimization, generating a structured report. This method transforms a discrete list of components into a systematic component association network and automatically realizes functional cluster identification and pathway analysis, achieving an upgrade from component identification to systematic efficacy analysis capabilities.
Owner:HANGZHOU NUPTEC RISING BIOPRODUCTS INC LTD +1
Application of traditional Chinese medicine compound Shenhua tablet in treating diabetic nephropathy and research method of action mechanism of treating diabetic nephropathy
The invention discloses application of a traditional Chinese medicine compound Shenhua tablet in treatment of diabetic nephropathy and a research method of an action mechanism of the traditional Chinese medicine compound Shenhua tablet in treatment of diabetic nephropathy. The research method comprises the following steps: screening active ingredients and action targets of the Shenhua tablet; obtaining related targets of the diabetic nephropathy from the target library; screening a drug-disease intersection target spot; drawing a protein-protein interaction network; performing gene ontology function enrichment analysis and Beijing gene and genome encyclopedia pathway analysis; carrying out molecular docking simulation and visual analysis; performing grouping intervention on the experimental animals; and carrying out kidney tissue pathological evaluation, real-time fluorescent quantitative PCR detection, western blot analysis and immunofluorescence microscopic imaging. The core active ingredients and the main action mechanism of the Shenhua tablet for treating diabetic nephropathy are systematically researched for the first time, an experimental basis and an innovative view angle are provided for clinical application and targeted therapy of the Shenhua tablet, and meanwhile, a theoretical basis is laid for treating the disease by combining traditional Chinese medicine and western medicine.
Owner:THE FIRST MEDICAL CENT CHINESE PLA GENERAL HOSPITAL
Drug action mechanism analysis method and system fusing deep learning and pathway analysis
The invention discloses a deep learning and pathway analysis fused drug action mechanism analysis method and system, and the method comprises the steps: obtaining biological sample omics data after drug processing, and carrying out the cleaning and standardization processing; constructing a deep learning model based on a convolutional neural network and an attention mechanism, and training the model by using an omics data set marked with a known action target of a drug; inputting preprocessed omics data into the trained model, and screening key potential action targets; mapping the key potential action targets to a known biological pathway database, and screening significantly enriched pathways as potential drug action pathways; calculating a comprehensive score of each potential action pathway, and screening key action pathways; and outputting an analysis result in a visual form. According to the method, the target predictive ability of deep learning and the biological significance of pathway analysis are combined, the drug action mechanism can be accurately analyzed, and support is provided for drug research and development.
Owner:SHANDONG KERUI YIJING BIOTECHNOLOGY CO LTD