33 results about "Proteome profiling" patented technology

The invention relates to the technical field of medicines, and particularly discloses a screening target of an antibacterial drug, application and a screening method, and the screening method comprises the following steps: testing the interaction between a candidate drug and the target; functional verification of the target protein; testing the antibacterial activity of the candidate drugs; and carrying out an in-vitro antibacterial curve test, evaluating the sterilization or antibacterial effect of the candidate drug on different bacteria, and comparing the change of bacterial gene expression before and after the treatment of the candidate drug through omics analysis (transcriptome and proteome analysis). A new direction is provided for research and development of antibacterial drugs by discovering a new antibacterial target, such as Spx and SodA, of the ISP I except for acting on bacterial ribosomes, a new drug without cross resistance with traditional antibiotics can be developed according to the drug design of the new target, the antibacterial effect is improved, the new antibacterial target of the ISP I in the colimycin and the action mechanism of the new antibacterial target are disclosed, and the application of the ISP I in the colimycin in preparation of the antibacterial drugs is promoted. And a new thought and a new method are provided for research and development of antibacterial drugs.

The invention discloses a protein marker for detecting or evaluating human neural stem cell paracrine and application thereof, the protein marker is a combination of SERPINE2, NCAN, VCAN, PTN, NRP2, PTPRF, C1QL1 and LDLR.The screening method comprises the steps that total protein in a human neural stem cell sample is extracted for proteome analysis and reference genome transcriptome analysis; and carrying out data processing and comparison screening to obtain common protein with high protein abundance expression and a forward regulation function, and carrying out ELISA (enzyme-linked immunosorbent assay). The human neural stem cell paracrine is detected or evaluated by detecting the expression level of the protein marker, and the application value is high.

The application relates to a method for constructing a target proteome spectrum library and application in micro target proteome analysis, and the method comprises the following steps: performing multiple times of mass spectrum scanning on a target proteome in a data-dependent acquisition mode without dynamic exclusion through different scanning ranges, so as to obtain mass spectrum data of the target proteome, wherein the mass spectrum data of the target proteome comprises primary spectra of multiple scanning ranges of the target proteome and secondary spectra of parent ions in each scanning range, which meet a preset threshold; and performing library searching based on the mass spectrum data of the target proteome to construct the target proteome spectrum library. The application constructs a spectrum library through mass spectrum data in a data-dependent acquisition mode without dynamic exclusion in multiple scanning ranges, performs library searching analysis on DIA data of a micro proteome, improves the success rate of DIA data matching, and further improves the accuracy and sensitivity of DIA data analysis, and improves the accuracy and sensitivity of micro protein identification.

A biomarker diagnostic system includes a sensor to collect a sweat sample from a biological subject; a processor operatively connected to the sensor, wherein the processor is configured to perform metabolic and proteomic profiling of biomarkers in the sweat sample. The metabolic and proteomic profile is compared to a predetermined profile of the biomarkers and to determine a physiological status of the biomarkers. The system further includes a feedback unit operatively coupled to the sensor and the processor and configured to output physiological performance data based on the physiological status.

The present invention provides a method which is for preparing a sample for proteome analysis and by which trace proteins in a biological sample can be efficiently recovered while removing as many highly abundant proteins, hindering more in-depth analysis, as possible in proteome analysis. This method for preparing a sample for proteome analysis involves: bringing a biological sample into contact with a carrier in which any lectin selected from the group consisting of N-acetylglucosamine oligomer-binding lectin and fucose-binding lectin, or a binding fragment thereof is immobilized; and thereby recovering a glycoprotein having binding properties to the lectin in the biological sample. In one aspect, a biological sample is brought into contact with a carrier in which a combination containing potato lectin or a binding fragment thereof and tomato lectin or a binding fragment thereof is immobilized.

The present invention provides a method of making parallel RNA and protein-detection sequence libraries, the method comprising the steps: a. providing a plurality of fixed, permeabilized single-cells; b. blocking the fixed, permeabilized cells; c. staining the plurality of blocked cells with oligonucleotide-conjugated binding moieties; and d. performing one or more rounds of split-pool barcoding on the blocked, stained cells to provide mature oligonucleotide sequence

A method of preparing a liquid protein sample for proteome analysis comprising: pumping a liquid protein sample into a heated tubing, wherein the liquid protein sample comprises a plurality of portion

A method of preparing a liquid protein sample for proteomic analysis provides a method of preparing a liquid protein sample for proteomic analysis. The method comprises: pumping a liquid protein sample into a heating tube, wherein the liquid protein sample comprises a plurality of portions; incubating the liquid protein sample in the heating tube, wherein incubation conditions of a first portion of the sample are different from incubation conditions of a second portion of the sample; and pumping the liquid protein sample out of the heating tube.

The present invention discloses a method for studying the drug resistance of non-small cell lung cancer to pemetrexed. The method realizes the study of the drug resistance of non-small cell lung cancer to pemetrexed by studying the differentially expressed proteins in the non-small cell lung cancer pemetrexed A549 / PEM drug-resistant cell line. The specific operation steps include: S1: construction and identification of the non-small cell lung cancer pemetrexed A549 / PEM drug-resistant cell line; S2: iTRAQ analysis of the proteome of the A549 / PEM drug-resistant cell line; S3: quantitative analysis of the protein of the A549 / PEM drug-resistant cell line; S4: comparative analysis of the results in step S2 and step S3, and verification of the differential expression of the protein in the A549 / PEM drug-resistant cell line. S5: analysis of the verified differential proteins in step S4, and screening out two differential proteins for drug sensitivity study. In the present invention, the study of differentially expressed proteins provides a basis for the subsequent screening of genes that affect the drug resistance of A549 / PEM cells, and provides a theoretical basis for the clinical treatment of PEM-resistant NSCLC patients.

Methods for target, biomarker, and patient selection discovery in central nervous system disorders utilizing patient-derived cellular models, spatial proteomics, and machine learning. The method generates neural cells from forebrain regions from induced pluripotent stem cells, performs cell-type specific proteome profiling using antibody-enzyme conjugates and spatial proteome profiling, and applies statistical data augmentation to sparse biological datasets. Machine learning classifiers with SHAP-based feature importance identify ranked biomarkers from mass spectrometry data. The platform enables patient stratification by linking molecular signatures to symptom severity, drug screening through biomarker modulation, and diagnostic applications. Kits comprising antibodies for biomarkers including antibodies for biomarkers identified by the method facilitate implementation. Applications include autism spectrum disorder, rare neurodevelopmental disorders, schizophrenia, epilepsy, Alzheimer's disease, and Parkinson's disease.

The present invention provides methods and systems using gas-phase separation with mass spectrometry analysis instead of liquid chromatography, thereby enabling faster peptide, proteome, and multi-omic analysis. Also provided are improved methods and software for data independent acquisition. One embodiment referred to as Direct Infusion-Shotgun Proteome Analysis (DI-SPA) used with data-independent acquisition mass spectrometry (DIA-MS), resulted in targeted quantification of over 500 proteins within minutes of MS data collection (˜3.5 proteins / second). Enabling fast, unbiased protein and proteome quantification without liquid chromatography, DI-SPA offers a new approach to boosting throughput critical to drug and biomarker discovery studies that require analysis of thousands of proteomes. This invention is also able to perform complex multi-omic analysis of proteomes, lipidomes, and metabolomes on a single platform.

The invention relates to the technical field of disease prevention and control in aquaculture, in particular to a fishery broad-spectrum vibrio oral vaccine based on reverse vaccinology as well as a preparation method and application of the fishery broad-spectrum vibrio oral vaccine. Specifically, on the basis of a reverse vaccinology technology, generic proteome analysis is carried out on common pathogenic vibrios in fish culture, and protein with homology is screened. Through comprehensive analysis of key factors such as subcellular localization, antigenicity, immunogenicity and adhesion, candidate antigens with high potential are further screened out. On the basis, an immunoinformatics method is utilized to carry out epitope prediction analysis on candidate antigens, peptide fragments rich in high-density epitopes are screened out, and the multi-epitope recombinant antigen oral vaccine taking bacillus subtilis as a carrier is constructed according to the peptide fragments. The oral delivery efficiency is enhanced by adopting an alginate microencapsulation process, and feeding of sebastes schlegeli shows that the vaccine has an excellent immune effect, can be used for anti-vibrio drugs, and has a good practical application value.

The invention discloses a protein marker for detecting or evaluating human neural stem cell paracrine and application thereof, the protein marker is a combination of SERPINE2, NCAN, VCAN, PTN, NRP2, PTPRF, C1QL1 and LDLR.The screening method comprises the steps that total protein in a human neural stem cell sample is extracted for proteome analysis and reference genome transcriptome analysis; and carrying out data processing and comparison screening to obtain common protein with high protein abundance expression and a forward regulation function, and carrying out ELISA (enzyme-linked immunosorbent assay). The human neural stem cell paracrine is detected or evaluated by detecting the expression level of the protein marker, and the application value is high.

The invention relates to the technical field of biology, in particular to application of a glyoxal-based compound in preparation of a probe. According to the invention, the glyoxal-based arginine specific probe is developed, and the reaction activity of arginine in proteome is globally analyzed by utilizing a proteomics analysis method; a fragmented electrophilic small molecule library with a glyoxal structure is constructed, and a new inhibitor is found for protein which cannot be prepared into a medicine through competitive proteomics; and finally, in combination with protein structure calculation and proteome analysis, key ligand arginine for mediating interaction between proteins is found, and the process is disturbed by using inhibitor molecules.

Microfluidic methods for barcoding nucleic acid target molecules to be analyzed, e.g., via nucleic acid sequencing techniques, are provided. Also provided are microfluidic, droplet-based methods of preparing nucleic acid barcodes for use in various barcoding applications. The methods described herein facilitate high-throughput sequencing of nucleic acid target molecules as well as single cell and single virus genomic, transcriptomic, and / or proteomic analysis / profiling. Systems and devices for practicing the subject methods are also provided.

The present application relates to the technical field of Congo red derivative photocatalytic probe application, and particularly relates to a Congo red derivative photocatalytic probe, a preparation method and a use method thereof, comprising a compound I, the compound I is selected from at least one of the Congo red derivative photocatalytic probes, and the Congo red derivative photocatalytic probe comprises two arene, the arene represents an aromatic heterocycle, and the aromatic heterocycle is selected from one of a benzene ring, furan, thiophene and a naphthalene ring. The Congo red derivative photocatalytic probe provided by the present application can specifically label amyloid plaques in AD brain tissue slices, the binding affinity is significantly improved (Kd of Aβ 1‑40 The Congo red derivative photocatalytic probe can reveal the molecular heterogeneity of amyloid deposition and the key regulatory role of the mitochondrial autophagy-lysosome axis, provide a new tool for AD pathological mechanism research, support proteomic analysis and pathological mechanism analysis across brain regions (hippocampus / cortex), and protect the molecular structure and application in the research of neurodegenerative diseases.

Top-down proteomics analysis of limited biological samples as small as a single cell is provided using ultralow flow liquid chromatography with novel porous layer open tubular (PLOT) columns combined with mass spectrometry. The PLOT columns are fabricated such that the porous polymer stationary phase has uniform thickness and improved durability, run- to-run and column-to-column reproducibility, and resists clogging. As a result, the new PLOT columns are especially well-suited for all modes of proteomics analysis.

The invention discloses a lipid droplet targeted photosensitive fluorescent molecule as well as a preparation method and application thereof. The fluorescent molecule has a structure as shown in a formula I, wherein R is selected from at least one of a formula a, a formula b, a formula c, a formula d, a formula e and a formula f; according to the application, the lipid droplet targeting and photosensitivity of fluorescent molecules are utilized to realize proximity labeling of proteins around lipid droplets in cells, and regulatory factors of interaction of the lipid droplets and mitochondria are disclosed through proteome analysis. The probe realizes proximity markers which do not depend on genetic manipulation in the field.

Microfluidic devices and methods are provided for single-cell analysis, isolation, and preparation for immunotherapy. The technology allows functional phenotyping by observing cell-cell interactions and then cells with desirable features or probing the underlying biology. A droplet-based microfluidic device is capable of trapping droplets and releasing them selectively using microvalves. Each droplet can encapsulate effector cells, such as natural killer cells (NK cells) and target cells, such as tumor cells, for real-time monitoring of burst kinetics and spatial coordination during killing of tumor cells by individual NK cells. The technology also allows for interrogating interactions and real-time monitoring of kinetics and then recovering live cells on demand for single-cell genomic or proteomic analysis.

The invention relates to the technical field of application of Congo red derivative photocatalytic probes, in particular to a Congo red derivative photocatalytic probe as well as a preparation method and a use method thereof.The Congo red derivative photocatalytic probe comprises a compound I, the compound I is selected from at least one of the Congo red derivative photocatalytic probes, and the Congo red derivative photocatalytic probe comprises two arenes, arene represents a heteroaromatic ring, and the heteroaromatic ring is selected from one of a benzene ring, furan, thiophene and a naphthalene ring. The Congo red derivative photocatalytic probe provided by the invention can specifically mark amyloid plaques in AD brain tissue slices, the binding affinity is remarkably improved (Kd of Abeta1-40 is equal to 0.07 mu m), the molecular heterogeneity of amyloid deposition and the key regulation and control effect of mitochondrial autophagy-lysosomal axis are disclosed, a new tool is provided for AD pathological mechanism research, and the Congo red derivative photocatalytic probe has a wide application prospect. And cross-brain region (hippocampus / cortex) proteome analysis and pathological mechanism analysis are supported, and the molecular structure and application in neurodegenerative disease research are simulated to be protected.

Disclosed is an analytical platform for profiling and functional analysis of proteomes, which can unveil new biological insights potentially useful for instigating novel therapeutic interventions. The disclosed analytical platform for proteome profiling is constructed by integrating plasmonic biosensor microarrays with tandem-ion mobility spectrometry. The disclosed analytical platform can separate, identify, and characterize highly similar proteoforms as well as low abundance proteoforms from plasma or other samples.

Methods for target, biomarker, and patient selection discovery in central nervous system disorders utilizing patient-derived cellular models, spatial proteomics, and machine learning. The method generates neural cells from forebrain regions from induced pluripotent stem cells, performs cell-type specific proteome profiling using antibody-enzyme conjugates and spatial proteome profiling, and applies statistical data augmentation to sparse biological datasets. Machine learning classifiers with SHAP-based feature importance identify ranked biomarkers from mass spectrometry data. The platform enables patient stratification by linking molecular signatures to symptom severity, drug screening through biomarker modulation, and diagnostic applications. Kits comprising antibodies for biomarkers including antibodies for biomarkers identified by the method facilitate implementation. Applications include autism spectrum disorder, rare neurodevelopmental disorders, schizophrenia, epilepsy, Alzheimer's disease, and Parkinson's disease.

The invention discloses a protein marker for detecting or evaluating human neural stem cell paracrine and application of the protein marker, the protein marker is a combination of LAMB2, MMP2, RNT4 and NPY, and total protein in a human neural stem cell sample is extracted for proteome analysis and reference genome transcriptome analysis; through data processing, comparison and screening, the common protein with the abundance expression in the front and the forward regulation function is obtained, and the protein is detected through ELISA (Enzyme-Linked Immunosorbent Assay). Detection of the expression level of the protein marker is used for detecting or evaluating human neural stem cell paracrine, and the application value is high.

Disclosed is an analytical platform for profiling and functional analysis of proteomes, which can unveil new biological insights potentially useful for instigating novel therapeutic interventions. The disclosed analytical platform for proteome profiling is constructed by integrating plasmonic biosensor microarrays with tandem-ion mobility spectrometry. The disclosed analytical platform can separate, identify, and characterize highly similar proteoforms as well as low abundance proteoforms from plasma or other samples.

The present invention provides methods and systems using gas-phase separation with mass spectrometry analysis instead of liquid chromatography, thereby enabling faster peptide, proteome, and multi-omic analysis. Also provided are improved methods and software for data independent acquisition. One embodiment referred to as Direct Infusion—Shotgun Proteome Analysis (DI-SPA) used with data-independent acquisition mass spectrometry (DIA-MS), resulted in targeted quantification of over 500 proteins within minutes of MS data collection (˜3.5 proteins / second). Enabling fast, unbiased protein and proteome quantification without liquid chromatography, DI-SPA offers a new approach to boosting throughput critical to drug and biomarker discovery studies that require analysis of thousands of proteomes. This invention is also able to perform complex multi-omic analysis of proteomes, lipidomes, and metabolomes on a single platform.

The invention provides a method and a system for microenvironment cell heterogeneity analysis of animal tissues. The method comprises the following steps: obtaining a slice of animal tissue; carrying out multiple fluorescence immunohistochemical staining on the section, and carrying out quantitative image analysis to obtain a cell contour; based on the cell profile, using an automatic laser microdissection technology to obtain a first cell sample including a plurality of cell types on the tissue slice; performing flow cytometry sorting on the single-cell suspension of the animal tissues to obtain a second cell sample which comprises various cell types in a single tumor block; respectively carrying out micro proteome analysis on the first cell sample and the second cell sample to obtain proteome information of the first cell sample and the second cell sample; and determining spatial distribution information of different cell types in the animal tissue microenvironment by using the first cell sample proteome information and the second cell sample proteome information. According to the method, the space and cell type resolution for analyzing the cell heterogeneity of the animal tissue microenvironment is improved.

The present invention discloses a protein marker for detecting or evaluating paracrine secretion of human neural stem cells, a screening method and application thereof, wherein the protein marker is selected from NCAN, LAMB2, MMP2, SFRP1, RTN4, B4GAT1, NPY, VCAN, GPC2, CHL1, SERPINE2, PTPRF, PTN, LDLR, NRP2, NLGN3, CNTN2, C1QL1, NLGN4X, VLDLR, etc. The screening method comprises: extracting total protein from human neural stem cell samples for proteomic analysis and transcriptomic analysis with reference genomes, obtaining proteins with a common protein abundance expression at the front and a positive regulatory function through data processing and comparative screening, and detecting by ELISA enzyme-linked immunosorbent assay. The expression level of the protein marker is detected for detecting or evaluating paracrine secretion of human neural stem cells, and the application value is great.

The invention relates to a method for proteomic analysis and a substrate prepared for the method. The substrate is prepared with immobilized antibodies using the electrospray deposition method, where a planar conductive plate is used as the substrate, onto which ions of immunoglobulin-binding protein are deposited by electrospray, then at least one antibody with affinity for the target antigen is dispensed onto the substrate with immobilized immunoglobulin-binding protein, which is anchored via a non-covalent affinity interaction with the immobilized immunoglobulin-binding protein. Subsequently, a sample containing the antigen is dispensed onto the substrate with the immobilized immunoglobulin-binding protein and bound antibody, and the prepared substrate is incubated. After incubation of the substrate, sample residues are removed, an analyte with an antigen is chemically reduced or eluted from the substrate and cleaved with trypsin, an analyte with an antigen is desalted, and the sample is analysed using a proteomic method.

The invention provides a method for multi-omics exploration of a regulation mechanism of duckweed protein content under environmental stress, and belongs to the technical field of protein regulation, target duckweed is firstly pretreated, and then corresponding environmental stress treatment is performed on the target duckweed after pretreatment, and the method is characterized in that crude protein content is measured on the target duckweed after the environmental stress treatment, and the content of protein in the target duckweed is measured; the method comprises the following steps: selecting a treatment group and a control group with significant phenotype difference according to a crude protein content determination result, carrying out transcriptome sequencing and proteome analysis, carrying out bioinformatics analysis on data of transcriptome sequencing and proteome analysis, and obtaining a regulation mechanism; the method can comprehensively, deeply and accurately reveal the internal molecular regulation mechanism of the duckweed responding to environmental stress and accumulating protein, so that a more accurate and suitable culture strategy can be obtained according to the regulation mechanism, and the protein content of the duckweed can be greatly increased.

The invention belongs to the technical field of polypeptides and polypeptide detection, and particularly relates to a screening method for quantitative polypeptides. The screening method comprises the following steps: performing pretreatment such as protein extraction, enzymolysis and purification on a to-be-detected sample, performing data acquisition by adopting a high-resolution mass spectrum, performing quantitative proteome analysis, performing multivariate statistical analysis on the analyzed data, and determining the content of the protein in the to-be-detected sample. Performing further Blast species specificity analysis and PRM data acquisition on a layer clustering analysis result in multivariate statistical analysis, and screening a series of polypeptides of which the polypeptide response values are positively correlated with the concentration of the sample to be detected so as to obtain quantitative polypeptides. Compared with an existing screening method for quantitative polypeptide in research, the screening method is higher in screening efficiency, simpler, more convenient and easier to operate.