164results about "Bioinformatics" patented technology

The invention belongs to the technical field of medical data processing and artificial intelligence, and particularly relates to a cardiovascular disease risk prediction system based on multi-modal fusion, which comprises a multi-modal data acquisition and preprocessing module, a cross-modal association graph construction module, a dynamic fusion and prediction module based on a graph neural network and an interpretability analysis module. By constructing a heterogeneous graph fusing prior knowledge and data driving and utilizing a graph attention network to perform multi-level dynamic feature fusion, deep integration and interaction of multi-modal data such as genomes, iconography, clinical and intestinal flora metabolism are realized, so that the accuracy and interpretability of cardiovascular disease risk prediction are improved.

Provided herein is a recombinant polyclonal protein library (RPP) generated, at least in part, by an in silica method. Also provided are methods of using the RPP.

The invention discloses a report checking method capable of automatically feeding back a checking result based on a snapmake language. The method specifically comprises the following steps: step 1, file preparation: preparing a question settlement report and an analysis confirmation sheet excel table; 2, performing report basic information checking, quality control data checking, intra-group sample difference checking, report sample number and display sequence checking, report integrity checking and / or report picture checking in parallel and / or in series on the basis of the question settlement report obtained in the step 1 and an analysis confirmation single excel table; and step 3, generating a webpage version checking report according to one or more pieces of checking log information obtained in the step 2, and automatically sending feedback through a mail. The invention further discloses a system and application for implementing the report checking method, and the system and the application have wide application value.

The application discloses an intelligent agent-oriented biological information analysis method, comprising the following steps: a biological information tool register is established in advance, wherein the tool register comprises input data format, execution condition and output data format; the method further comprises the following steps: receiving a biological information task description, comparing the data format of the biological information according to the biological information tool register; in response to the comparison result of the data format, performing data standardization to execute the biological information task, and determining the task score confidence according to the execution condition; the input and output formats and the execution condition of the biological information tool are unified through the structured register, so that the intelligent agent can query and call the tool without understanding the internal implementation of the tool; the data format is automatically compared and pre-diagnosed, and when the data format is not matched, the standardization is completed by the self-adaptive conversion tool, so that the process interruption is eliminated; the confidence is captured according to the execution condition, the analysis result is outputted with the confidence index, and the result confidence is improved.

Systems and methods of the present disclosure are provided for detecting the presence of a pathogen or living organism within a sample. FT-IR is used to determine an absorption profile of the sample, which is used to determine the presence of the pathogen in the sample and determine a concentration of the pathogen in the sample. The systems and methods are further configured for detection and treatment of antibiotic resistance genes within the pathogen detected, using the absorption profile of the sample and the absorption profile of the pathogen.

This application relates to methods for operating a multi-modal sensor device and associated apparatus. The invention provides a BMD that has multiple device modes depending on the operating conditions of the device, such as motion intensity, device placement, and / or activity type, which are associated with various data processing algorithms. In some embodiments, the BMD is implemented as a wrist-worn or arm-worn device. In some embodiments, methods are provided for tracking physiological metrics using the BMD. In some embodiments, the process and the BMD apply time-domain analysis to data provided by the sensors of the BMD when the data has high signal (e.g., high signal-to-noise ratio), and apply frequency-domain analysis to the data when the data has low signal, which facilitates improved accuracy and speed of biometric data.

A computer-implemented federated studies system and method are disclosed. The system includes: a predefined common data model associated with a study; a set of sites of origin, each associated with a set of input devices for acquiring study data from subjects and a study data device. Each study data device includes: a database for storing study data derived from input devices; a data model translator for translating study data to a common data model format; a common model database for storing, in the data model, individual participant values derived from study data; a study compute module for determining site aggregate values from individual participant values; and an aggregate database for storing site aggregate values. A site of analysis is associated with a study analysis device that includes: an analysis compute module for processing site aggregate values received from sites of origin; and a reporting module for generating study reports.

The invention discloses a colon cancer diagnostic marker screening method and system based on transcriptome data, and belongs to the technical field of biological information, and the method comprises the steps of data preparation, pathological hierarchical modeling, diagnostic marker screening and screening report generation. According to the method, pathological hierarchical modeling based on dynamic discrimination and double-layer feature fusion is adopted, on the basis of comprehensively considering gene expression and pathological morphology information, pathological subtypes of colon cancer samples are adaptively recognized, stable and representative subtype features are obtained, and therefore the accuracy and biological representativeness of diagnostic marker screening are improved; diagnostic marker screening based on pathological subtype difference analysis is adopted, and on the premise of considering pathological subtype characteristics, a stable and reliable diagnostic marker set with remarkable expression difference is screened in a targeted manner, so that the biological representativeness, screening robustness and diagnostic specificity of markers are improved.

The present disclosure provides biomarker screening model training method and device, method and device, network, equipment and medium, and relates to the technical field of image processing. The implementation scheme of the present disclosure is: a heterogeneous graph construction module, configured to convert an obtained target data set into a heterogeneous graph structure; a double-flow graph convolution network module, wherein a protein interaction flow network is configured to output a first graph-level feature based on a first adjacency matrix; a gene regulation flow network is configured to output a second graph-level feature based on a second adjacency matrix; an attention fusion classification module is configured to weight and fuse the first graph-level feature and the second graph-level feature, and input the fused feature into a classifier to obtain a prediction probability value for a target disease category; and an explainable attribution module is configured to integrate a gradient along a path from a baseline input to an actual input, quantify a contribution score of each protein node feature in the heterogeneous graph structure to the prediction probability value, and output a candidate biomarker combination according to the contribution score.

The application provides a protein virtual screening method, device and equipment and a storage medium, and belongs to the field of drug discovery. The method comprises the following steps: obtaining a training sample set, wherein the training sample set comprises source data and sample data corresponding to the source data; performing unsupervised pre-training on a Transformer model by taking the source data as input and the sample data as verification, and generating one-dimensional or multi-dimensional symmetric matrices for protein sequences and ligand sequences respectively; coupling the two matrices of the protein sequences and the ligand sequences into a multi-dimensional symmetric matrix, and taking the multi-dimensional symmetric matrix as the input of a hidden layer of a BiLSTM network model; fitting experimental measurement classification and regression values of the interaction between proteins and small molecules by using the BiLSTM network model to obtain a trained screening model; and performing prediction on different protein prediction tasks by using the screening model and outputting a prediction result. According to the processing scheme, the interaction relationship between proteins and small molecule drugs can be efficiently, quickly and accurately predicted.

The embodiment of the invention discloses a multi-source data processing method and device for biological detection. According to the method, a data processing request can be obtained and analyzed to obtain plate arrangement diagram information, original detection data, a first instruction and a second instruction of a target microplate; according to the method, in response to a first instruction, a data set of a target microwell plate can be generated based on plate layout diagram information and original detection data, and the data set stores a plurality of hole sites and sample identifiers and detection values corresponding to the hole sites. According to the method, in response to a second instruction, a configuration rule of a test type corresponding to a sample identifier can be called, and a data processing result is generated based on a data set. In this way, data batch calculation processing of different samples under different test types and data batch calculation processing of the same sample under different test schemes are achieved through the same set of automatic process for original detection data from different instruments, a standardized data processing result can be generated, and the data processing efficiency of biological detection is improved.

The invention discloses a design method of a file system architecture oriented to DNA storage block equipment, and belongs to the technical field of DNA storage. The problem of providing more convenient, efficient and abundant DNA storage services for upper-layer users is solved. The method comprises the following steps: constructing a physical layer in a file system oriented to DNA storage block equipment, defining a primer block, and constructing a method for reading and writing DNA data input by DNA data input equipment oriented to the DNA storage block equipment on the basis of the primer block; constructing a file system layer in the file system oriented to the DNA storage block equipment, and establishing a method for converting the primer blocks into logic data blocks in the file system layer; and constructing the file system oriented to the DNA storage block device and a read-write delay optimization method of the DNA data input device, and completing the overall design of the file system oriented to the DNA storage block device. According to the invention, the data access efficiency of DNA storage is improved.

The invention provides a method for batch detection of viruses in a single-cell microbial genome. According to the method, by constructing the comprehensive reference index and the independent reference index and combining the two-stage detection strategy, high-throughput, batch and automatic analysis is achieved, whether all viruses / plasmids in a database exist in a sample or not can be detected at the same time through one-time operation, correlation analysis with all strains is automatically completed, and the detection efficiency is greatly improved.

The method as disclosed herein utilizes a high throughput screening assay (GigaAssay) to produce a comprehensive mutation effect on gene activity (MEGA)-mutation activity profile (Map). The methods as disclosed herein can be used to assess the mutational effect for any gene, under any condition (e.g., drug treatment) with any assay in mammalian cells in culture. Thus, the methods provided herein can be utilized to discover and screen dominant negative variants, and provide a reliable solution to the problem of identifying unique pharmacologically active variants of proteins. Furthermore, the method provided herein can be integrated to cell-based assays to investigate disease pathology and test potential drugs.

This invention provides a Slurm-based bioinformatics workflow management system. The module management subsystem stores bioinformatics software commands in a database according to a predetermined format, defining them as modules. These modules can be combined into new modules through serialization or network connections, enabling the rapid construction of complex workflows. The task submission system converts these modules into corresponding task scripts. These scripts are generated in a nested manner, consisting of a main job, sub-jobs, and the smallest job unit. The scripts conform to the Slurm job scheduling system specifications and include a progress report. This workflow management system, combined with front-end and back-end technologies, enables visual interaction, improves the management and utilization efficiency of bioinformatics software commands, and promotes the rapid development of life sciences.

The application discloses a molecular typing method of Staphylococcus capitis, and first establishes an operation technology for molecular typing of Staphylococcus capitis by using a multi-locus sequence typing system (MLST). Seven conservative gene fragments are confirmed by screening, all known Staphylococcus capitis genomes are typed based on the combined sequences, ST types and CC types are defined, and a system evolution tree based on core genome SNP differences is compared, so that reliable typing results can be obtained. Seven pairs of PCR primers are designed and verified, and the Staphylococcus capitis can be typed by MLST. The seven conservative gene combinations and amplification primers used in the typing technology are used for the first time, and the PCR reaction system and conditions are optimized by the inventors. The technical process can be used for molecular classification and epidemiological monitoring of Staphylococcus capitis.

The application discloses a kind of sequencing FASTQ file quality score sequence's sparse processing method, comprising: S1, extracting quality score data stream from FASTQ file;S2, the quality score data stream to be processed is divided into multiple segments, each segment contains n characters;S3, set the sliding window size of similarity calculation to m characters, every m characters is divided into a segment, and similarity measurement between the segments is carried out;S4, set threshold e, when the average similarity result after similarity measurement is greater than or equal to e, two segments are replaced with each other, and the replaced quality score data stream is obtained.The application can reduce the complexity of quality score data stream by sparse preprocessing, thereby reducing the compression rate of FASTQ file.

The invention relates to the technical field of biology, in particular to a Zymomonas mobilis terminator library as well as a construction method and application thereof. Through terminator prediction, primer design, sequencing analysis and efficiency calculation, the stable and efficient Zymomonas mobilis terminator library with high robustness is obtained through screening. The terminator sequence in the library is low in repeatability and high in matching degree with a known transcription termination site. The library constructed by the invention can effectively avoid plasmid recombination, can be directly used for optimizing expression of key enzymes in a metabolic pathway, improves metabolic flux by enhancing mRNA stability, and provides an efficient tool for metabolic engineering modification of Zymomonas mobilis.

The invention relates to the field of virus dilution multiple statistical analysis, in particular to an animal epidemic disease virus dilution multiple statistical analysis method which comprises the following steps: receiving parameters input by a user, calculating a virus dilution multiple through a preset calculation formula, and outputting the virus dilution multiple; in combination with mathematical modeling and a programming technology, the method has the advantages of accuracy, rapidness, storage, statistics, query, analysis and the like, the conditions of experiment failure, experiment repetition, experiment expenditure increase and subject (project) delay due to incomplete experiment progress caused by inaccurate calculation of the virus dosage are avoided, and the method is convenient, accurate and efficient; the method has the advantages that the method is simple and convenient to operate, has the functions of data reference and comparison and analysis of multiple groups of data, can accurately, quickly and indiscriminately give the dilution multiple of the virus needing to be used, can store the calculation result, and can be used only by query without repeated calculation for the same experiment result under the same condition in the future.

This invention discloses a Dickeya solani This invention relates to specific targets for bacteria, their development methods, and applications. The specific targets possess DNA sequences as shown in SEQ ID No. 1. Based on comparative genomics, this invention utilizes the PGCGAP platform to call annotation and pan-genomics modules to mine specific target sites, overcoming [various challenges]. Dickeya The limitation that 16S and other common sequences of similar species are difficult to distinguish, establish D.solani This highly specific detection method can detect samples with a minimum copy count of 100, improving amplification efficiency and achieving higher detection rates, thus meeting the requirements for detecting low-copy templates. Furthermore, because the detection system utilizes the specificity of gene-editing probes, it exhibits high specificity.

The invention relates to the technical field of microbiological detection, and particularly discloses a bacterial colony number inversion method based on dynamic conductance response and organic carbon consumption characteristics, which comprises the following steps: acquiring dynamic conductance response data and organic carbon consumption data of a bacterial colony growth process in a sample to be detected, and synchronously acquiring environmental parameters of the sample to be detected; acquiring bacterial colony metabolism conductance parameters according to the dynamic conductance response data; acquiring a carbon base difference value and an organic carbon consumption rate according to the organic carbon concentration data, and acquiring an organic carbon characteristic parameter set according to the carbon base difference value and the organic carbon consumption rate; and establishing an optimization coefficient matrix according to the environmental parameters and the organic carbon characteristic parameter set. According to the method, the dynamic conductance response data and the organic carbon consumption characteristics are synchronously obtained, the optimization coefficient matrix is established in combination with the environmental parameters for real-time correction, environmental interference is effectively eliminated, and mixed strain recognition is achieved.

A method and apparatus for controlling chip loading, a sequencing system, and a storage medium. When a current chip needs to be loaded, it is detected that another chip is executing a project, then if another chip is in an interference state and there is an unreached interruptible node, the execution situation of the project process of another chip is monitored; when the loading of the current chip has not been ended, it is detected that another chip has reached the interruptible node, and then another chip is caused to enter a safe mode until the loading of the current chip is ended; and the current chip executes a requested project, and another chip continues executing the interrupted project. Thus, another chip that is executing a project is caused to enter a safe mode at an appropriate time, other chips can be loaded flexibly, and multiple chips are loaded at different times and operate together, thereby improving the operation efficiency and industrial practicability of a detection system.

The application discloses a kind of family audio-video imprint automatic aggregation and personal biography film generation method and system based on genealogy figure. First, structured family knowledge base including family member node, blood relationship edge and associated multimedia data is constructed. In response to biography generation request, start multi-modal figure imprint aggregation: fusion face recognition and blood relationship auxiliary matching, automatically identify and extract all image fragments of target figure appearance from audio-video library, form cross-modal material set. Further, blood narrative guided intelligent editing is carried out: based on age estimation, material time sequence segmentation is carried out, narrative structure is automatically generated in combination with blood event node, and material enhancement technology is used to output into film. The system automatically generates the "family imprint" column in personal data card, and aggregates and displays related audio-video materials. Through integrated path, scattered family memories are gathered into personal image biography, which greatly reduces the production threshold, realizes the automatic aggregation and generation of family memories.

This invention provides methods and systems for accurate and efficient protein identification and quantification. [Solution] A method for repeatedly identifying candidate proteins in a sample of an unknown protein is disclosed, comprising the steps of: receiving information on binding measurements for each of a plurality of affinity reagent probes for the unknown protein, wherein each affinity reagent probe is configured to selectively bind to one or more candidate proteins; comparing at least a portion of the binding measurement information with a database containing a plurality of protein sequences, wherein each protein sequence corresponds to one candidate protein; and repeatedly generating the probability that each of the one or more candidate proteins is present in the sample, based on the comparison of the binding measurement information of the candidate proteins with a database containing a plurality of protein sequences.

Various devices, systems, structures and methods are disclosed related to securely authorizing a transaction by synchronizing digital genomic data with associated synthetic genomic variants. An embodiment of the present invention utilizes digital genomic data associated with an entity, such as a person, who may utilize a genome-based security device to complete a transaction. In one embodiment, a person may use a genome-based security device to communicate with an external device over a wireless or other communication interface, synchronize digital genomic data and an associated synthetic variant received from the external device with digital genomic data and associated synthetic variant stored on the genome-based security device.

The present disclosure relates to the development of a synthetic peptide library. This synthetic peptide library comprises at least about 1×10^3, 1×10^4, 1×10^5, 1×10^6, or 1×10^7 peptide sequences derived from a single reference sequence, wherein a subset of the derived peptide sequences comprises peptide sequences comprising a functional pharmacokinetic parameter (FPKP) delectably improved relative to the single reference sequence.

The invention relates to the technical field of livestock breeding and feed nutrition, and discloses a low-protein diversified daily ration design method and system based on multi-source data fusion, and the method comprises the steps: constructing a formula-environment-effect directed causal diagram through a PC algorithm, estimating the effect deviation contribution proportion of an environment factor and a formula factor through anti-factual reasoning, and calculating the effect deviation contribution proportion of the environment factor and the formula factor; and inferring the target weight preference of the farm by using inverse reinforcement learning, and carrying out conditional weight updating according to a causal attribution result. Real reasons of growth effect deviation can be distinguished, effect deviation errors caused by environmental factors are prevented from being attributed to improper formula setting, and the accuracy and stability of formula recommendation are improved.

This application discloses a method, apparatus, system, and medium for establishing a biological enzyme database, applicable to the field of biological technology. The method collects biological enzyme data from various existing databases and imports it into a biological enzyme database; the biological enzyme data includes unlabeled and labeled data. Missing enzyme structure and characteristic data are screened from the biological enzyme database, and then enzyme structure and characteristic data are obtained to complete the database; finally, characteristic data of enzyme fermentation and production are obtained and imported into the biological enzyme database, resulting in a complete biological enzyme database. This application provides a method for establishing a biological enzyme database, which includes collected biological enzyme data and supplements it with enzyme structure, characteristic, and characteristic data of enzyme fermentation and production, ultimately resulting in a complete biological enzyme database, thereby ensuring that those skilled in the art can efficiently obtain the required biological enzyme information.

The present application relates to a kind of metabolic pathway extension network based on structural feature automatical establishment method, belong to bioinformatics and computational chemistry technical field.The purpose is to solve the problem of existing KEGG database incomplete, annotation lag of metabolite.Method includes: obtaining KEGG skeleton and modified group construction seed library;Through substructure matching and set difference calculation to determine the attribution of derivative;Iterative expansion forms structure association set;Combining stereochemistry rule and mass difference verification screening derivative;Merging KEGG reaction and extended relationship constructs network, and remove redundant path by graph theory method, finally output extended pathway network.The method greatly improves the annotation rate of metabolite pathway, supports in-depth functional analysis of metabolomics data.