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495 results about "Single cell sequencing" patented technology

Single cell sequencing examines the sequence information from individual cells with optimized next generation sequencing (NGS) technologies, providing a higher resolution of cellular differences and a better understanding of the function of an individual cell in the context of its microenvironment. Sequencing the DNA of individual cells can give information about mutations carried by small populations of cells, for example in cancer, while sequencing the RNAs expressed by individual cells can give insight into the existence and behavior of different cell types, for example in development.

Spatial transcriptomics cell type deconvolution method based on generative adversarial network and comparative learning framework

The invention discloses a space transcriptomics cell type deconvolution method based on a generative adversarial network and a comparative learning framework. The method comprises the following steps: firstly, enhancing a gene expression matrix by using a histological image and spatial position information; then, in combination with GraphSAGE and self-supervised comparative learning, optimizing feature representation of space transcriptomics data, and reconstructing high-quality space gene expression data; single-cell RNA sequencing data gene expression features are extracted by using a variational automatic encoder, and meanwhile, the quality of a generated sample is optimized by using a discriminator, so that efficient feature extraction and accurate gene expression reconstruction are realized; and finally, mapping single-cell RNA sequencing data into spatial points through comparative learning and mapping matrix learning based on low-rank representation, thereby predicting the cell type of each point. According to the model, multi-modal information in single-cell RNA sequencing and space transcriptomics data is comprehensively considered, and a mapping matrix is constructed and optimized, so that the cell type of each space point is predicted.
Owner:QUFU NORMAL UNIV

Spatial omics multi-modal fusion method under single cell level

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.
Owner:HARBIN INSTITUTE OF TECHNOLOGY (SHENZHEN) (INSTITUTE OF SCIENCE AND TECHNOLOGY INNOVATION HARBIN INSTITUTE OF TECHNOLOGY SHENZHEN)

Nucleic acid aptamer combination suitable for single cell sequencing and application of nucleic acid aptamer combination in construction of biliary tract cancer cell map

The invention discloses a combination of different nucleic acid aptamers with known 291 targets, sequences of the nucleic acid aptamers of the combination are subjected to sequencing analysis through a single-cell high-throughput sequencing technology, and a cell map aiming at peripheral blood-derived mononuclear cells of a biliary tract cancer patient can be constructed. The nucleic acid aptamers covered by the combination have high specific affinity to molecular targets of the nucleic acid aptamers, and after the two ends of the nucleic acid aptamer sequences extend to adapt to joints of a commercial sequencing platform, high-throughput sequencing is carried out on the nucleic acid aptamer sequences which are combined with the surfaces of mononuclear cells and are provided with the sequencing joints; high-throughput analysis of the biomarkers on the surface of the peripheral blood-derived mononuclear cell of a biliary tract cancer patient can be realized, so that the cell map of the peripheral blood-derived mononuclear cell of the biliary tract cancer is constructed.
Owner:HANGZHOU INSTITUTE OF MEDICAL SCIENCES CHINESE ACADEMY OF SCIENCES

Treatment response prediction method and system, storage medium and terminal

PendingCN119541847AMedical data miningHealth-index calculationDiseaseCellular development
The invention discloses a treatment response prediction method and system, a storage medium and a terminal, and the method comprises the steps: carrying out the heterogeneity analysis and cell division of first single cell sequencing data of a patient through employing a clustering algorithm, and obtaining a plurality of corresponding cell subgroups; performing feature extraction and biomarker recognition on all the cell subgroups to obtain corresponding cell subgroup features; wherein the cell subset characteristics comprise a cell development trajectory and a plurality of cell markers; and inputting the clinical information and the cell subset characteristics of the patient into the treatment response prediction model, so that the model performs multi-factor analysis and outputs a treatment response prediction result of the patient for each treatment scheme. By adopting the embodiment of the invention, the tiny key difference between the cells is captured, the cells are divided based on the difference between the cells, and then feature extraction and biomarker recognition are performed on each cell subset, so that the specific gene expression modes of different cell subpopulations corresponding to diseases can be recognized, and the treatment response prediction accuracy is further improved.
Owner:GUANGZHOU UNIVERSITY OF CHINESE MEDICINE

Spatial domain identification method based on data interpolation and cell type deconvolution

The invention provides a spatial domain identification method based on data interpolation and cell type deconvolution, and belongs to the technical field of bioinformatics. In order to solve the problems that gap information between adjacent points cannot be utilized in low-resolution spatial transcriptome data and prior information of cell types in a tissue space structure level cannot be fully integrated in a traditional method, the method comprises the following steps: acquiring a spatial transcriptome data set and a single-cell RNA sequencing data set, and performing data preprocessing on the acquired data sets; and carrying out data interpolation on the preprocessed spatial transcriptome data, and carrying out cell type deconvolution in combination with single-cell RNA sequencing data. And constructing a deep learning model based on the graph convolutional network. And training a deep learning model according to gene expression information, spatial position information and cell type information of the spatial transcriptome data after cell type deconvolution by using a self-supervised contrast learning strategy. And performing spatial domain identification on the to-be-detected data based on the trained model.
Owner:NORTHEAST FORESTRY UNIV

Non-paired single cell multi-omics data gene regulatory network inference method

PendingCN120808883ABiostatisticsBiological modelsNear neighborGene regulatory network inference
The invention discloses a non-paired single cell multi-omics data gene regulatory network inference method, which comprises the following steps: collecting single cell sequencing non-paired data, and preprocessing the data; inputting the pre-processed single cell sequencing non-paired data into a multi-layer variational auto-encoder structure to generate advanced potential variables and reconstructed single cell sequencing non-paired data; training a layered GAN by adopting a layered adversarial alignment mechanism according to the advanced potential variables and the reconstructed single cell sequencing non-paired data; according to the advanced potential variables, adopting a mutual nearest neighbor strategy to train a mutual nearest neighbor module; fusing the advanced potential variables of different modes by adopting a gating fusion mechanism, constructing a unified advanced potential variable, and completing adaptive feature integration of the multi-mode advanced potential variables; according to prior information, an initial adjacency matrix is established, a gene regulation network is constructed in combination with unified advanced potential variables, and the gene regulation network with biological rationality is directly deduced from non-pairing input.
Owner:CHENGDU UNIV OF INFORMATION TECH

Gastric cancer multi-omics marker detection method, system and equipment

The invention discloses a gastric cancer multi-omics marker detection method, system and device, and the method comprises the following steps: S1, collecting a public database open-source space transcriptome, a single cell sequencing sample and bulk-RNAseq data for pre-processing, and collecting a primary tissue sample of a gastric cancer patient in the center for data processing; s2, integrating different modal data samples to obtain a patient label of an input end, and constructing a marker detection model and training the marker detection model; and S3, extracting a target feature value from the input external pathological section by using the trained model, and generating a diagnosis prediction result. Through multi-modal data chimerism, algorithm optimization and AI system development, subpopulation cell marker proportion prediction and prognosis diagnosis and marker evaluation with population prognosis information are realized, and an integrated diagnosis scheme for breaking through molecule-space-prognosis information is constructed.
Owner:RUIJIN HOSPITAL AFFILIATED TO SHANGHAI JIAO TONG UNIV SCHOOL OF MEDICINE

Method for identifying tissue-derived cells in body fluid based on single-cell sequencing technology

The present invention relates to the field of tissue-derived cell identification, in particular to a method for identifying tissue-derived cells in the body fluid based on single-cell sequencing technology. In the present invention, on the basis of high-throughput single-cell RNA sequencing data of cell samples obtained from body fluids, by means of reference component analysis (RCA), expression of known tissue-related marker genes, and a tissue-derived cell prediction model constructed based on logistic regression, the specific identification of tissue-derived cells in body fluids is achieved.
Owner:SHENZHEN HUADA GENE INST

Single cell transcriptome data and text description conjoint analysis method based on multi-modal language model

The invention relates to the technical field of cell data analysis, and discloses a single-cell transcriptome data and text description conjoint analysis method based on a multi-modal language model, which comprises the following steps: acquiring a single-cell RNA sequencing expression matrix and a corresponding cell text description, preprocessing the single-cell RNA sequencing expression matrix and the corresponding cell text description, and analyzing the single-cell transcriptome data and the corresponding cell text description; according to the method, a multi-modal data set is constructed, deep fusion of gene expression data and text knowledge is realized by constructing a double-model and cross-modal projection module, limitation of a single mode is avoided, a gene expression value and an index sequence are reserved during preprocessing, a rough coding mode is changed, and the cell type identification accuracy is improved; based on a pre-training strategy of comparative learning, matching learning and a cross-modal projection module, fine-grained cross-modal information interaction and sharing are realized, and cross-modal task effects of text generation cells or cell generation texts and the like are optimized.
Owner:LONGYAN UNIV

Data classification method and system for single cell sequencing

The invention relates to the technical field of bioinformatics, in particular to a data classification method and system for single cell sequencing. The method comprises the following steps: acquiring an original gene expression matrix; performing gene data preprocessing on the original gene expression matrix to obtain a preprocessed gene expression matrix; constructing a cell topological graph according to the preprocessed gene expression matrix to obtain the cell topological graph; performing cell division rate calculation according to the cell topological graph and the preprocessed gene expression matrix, and performing RNA rate calculation to obtain RNA rate data; adding node rates to the cell topological graph according to the cell division rate data and the RNA rate data to obtain an enhanced cell topological graph. According to the method, the dynamic graph is constructed and the change rule of the dynamic graph is analyzed, so that the dynamic change of the cell state is better captured, the sensitivity to parameters is reduced, a complex cell population structure is processed, and a quantitative cell heterogeneity evaluation index is provided.
Owner:刘国荣

An aptamer combination applicable to single-cell sequencing and its application in constructing a cholangiocarcinoma cell atlas

The present invention discloses a combination of different nucleic acid aptamers with 291 known targets. By performing sequencing analysis on the nucleic acid aptamer sequences of this combination through single-cell high-throughput sequencing technology, a cell atlas targeting mononuclear cells derived from the peripheral blood of patients with cholangiocarcinoma can be constructed. The nucleic acid aptamers covered by this combination have high specific affinity for their molecular targets. After extending adapters commercialized for sequencing platforms at both ends of the nucleic acid aptamer sequences respectively, by performing high-throughput sequencing on the nucleic acid aptamer sequences with sequencing adapters bound to the surface of mononuclear cells, high-throughput analysis of biomarkers on the surface of mononuclear cells derived from the peripheral blood of patients with cholangiocarcinoma can be achieved, thereby constructing a cell atlas of mononuclear cells derived from the peripheral blood of cholangiocarcinoma.
Owner:HANGZHOU INSTITUTE OF MEDICAL SCIENCES CHINESE ACADEMY OF SCIENCES

Cooperative game theory-based immunotherapy reaction marker identification method and system

The invention provides an immunotherapy reaction marker identification method and system based on a cooperative game theory, and relates to the technical field of intelligent medical treatment, and the method comprises the following steps: obtaining immunotherapy single cell sequencing data, and determining a candidate gene set through differential expression analysis; extracting regulation and control relation pairs of the candidate gene set to obtain a multi-level information gene regulation and control network; embedding the multilevel information gene regulation and control network by adopting a Node2vec algorithm to obtain a network module containing potential biological functions, calculating the contribution degree of each gene feature to model prediction based on a Myerson value, and obtaining a feature importance sequence; combining the optimal features of the modules into a global candidate set; and iteratively optimizing the global candidate set, and outputting a target immunotherapy reaction marker set. Through a Myerson value principle in a cooperative game, a biomarker set related to immunotherapy response is efficiently searched, deep analysis of a drug resistance mechanism is realized, the accuracy and robustness of marker screening are improved, and the method serves for cancer clinical scheme customization.
Owner:SHANDONG UNIV

Single cell sequencing data clustering method and system based on similarity constraint

The invention discloses a single cell sequencing data clustering method and system based on similarity constraint, and the method comprises the steps: obtaining a Fastq sequencing file, carrying out the quantitative analysis and data preprocessing, and obtaining a preprocessed gene expression matrix; performing similarity priori knowledge and non-similarity priori knowledge extraction processing on the preprocessed gene expression matrix, and constructing a similarity matrix and a non-similarity matrix; constructing a joint non-negative matrix factorization model according to the similarity matrix and the non-similarity matrix, and performing dimension reduction processing to obtain a common coefficient matrix; and carrying out hierarchical clustering and visualization processing to obtain a single cell sequencing data clustering result. According to the method, similarity and non-similarity constraints of a plurality of gene expression matrixes are mined, and the feature extraction capability of the model is improved, so that a better single cell sequencing data clustering effect is realized. The single cell sequencing data clustering method and system based on similarity constraint can be widely applied to the technical field of single cell sequencing data clustering.
Owner:SOUTH CHINA AGRICULTURAL UNIVERSITY

Single-cell RNA sequencing data classification method and system based on deep learning

The invention discloses a single-cell RNA sequencing data classification method and system based on deep learning. The invention provides a multi-scale neural network based on an improved Transform. The multi-scale neural network is used for classifying preprocessed single-cell RNA (Ribonucleic Acid) sequencing data. The multi-scale neural network integrates a multi-scale attention mechanism, relative position coding and a gating feedforward network, not only can the multi-level dependency relationship of data be captured, but also noise interference can be effectively reduced through feature screening. Compared with a traditional convolutional neural network or a classical Transform, the multi-scale neural network provided by the invention shows stronger robustness and generalization ability in sequence modeling and classification tasks. Through wide tests on a plurality of public data sets, the proposed multi-scale neural network shows better performance in a cell category classification task.
Owner:ZHEJIANG SCI-TECH UNIV

Cell differentiation trajectory inference method based on deep hyperbolic manifold embedding

The invention relates to a cell differentiation trajectory inference method based on deep hyperbolic manifold embedding. The method comprises the following steps: acquiring single-cell RNA sequencing data; introducing hyperbolic space embedding with negative curvature, performing feature extraction on the single-cell RNA sequencing data through a deep feature extraction network, and mapping extracted high-dimensional features to a low-dimensional hyperbolic space; through track inference in a low-dimensional hyperbolic space, transformation paths of cells from progenitor cells to various differentiation end cell types are constructed, and key genes and pathways are evaluated by utilizing a sensitivity analysis method. The method has the beneficial effects that by introducing hyperbolic space embedding with negative curvature, the model can better capture the hierarchical structure of data, and the accuracy and consistency of differentiation tracks are enhanced. Moreover, high-dimensional single-cell sequencing data can be processed, the limitation of a traditional method under the high-dimensional condition is overcome, and the applicability of the model is improved.
Owner:ZHEJIANG UNIV CITY COLLEGE

Application of CD22 gene as target spot in preparation of medicine for treating spinal cord injury related diseases

The invention discloses application of a cell surface adhesion molecule CD22 as a target spot in preparation of drugs for treating spinal cord injury related diseases. The change of gene expression in the glial scar formation process is represented by space transcriptome sequencing, and the specific expression of CD22 in the glial scar region is up-regulated. According to single cell sequencing, in-situ hybridization and immunohistochemistry, specific high expression CD22 of part of microglial cells in a glial scar area is found. CD22 is knocked out through a genetic means, and it is found that formation of glial scars after spinal cord injury is remarkably reduced through inhibition of CD22. Behavioral detection finds that the error rate of irregular horizontal ladders is remarkably reduced by inhibiting CD22, and fine movement recovery of hind limbs of mice after spinal cord injury is promoted. The siRNA specifically targeting CD22 is injected into the sheath, so that the expression of microglial cells CD22 is inhibited, the error rate of irregular horizontal ladders of hind limbs can be reduced, and the recovery of the fine movement function of the hind limbs of the mouse after spinal cord injury is promoted. The invention provides a new possibility for development of drugs for spinal cord injury and treatment of spinal cord injury.
Owner:NANTONG UNIV

Single cell Hi-C atlas interpolation method and device

PendingCN119694388ABiostatisticsProteomicsAlgorithmBiocomputer
The invention relates to the technical field of biological computing, in particular to a single-cell Hi-C atlas interpolation method and device, and the method comprises the steps: obtaining single-cell sequencing library data and a reference genome, determining the position of the sequencing data in the genome, and carrying out the statistics of the interaction frequency to obtain a Hi-C contact matrix; performing interpolation on the Hi-C contact matrix of any chromatin of the single cell according to similarity of adjacent nodes to obtain an adjacent node interpolation map of the single chromatin of the single cell; calculating an interpolation map of each chromatin of each cell, performing representation learning by taking the interpolation map as an adjacent matrix, splicing vectors to obtain a cell pre-embedded vector, and performing dimensionality reduction to obtain a whole cell embedded vector matrix; a cellular level similarity matrix is calculated by using a single cell embedded vector matrix and converted into a Markov probability transfer matrix, and the Markov probability transfer matrix is used for correcting an adjacent node interpolation map to obtain a Hi-C interpolation map, so that the interpolation accuracy is improved.
Owner:XI'AN UNIVERSITY OF ARCHITECTURE AND TECHNOLOGY

Full-length gene sequence modeling method and system based on neural network

The invention provides a full-length gene sequence modeling method and system based on a neural network, and the method comprises the steps: constructing a first expression matrix for initial single-cell RNA sequencing data, and carrying out the quality control transformation of the first expression matrix to obtain a second expression matrix; inputting the second expression matrix into a preset binning embedding module to obtain a binning embedding matrix; maintaining and loading a gene pathway set through a knowledge base and a mapping module to obtain a binary mask matrix, and performing mask processing on the binning embedded matrix based on the binary mask matrix to obtain a pathway mask matrix; the path mask matrix is input into a preset attention state space model, the attention state space model comprises an encoder module, a jump connection module and a decoder module which are arranged in sequence, and a reconstruction tensor is output through the decoder module. According to the scheme, an efficient and extensible whole-gene annotation method is provided, and whole-gene expression input can be processed while the calculation efficiency is kept.
Owner:BEIJING UNIV OF POSTS & TELECOMM

Space omics data completion method and system based on variational graph auto-encoder

The invention provides a spatial omics data completion method and system based on a variational graph auto-encoder, and relates to the technical field of bioinformatics. Extracting partial common genes in the data pair to obtain a feature matrix; based on the spatial position information, obtaining a first sub-adjacency matrix of cells in the spatial transcriptomics sequencing data; respectively obtaining a second sub-adjacency matrix of the cells in the single-cell RNA sequencing data and a third sub-adjacency matrix of the cells in the data pair based on gene expression similarity; combining the first sub-adjacency matrix, the second sub-adjacency matrix and the third sub-adjacency matrix to obtain a final adjacency matrix; and inputting the feature matrix and the final adjacent matrix into a pre-trained variational graph auto-encoder network to complete the deletion gene of the space transcriptomics. According to the method, the position information and gene expression characteristics between idle data cells can be effectively utilized, errors can be reduced, and meanwhile, the similarity between complementation genes and true values can be improved.
Owner:SHANDONG UNIV

Method for constructing chronic unpredictable negative stress model, chronic unpredictable negative stress model and application of chronic unpredictable negative stress model in mental disease research

The invention provides a method for constructing a chronic unpredictable negative stress model, the chronic unpredictable negative stress model and application of the chronic unpredictable negative stress model in mental disease research, and belongs to the field of brain organ in-vitro model construction. Through dual verification of a microelectrode array and single cell sequencing, an in-vitro brain organ model capable of simulating chronic unpredictable negative stress core characteristics is successfully constructed, and a potential neural network function reconstruction mechanism and a cell molecule basis of the in-vitro brain organ model are disclosed. The comprehensive research normal form breaks through the limitation of a traditional single technology platform, and an accurate and efficient innovative research platform highly related to human is provided for pathogenesis research of mental diseases, especially chronic stress related diseases such as depression and anxiety and development of novel treatment strategies.
Owner:HANGZHOU SEVENTH PEOPLES HOSPITAL

Multi-scale causal discovery method and system based on collective behavior modeling

The invention provides a multi-scale causal discovery method and system based on collective behavior modeling, and relates to the technical field of causal discovery, and the method comprises the steps: obtaining single-cell RNA sequencing data, the single-cell RNA sequencing data being a gene expression matrix of a plurality of cells; single-cell RNA sequencing data is input into a multi-scale causal model for reasoning, a multi-scale causal diagram is obtained, and the multi-scale causal diagram is used for describing the multi-scale causal relationship between genes and between genes and gene programs; wherein the multi-scale causal model takes a single gene as an individual variable, through collective behavior modeling, the single gene is aggregated into a collective variable representing a gene program, and a multi-scale collaborative learning strategy is adopted to collaboratively learn the multi-scale causal relationship between individuals and between individuals and collective. According to the method, a collective behavior modeling framework is innovatively constructed, key collective behaviors driving state changes can be effectively identified, and the causal discovery accuracy, rationality and robustness are improved.
Owner:SHANDONG UNIV

Gene state cancer clustering analysis method based on deep learning

The invention discloses a genetic state cancer clustering analysis method based on deep learning, which comprises the following steps: S1, constructing a single cell sequencing data set which comprises a gene expression matrix; s2, constructing a deep neural network composed of an input layer, a hidden layer and an output layer to obtain converted low-dimensional high-variation gene expression features; s3, constructing a gridding preprocessing model, and performing networked preprocessing including grid segmentation and isolated point removal on the low-dimensional high-variation gene expression features; constructing a clustering algorithm model, inputting the preprocessed low-dimensional high-variation gene expression features into the clustering algorithm model, and designing an optimization strategy based on a target function by the clustering algorithm model to enhance label entropy on a KL divergence index and amplify the ratio weight of auxiliary probability distribution and clustering distribution of the gene features; and iteratively realizing clustering result optimization as the output of the clustering algorithm model. Compared with the prior art, the clustering precision can be improved.
Owner:TIANJIN UNIV

DLL3 as cervical neuroendocrine cancer treatment target and application thereof

The invention discloses DLL3 serving as a cervical neuroendocrine cancer treatment target and application of the DLL3, and belongs to the technical field of biology. The invention discloses specific expression of a DLL3 gene in cervical neuroendocrine carcinoma (NECC) and application of the DLL3 gene as a therapeutic target. Single cell sequencing and immunohistochemistry find that a DLL3-NOTCH1 / 2 signal axis is activated in NECC, and functional experiments prove that the DLL3-NOTCH1 / 2 signal axis drives malignant progression by promoting tumor proliferation and inducing T cell depletion. In addition, the invention also constructs an NECC organ-TILs co-culture model, and verifies the synergistic effect of the DLL3 targeted drug AMG757 combined with EP chemotherapy. The invention provides new target selection and theoretical basis for precise diagnosis and treatment of NECC, and has important clinical transformation value.
Owner:THE OBSTETRICS & GYNECOLOGY HOSPITAL OF FUDAN UNIV

Particle pairing device and particle pairing system

The utility model discloses a particle pairing device and a pairing system, the pairing device is used for controlling pairing of a first particle and a second particle in a micro-fluidic chip, and the particle pairing device comprises a detection module and a valve control module electrically connected to the detection module, the detection module is used for identifying first particles when a first particle solution flows through a first particle flow channel of the micro-fluidic chip, is also used for identifying second particles when a second particle solution flows through a second particle flow channel of the micro-fluidic chip, and is electrically connected to the valve control module; the valve control module is used for blocking the first particle flow channel when the detection module recognizes the first particles and blocking the second particle flow channel when the detection module recognizes the second particles. Therefore, pairing of a single first particle and a single second particle can be realized, for example, when the first particle and the second particle are respectively cells and microspheres, the accuracy and efficiency of pairing of the cells and the microspheres can be improved, and then the efficiency of single cell sequencing is improved.
Owner:GUANGZHOU NAT LAB

Marking method for characterizing intercellular contact and application thereof

The invention discloses a chemical labeling system (HIM-IP) for detecting interaction between cells. According to the system, tyrosinase and phenol are respectively modified on the surfaces of two to-be-detected cells to construct capturing cells and prey cells, and then biotin or single-stranded DNA with nucleophilic groups is used as a molecular tag for labeling. The system not only can perform detection through traditional flow cytometry, but also can be compatible with a commercialized single cell transcriptome sequencing platform to realize association of intercellular interaction information and transcriptome information on a single cell level. The system does not need to carry out complex gene engineering modification on cells, the whole modification and marking process is simple, convenient and efficient, the detection sensitivity of intercellular interaction is high, and the biological mechanism of intercellular interaction regulation and control can be deeply excavated by integrating the single cell sequencing technology.
Owner:INSTITUTE OF BASIC MEDICINE & CANCER CHINESE ACADEMY OF SCIENCES (PREPARATORY)

New method for screening myocardial therapeutic targets for ischemic heart failure by using single-cell sequencing

PCT designated stageWO2026076708A1Microbiological testing/measurementSequence analysisIschemic heartCardiac muscle
Provided is a method for screening myocardial therapeutic targets for ischemic heart failure by using single-cell sequencing, which method comprises the following steps: S1, sample preparation; S2, construction of a single-cell expression matrix; S3, cell quality control; S4, cell type annotation; S5, cell communication analysis; and S6, co-expression network analysis. The provided method for screening myocardial therapeutic targets for ischemic heart failure by using single-cell sequencing comprises performing single-cell sequencing on hearts of healthy mice and IHF mice, screening for cell types with significant differences in cardiac transcriptional profiles of the healthy mice and IHF mice, then exploring interaction characteristics of various types of cells in malignant fibrotic IHF hearts, revealing potential regulatory modules and pathways related to malignant myocardial fibrosis in single-cell expression data of IHF hearts, and performing screening to obtain Pdgfb and Tnfsf12 genes which can be used as therapeutic targets for treating myocardial fibrosis in ischemic heart failure.
Owner:PKU HKUST SHENZHEN HONGKONG INSTITUTION

A method, device and computer readable storage medium for cell heterogeneity analysis of large-scale single-cell sequencing data

The application discloses a cell heterogeneity analysis method, device and computer readable storage medium for large-scale single cell sequencing data. The application combines kernel non-negative matrix factorization with deep neural network to construct a clustering method called KNMF-DNN. The method selects some representative subsets from the overall data, and uses the kernel non-negative matrix factorization method to cluster the subsets; then, the representative subsets are used as a training set, the remaining data is used as a test set, the labels obtained by clustering are used to classify the remaining data through the deep neural network, so that the clustering of the whole data is realized. In addition, the application also uses the idea of stratified sampling to select the most representative samples, and the best division of the clustering samples and the classification samples is determined by the KL divergence. Experimental results show that, compared with other latest methods, the KNMF-DNN has more excellent results on three real scRNA sequencing data sets.
Owner:RENMIN UNIVERSITY OF CHINA

Separation and culture method of plectropomus leopardus haematochrome cells

The invention relates to the technical field of cell separation and culture, in particular to a method for separating and culturing haematochrome cells of plectropomus leopardus. The separation method of the plectropomus leopardus haematochrome cells is created for the first time, the EDTA digestive juice is used for pre-digesting epidermis cells on the outer layers of the plectropomus leopardus fins, then the collagenase digestive juice is used for digesting connective tissues (pigmented cells) of internal dermis, digestive enzymes such as trypsin and other mechanical methods which have great damage to the cells are not used, and the method is suitable for large-scale production of the plectropomus leopardus haematochrome cells. The plectropomus leopardus haematochrome cell can reduce cell damage, can be effectively separated to obtain the plectropomus leopardus haematochrome cell which is high in purity, good in activity and capable of being cultured in vitro, and lays a foundation for subsequent experiments such as single cell sequencing, cell in-vitro culture and molecular function verification.
Owner:HAINAN UNIVERSITY SANYA NANFAN RESEARCH INSTITUTE

Single-cell RNA sequencing analysis pipeline for predicting cell sensitivities to various drugs

Methods for facilitating drug discovery in various models and proposing single cell-type-specific drug candidates, and predicting cellular drug sensitivities. Predictions comprise obtaining bulk RNA sequence data, wherein bulk RNA seq data is pan-cancer cell line transcriptomic data from one or more sources; obtaining single cell RNA sequence data (scRNA-seq) from one or more sources; integrating the bulk RNA sequence data and scRNA-seq data; capturing similarities between the bulk data and the scRNA-seq data based on a shared drug response relative gene and using canonical correlation analysis; extracting one or more drug-response relevant features and selecting a pharmacogenomic subspace for accurately predicting a single-cell drug response.
Owner:REGENTS OF THE UNIVERSITY OF MINNESOTA

METHOD AND SYSTEM FOR SORTING DRUG-RESPONSIVE CELL POPULATION BASED ON SINGLE-CELL RNA SEQUENCING (scRNA-seq) DATA

Method and systems for sorting drug-responsive cell population based on single-cell RNA sequencing (scRNA-seq) data are disclosed. In some examples, the method includes: constructing a target gene regulatory network (GRN) for each of the cell populations based on scRNA-seq data of cell populations in a disease state; virtually knocking out targets in the GRN, and constructing a target-perturbed gene regulatory network (tpGRN); acquiring a low-dimensional representation of each of network nodes from the GRN in the GRN and the tpGRN through manifold alignment; calculating a Euclidean distance for each of the network nodes between the GRN and the tpGRN through a Euclidean distance; scoring a drug response of each of the cell populations by comprehensively considering changing trends of a drug target, a 2-hop node, and an edge of the 2-hop node in the GRN and the tpGRN, and determining a sorting result of the drug-responsive cell population.
Owner:INNOVATION CENTER OF YANGTZE RIVER DELTA ZHEJIANG UNIVERSITY