174 results about "Geneologies" patented technology

The invention provides a cell development process dynamic modeling method and device based on time sequence single cell transcriptome data and a medium, and relates to the crossing field of bioinformatics and computational biology. The method comprises the following steps: constructing a Shenchang differential equation learning framework; adjusting parameters of the single cell development state change model based on the Shenxuan differential equation learning framework so as to construct a population cell development state change model; obtaining a cell specific gene regulation network and a population cell gene regulation network based on the population cell development state change model so as to predict occurrence opportunity of cell lineage differentiation and a molecular decision mechanism of cell differentiation; therefore, the problems of incomplete modeling mechanism, insufficient noise processing and lack of energy principle in the existing cell development process are solved.

The invention discloses a D / Yama2019 genetic evolution pedigree influenza delta virus reverse genetic operating system. According to the invention, DNA fragments corresponding to segments of PB2, PB1, P3, HEF, NP, M and NS of a full-length genome of D / JY3002 are amplified by using seven pairs of designed primers, the DNA fragments are seamlessly cloned to a pHW2000 vector and a pCC1-DualPro vector to construct plasmids, the plasmids are co-transfected to a cell line, and the artificially rescued D / Yama2019 genetic evolution pedigree influenza delta virus rD / JY3002 is obtained; the genomic sequence of the rD / JY3002 is completely consistent with the genomic sequence of a naturally separated strain D / JY3002, the infection ability is equivalent, and the rD / JY3002 can be stably subcultured for at least five generations. According to the present invention, the constructed unidirectional expression plasmid pPolI-D / JY3002-PB1-240-GFP-240 is adopted to obtain the artificially rescued recombinant influenza delta virus rD / JY3002-GFP carrying the green fluorescence reporter gene, and after the host cell is infected, the GFP expression quantity is high and stable; the invention establishes an efficient and stable D / Yama2019 genetic evolution pedigree influenza delta virus reverse genetic operating system which can be used for developing an influenza delta virus vector presenting exogenous gene.

Aspects of the disclosure relate to methods and compositions for diagnosing and / or treating subjects having one or more symptoms of Autism Spectrum Disorder (ASD) or subjects at risk of developing ASD. In some embodiments, methods comprise determining and / or modulating levels of chorismate and / or a molecule within a chorismate metabolic pathway in a subject. In some embodiments, methods comprise determining and / or modulating levels of a microbial feature (e.g., a Sarcina bacterium) in a subject. In some embodiments, methods comprise determining and / or modulating levels of proton flux in a gastrointestinal tract in a subject.

The invention belongs to the technical field of biomedicine, and relates to a method for constructing a mouse embryo-derived hypothalamic organ model and application, the invention proposes that a mouse embryo is used for constructing a hypothalamic organ for the first time, and the mouse embryo has a definite development time sequence and genetic operability; the naturally retained vascular endothelial cells and multilineage precursor cells provide unique advantages for constructing a three-dimensional organ containing multiple nucleuses such as a preoptic region, a paraventricular nucleus, an arcuate nucleus and a supraoptic nucleus, and the model not only breaks through the nucleus coverage limitation of the existing iPSCs organ, but also can be used for constructing the three-dimensional organ containing multiple nucleuses such as the preoptic region, the paraventricular nucleus, the arcuate nucleus, the supraoptic nucleus and the like by reconstructing a nerve-blood vessel unit. High-fidelity simulation of complex physiological functions of the hypothalamus is realized, and an irreplaceable technical platform is provided for mechanism analysis of neuroendocrine diseases and high-throughput screening of drugs.

The invention relates to a method for inducing mouse trophoblast stem cells in vitro. According to the method, mouse embryonic stem cells are used as starting cells, Sorcs3 gene knockout mouse embryonic stem cells are obtained through a gene editing technology, and in-vitro induced trophoblast stem cells (iTSCs) are efficiently and rapidly obtained by means of a flow cytometry sorting technology and in combination with specific antibody sorting. According to the invention, the Sorcs3 gene is knocked out from the embryonic stem cell, so that the capability of the embryonic stem cell to differentiate to the trophoblast lineage can be obviously enhanced; an important research platform is provided for deeply researching a lineage intertransformation mechanism of cell masses (ICM) and trophoblast (TE) in the blastocysts, and the method has important significance for researching lineage limitation of early embryonic development of mammals and the like.

T cell responses are exquisitely antigen-specific and directed against peptide epitopes displayed by human leukocyte antigen (HLA) on the surface of presenting cells. In particular, class II HLA (HLA-II) is remarkably polymorphic, which allows for presentation of diverse peptide antigens to T cells, but also forms the basis for genetic associations with diverse immunopathologies across the spectrum of infectious disease and autoimmunity. Here, Applicants employ monoallelic immunopeptidomics to retrieve over 200,000 unique peptides presented by 41 HLA-II heterodimers covering major alleles across diverse ancestries. Applicants leveraged this expansive dataset to develop computational models that predict peptide antigens based on HLA-II binding properties and infer informative features of the protein antigens from which these peptides derive. Combining both peptide and (contextual) protein features, Applicants develop Context Aware Predictor of T cell Antigens (CAPTAn) to discover novel T cell epitopes from prokaryotes in the human microbiome and the viral pandemic pathogen SARS-COV-2.

The present invention relates to a method for assessing an autism spectrum disorder (ASD) in a sample from a subject, the method comprising (a) determining a parameter of alternative polyadenylation (APA parameter) in said sample; (b) comparing the APA parameter determined in step (a) to a reference, and (c) based on the comparison in step (b), assessing said ASD. The present invention also relates to polynucleotides, means for determining an APA parameter for use in diagnosis, databases, devices, and further methods related thereto.

The invention provides a non-lineage animal pairing evaluation method based on genome data, and belongs to the technical field of bioinformatics and protection genetics, the method comprises the following steps: firstly, obtaining whole genome sequencing data of all individuals in a population, and carrying out quality control to obtain a high-quality SNP site set; aiming at all possible male and female pairing combinations in the population, calculating an inter-parent genetic coefficient depKin, an inter-parent heterozygous difference ratio HDR and an inter-parent potential risk load index GRLI, and predicting a fixed proportion Proh of ROH of offspring; performing z-score standardization processing on the four genetic indexes: performing principal component analysis on standardized data, extracting the first two principal components PC1 and PC2, determining a weight according to a variance contribution rate, and calculating a pairing comprehensive score; and generating a pairing candidate recommendation list for each individual according to the comprehensive score, and screening a high-quality pairing scheme. The method disclosed by the invention can be completely independent of pedigree records, and genetic evaluation is directly carried out based on genome data.

The invention relates to a code cloning risk assessment method and device, equipment and a medium. The method comprises the following steps: acquiring project information and clone pedigree data, extracting risk clone characteristics from the project information, constructing a clone risk assessment framework, and performing assessment by adopting the clone risk assessment framework according to the project information and the clone pedigree data to obtain a clone risk level corresponding to each code clone pair; and according to the clone risk level and the risk clone characteristics, training a pre-constructed XGBoost model, so that the XGBoost model can evaluate the code clone risk level. By adopting the method, code cloning risk prediction can be realized without depending on historical information.

Provided are a reagent combination or a kit for constructing an embryoid and the use thereof. The reagent combination or the kit can be used for inducing a stem cell to produce a blastocyst-like lineage precursor cell, a blastocyst-like cell and / or an embryoid, which are based on small-molecule induction and independent of transgenes, and have a single cell source. The produced blastocyst-like lineage precursor cell and blastocyst-like cell have a full blastocyst lineage, and are seed cells having balanced developmental competence and totipotency, which solves the problem of unbalanced cell maturation in the prior art. The produced embryoid is highly similar to natural embryos in terms of morphological characteristics and transcriptomic characteristics, has the capability of highly reproducing post-implantation embryonic development and / or gastrulation, which is beneficial for research on embryonic development in vitro. The method for inducing the stem cell to produce the blastocyst-like lineage precursor cell, the blastocyst-like cell and / or the embryoid by using the reagent combination or the kit is simple, and has high applicability and high embryoid construction efficiency.

The present disclosure provides a lineage tracking method comprising obtaining cells and sister cells thereof at different stages of differentiation, dividing the cells and sister cells thereof into at least two parts, one part for genetic analysis, the other part continuing to differentiate and performing genetic analysis, and performing cross-stage lineage analysis. The present disclosure also provides uses of the methods.

Provided herein are systems of modulating gene expression, methods of use thereof, and cells engineered thereof for the purpose of differentiating cells, for example beta cells.

Provides herein is a method for identifying the specific cell lineage of cells in culture comprising the steps of determining from the nucleic acid molecules isolated from said recombinant cells in culture the presence of polymorphisms or SNPs at at least 5 different positions within at least five genes contained in said nucleic acid molecules, obtaining a genetic profile from the determination of the previous step, and identifying the cell lineage of said cells in culture from said genetic profile, and wherein the recombinant cells produce a recombinant protein.

Disclosed herein is a custom platform called NSC-seq that can be used for cell lineage and cell division tracking in a temporal fashion but also with single-cell resolution. With simultaneous integration of single-cell transcriptomics with lineage barcoding and temporal recording information, NSC-seq facilitates the generation of multidimensional datasets for elucidating functional heterogeneity and clonal events in vivo. We apply this platform (i) to decipher lineage branching of mouse embryonic development, (ii) to record clonal dynamics of the adult intestinal epithelium, and (iii) to track clonal composition of the mouse intestinal tumors. In addition, we apply NSC-seq to assess a comprehensive gene expression phenotype for individual gene knockout at the single-cell level using existing whole-genome CRISPR knockout screening plasmid libraries. Overall, NSC-seq enables in vivo temporal recording of mammalian development and cancer at single-cell resolution.

An in vitro approach for detecting Enterovirus-D68 (EV-D68) is disclosed. In one aspect, two or more EV-D68 genomic regions are amplified with primers that each include a 5' universal tail and an EV-D68-specific sequence (SEQ ID NOs: 47-92). The tails enable indexing and sequencing of tiled amplicons to confirm EV-D68 presence and permit lineage or subclade assignment. In another aspect, a type-specific RT-qPCR assay employs a forward primer (SEQ ID NO: 95), a reverse primer (SEQ ID NO: 96), and a fluorescent probe (SEQ ID NO:97) for rapid detection. Primer sets and kits comprising the primers, probe, and optional reagents are provided for environmental, clinical, or research testing performed outside the body, including wastewater-based surveillance. The universal tails are selected to avoid sequence overlap with any target amplicon. The methods, uses, and kits support sensitive EV-D68 detection across circulating variants and facilitate scalable sequencing and public-health monitoring.

A DNA construct containing an erythroid lineage-specific promoter operably linked to a nucleotide coding sequence of interest and a method of using the same in the prevention or treatment a hematopoietic disorder such as a hemoglobinopathy are described.

This invention belongs to the medical field and provides a human trophoblastic stem cell line derived from complete hydatidiform mole and its applications. The human trophoblastic stem cell line, with accession number CGMCC No. C2024411, can be induced to differentiate into syncytiotrophoblast and extravillous trophoblast, mimicking the differentiation and developmental defects of the trophoblastic lineage in hydatidiform mole. It can be used as an in vitro research model for complete hydatidiform mole and has broad application prospects in drug target research and genetic studies.

The present disclosure provides methods and compositions for culturing, engineering, and administering engineered B lineage cell populations that produce proteins of interest, including multi-specific binding agents, e.g., bispecific dual scFvs.

The application discloses application of a genetic lineage tracing mouse model in regulation of myocardial cell transformation into osteoblasts, and belongs to the technical field of biotechnology.The tracing mouse model is induced to have myocardial calcification through high-dose steroids or myocardial infarction operation, the tracing mouse model expresses a label protein in myocardial cells of mammals, and the label protein expression in the myocardial cells is realized through a Cre / loxP system.The genetic lineage tracing mouse model provided by the application can be used for detecting myocardial cell transformation into osteoblasts, and can also be used for developing or screening drugs capable of preventing myocardial calcification or preparing products for developing or screening the drugs capable of preventing myocardial calcification.

The invention discloses a marker combination for thyroid nodule risk assessment and application thereof. Based on large-sample multi-omics sequencing data, papillary thyroid carcinoma (PTC) and benign nodules are found to have a common epithelial spectrum origin, epithelial intermediate state cells (EICs) with malignant potential are found in the benign nodules, and typical molecular markers of the EICs are further identified to comprise ZCCHC12, CDLN1 and NPC2. The three genes participate in proliferation and differentiation of cells, the expression in PTC is remarkably up-regulated, and the malignant risk of the benign thyroid nodules can be evaluated by detecting the expression level of the markers in a biological sample. According to the method, a means for recognizing the high-risk benign nodules before malignant transformation occurs is provided for the first time, risk perspectiveness is achieved, and higher specificity and sensitivity are possibly achieved for recognizing the benign nodules with malignant potential.

The invention relates to a culture medium and a method for obtaining extraembryonic endoderm stem cells (XEN) from porcine blastocysts and embryonic stem cells (ESCs), and belongs to the technical field of biology. The invention develops a two-step induction method for directly converting pig ESCs into pig XEN without gene modification and two culture mediums 4FY and 2FYSC. The invention provides a high-quality model for exploring separation characteristics and intercellular communication of embryos and extraembryonic pedigree in early embryonic development of large animals, provides a good cell model for researching dynamic development of extraembryonic pedigree, and provides a high-quality material for regenerative medicine and agricultural breeding.

The invention belongs to the technical field of biology, and relates to identification of a cycas formosana complex. The invention particularly relates to an SSR molecular marker combination of a Taiwan cycas complex, a primer group and application. Five pairs of SSR molecular marker primers are obtained through transcriptome sequencing, SSR site excavation, SSR primer design, SSR-PCR reaction system establishment, SSR-PCR amplification and effectiveness detection by taking cycas revoluta as a material. The primer provided by the invention is rich in polymorphism, high in stability and clear in amplification band, and can be used for species identification, genetic lineage analysis, genetic diversity analysis, germplasm resource protection and auxiliary breeding of the cycas formosana complex.

The identification of differentiation stages, differentiation trajectories, and expression profiles of hematopoietic progenitor cells and fate-determining factors, and the application thereof are provided. The enrichment and identification of rare hematopoietic progenitor cells, as well as the identification of and their fate-determining genes, are also provided. A method for reconstructing hematopoietic hierarchy is provided, which includes fate-determining factors, differentiation trajectories, and patterns within lineage commitment processes.

The invention provides a method for preventing or treating diseases related to CSNK2B gene deletion. The disclosure also provides a CSNK2B protein or a variant thereof, a nucleic acid molecule encoding a CSNK2B protein or a variant thereof, an expression cassette comprising a nucleic acid molecule encoding a CSNK2B protein or a variant thereof, a vector comprising a nucleic acid molecule encoding a CSNK2B protein or a variant thereof, a virus, such as an AAV particle, expressing a CSNK2B protein or a variant thereof, and a method for preparing the CSNK2B protein or a variant thereof. According to the present invention, the use of the cells expressing the CSNK2B protein in the preparation of drugs for treating or preventing CSNK2B gene deletion-related diseases in subjects is provided, and the CSNK2B gene deletion-related diseases are selected from the group consisting of Rett syndrome, autism spectrum disorder (ASD), Porier-Bienvenu neurodevelopment syndrome (POBINDS), epilepsy or broad-spectrum development retardation, or the use of the cells expressing the CSNK2B protein in the preparation of the drugs for treating or preventing the CSNK2B gene deletion-related diseases in the subjects,

The invention belongs to the technical field of molecular markers, and particularly relates to a group of SNP (Single Nucleotide Polymorphism) molecular markers for genetic analysis of hypoxia genes of Himalayan marmots and application of the SNP molecular markers. The SNP molecular marker comprises one or more than two of 11 SNP loci which are all located in an amplified fragment of a Himalayan marmot EPO gene with a nucleotide sequence as shown in SEQ ID NO.1, molecular technical support is provided for Himalayan marmot population genetics research, and the SNP molecular marker can be used for research on Himalayan marmot hypoxia adaptation, population evolution and the like. Moreover, the invention also provides a primer pair capable of identifying the SNP molecular marker, the primer pair can perform specific amplification on Himalayan marmot EPO hypoxia gene sequences of different geographical populations, has high polymorphism, can be applied to the research fields of Himalayan marmot environmental adaptation, genetic diversity, pedigree geography and the like, and has wide application prospects.

The invention discloses a method for analyzing serum differential expression protein characteristics of an AQP4-IgG positive NMOSD patient, and relates to the technical field of differential expression protein characteristic analysis, and the method comprises the following steps: S1, collecting a serum sample of a to-be-detected subject; s2, carrying out protein detection on the serum sample to obtain expression level data of at least one or more of PRDX2, CLU, ECM1, CFD, GPI and S100A8, wherein the expression level data is one or more of PRDX2, CLU, ECM1, CFD, GPI and S100A8; s3, carrying out comparative analysis on the expression level of the serum protein and a pre-established AQP4-IgG positive NMOSD serum protein expression characteristic reference standard; according to the method for auxiliary diagnosis of the AQP4-IgG positive neuromyelitis optica pedigree disease provided by the invention, a judgment mode capable of reflecting molecular characteristics of the AQP4-IgG positive neuromyelitis optica pedigree disease is constructed by carrying out conjoint analysis on various serum protein expression characteristics related to immunoregulation, inflammatory response, complement activation and metabolism; therefore, the problem of insufficient detection stability of a single biomarker is avoided.

The field of the invention encompasses synthetic chromosome compositions and methods that allow single cell spatiotemporal analysis in response to differentiation cues and labeling of transplanted cells to monitor the fate and function of such cells in the patient recipient.

Disclosed herein are methods and systems comprising obtaining a nucleic acid from a sample obtained from a subject; capturing and amplifying a target molecule in the nucleic acid using a molecular inversion probe under hybridization conditions; linking an adaptor to produce a cyclic molecule; sequencing the annular molecule to obtain a sequence read segment; generating a sequencing file, wherein the sequencing file comprises the sequence read of each molecule and the position of each sequence read in the reference genome of the virus; and generating a report file for the subject, the report file comprising the predicted lineage of the virus in the sample.

The invention relates to the field of bioinformatics, and provides a single cell pedigree tracing method. According to the technical scheme, single cell transcriptome sequencing is combined with Bulk DNA targeted sequencing, so that the cost of pure single cell transcriptome sequencing is reduced, and the accuracy of single cell labeling is ensured through a subsequent filtering method of reserving a unique bar code.

Provided herein are methods, compositions, systems, kits and uses for integrated, simultaneous spatial multiomic analyses of tissues and samples including chromatin accessibility epigenomic analysis, RNA expression transcriptomic analysis, cell cluster and cell lineage analysis, transcription factor motif analysis, extrachromosomal DNA analysis and mitochondrial DNA analysis.