505 results about "Candidate Gene Association Study" patented technology

The invention relates to the technical field of biological information, and provides a thermodynamic parameter-based dsRNA / siRNA target sequence design method, which comprises the following steps of: standardizing coding sequences of candidate genes; presetting a reading frame, and segmenting the coding sequence of the candidate gene through translation of the reading frame to obtain a plurality of candidate dsRNA / siRNA target sequences; the candidate dsRNA / siRNA target sequences are read and analyzed, and base pairs of all the candidate dsRNA / siRNA target sequences are obtained; presetting thermodynamic parameters of all the base pairs, calculating the sum of the thermodynamic parameters of all the base pairs, and obtaining final thermodynamic parameters of the candidate target sequence in combination with the correction parameters; and calculating the score of each candidate dsRNA / siRNA target sequence according to the thermodynamic parameters, and determining the candidate dsRNA / siRNA target sequence with the highest score as the optimal dsRNA / siRNA target sequence.

Disclosed are a genome-wide low-density SNP chip for milk goats and a use thereof. The provided SNP chip is applicable to genetic improvement of economic traits of European milk goat varieties and Chinese native milk goat varieties, can also be applied to a plurality of fields of milk goat genome-wide association study, genome-wide selection breeding, population genetics analysis, trait-related candidate genes, QTL analysis and locating, and the like, and has high value in production application and scientific research.

The invention discloses a method for improving citrus yellow vein disease resistance by using a ClPsaN gene. The method comprises the following steps: (1) cloning a VIGS fragment of the citrus ClPsaN gene; (2) constructing two VIGS expression vectors of TRV and CLBV; and (3) transforming the citrus by the VIGS expression vector to obtain a citrus ClPsaN gene silenced VIGS plant. According to the invention, the VIGS vector of the Citrus ClPsaN gene is constructed, and then the Citrus is transformed, so that the obtained Citrus plant can show obvious resistance to the Citrus yellow vein clearing virus, the titer of the Citrus yellow vein clearing virus can be reduced by 22-34%, the accumulation amount of the virus protein is reduced by 35-50%, and the attack degree of the Citrus yellow vein clearing virus is obviously reduced; the TRV silencing of the citrus ClPsaN gene does not influence the phenotype of a citrus plant, and the citrus ClPsaN gene can be used as a candidate gene for citrus yellow vein disease resistance breeding together with a plurality of citrus yellow vein disease-resistant and susceptible genes by utilizing the cooperation of VIGS silencing, RNA interference, gene editing and other technologies.

The invention discloses a gene PbrbHLH195 for regulating and controlling synthesis of pear fruit lignin. The CDS (Coding Sequence) of the gene is shown as SEQ ID NO. 1. An overexpression vector constructed by the gene is injected into a Dangshan pear fruit, and compared with an uninjected part and an injected no-load control GFP (Green Fluorescent Protein), the contents of stone cells and lignin are obviously increased; an overexpression vector constructed by the gene is introduced into arabidopsis thaliana, secondary cell walls of conduit cells and intervascular bundle fiber cells of the obtained PbrbHLH195 transgenic arabidopsis thaliana are remarkably thickened, accumulation of lignin in stems is increased, and the expression quantity of lignin biosynthesis related genes is remarkably increased. The discovery of the gene provides a new gene resource for fruit quality breeding, and the gene is an important candidate gene for improving fruit quality breeding in future genetic engineering.

A molecular marker related to body weight traits of Hu sheep and an application are provided. The whole genome sequencing of Hu sheep is carried out in the invention, the combination of QTL and GWAS is adopted, the candidate genes related to the weight traits are analyzed and the three molecular markers of MAP3K1, ABCB1, and MEF2C are selected as candidate genes for the weight traits of Hu sheep, and the two molecular markers of ANKRD55 and TRNAW-CCA-87 can be used as potential candidate genes for the weight traits of Hu sheep, these candidate genes can be used as molecular markers for application, the guidance of Hu sheep breeding will help to understand the genetic mechanism of weight traits of Hu sheep and further guide Hu sheep breeding.

The invention belongs to the technical field of pepper planting, and discloses a pepper multi-branch gene CaBr1 linked KASP molecular marker as well as a primer, a kit and application thereof, the KASP molecular marker takes pepper S8 (zhangshuang) as a reference genome, and the single nucleotide polymorphism at the 103175415th basic group on the No.8 chromosome is subjected to basic group G-to-A replacement. A chromosome region closely linked with multiple branches of the pepper is obtained by using a BSA (Bovine Serum Albumin) population positioning method, a molecular marker is developed in a candidate region to determine a candidate gene CaBr1, a KASP molecular marker is screened according to base mutation of the candidate gene, and the marker is used for carrying out genotype identification on 90 randomly sampled single plants of an F2 population, and the coincidence rate reaches 100%. The result not only contributes to pepper branch phenotype identification and assistant breeding, but also lays a foundation for map-based cloning of the branch gene and analysis of a molecular mechanism of pepper plant type regulation.

The invention provides an EGFR wild-type lung adenocarcinoma prognosis risk assessment method based on multi-omics and machine learning, and the method comprises the steps: obtaining multi-omics and clinical data of lung adenocarcinoma, obtaining a data set, and carrying out the multi-omics consensus clustering, and obtaining a molecular typing result; high-risk subtype specific candidate genes are identified, a candidate prognosis gene set is obtained, multi-algorithm machine learning comparison optimization is carried out, and a modeling strategy is obtained; performing feature screening and model training to obtain a multi-omics feature model so as to calculate an individual risk score of the to-be-tested sample; the individual risk score and the clinical staging information are utilized to obtain a clinical column diagram and a survival prediction result, then the flow of the multi-omics feature model, the individual risk score and the survival result is Web to obtain a clinical system, and a lung adenocarcinoma prognosis risk assessment result is output. The invention can realize an objective, accurate, generalizable and multifunctional prognosis evaluation and treatment guidance tool, and has important clinical application value and wide industrialization prospect.

The invention discloses an application of an ABC transporter family gene OsABCA3 in regulation and control of plant breeding. Belongs to the field of plant genetic engineering. According to the application of the ABC transport protein family gene OsABCA3 in plant breeding regulation and control, the amino acid sequence of the protein encoded by the ABC transport protein family gene OsABCA3 is shown as SEQ ID No: 2. According to the invention, the ABC transporter gene OsABCA3 is knocked out in rice, so that the Cd absorption in a knockout plant under Cd stress is obviously reduced compared with that of a wild type plant, the Cd content of grains in the knockout plant planted in Cd-polluted soil is obviously reduced compared with that of the wild type plant, but the content of essential elements in the grains and the yield of rice are not negatively influenced; therefore, a new candidate gene resource is provided for creating safe rice with low Cd grains, and a potential repair method is also provided for rice Cd pollution treatment.

Provided are a dairy goat whole-genome 55K SNP chip and a use thereof. The chip has a total of 54344 SNP sites. The provided dairy goat whole-genome 55K SNP chip can be used for the identification and kinship analysis of imported dairy goat breeds and domestically bred dairy goat breeds, and can also be used in multiple fields such as dairy goat whole-genome association analysis, whole-genome selective breeding, population genetics analysis, and trait-related candidate gene and QTL site analysis and positioning, and has high value in both production applications and scientific research.

The invention belongs to the technical field of plant genetic engineering molecular breeding, and particularly relates to application of wheat TabHLH93 protein or a coding gene thereof in regulation and control of plant grain development. According to the invention, a binary expression vector capable of realizing ectopic expression of the TabHLH93 gene is constructed and is genetically transformed into common wheat to obtain a progeny with high expression of the TabHLH93 gene, so that overexpression of the TabHLH93 gene is realized, and it is verified that the TabHLH93 has a function of regulating and controlling the size of wheat grains and also has an important regulation and control effect on agronomic characters such as wheat plant height, tiller number, spike length and thousand seed weight. A candidate gene with an important application prospect is provided for wheat high-yield genetic improvement, and the gene has important significance for guaranteeing grain safety.

The invention belongs to the technical field of genetic engineering, and discloses a bacillus thuringiensis-sourced brown planthopper-resistant insecticidal protein and a coding gene and application thereof, the bacillus thuringiensis-sourced brown planthopper-resistant insecticidal protein is an insecticidal protein orf1715, the amino acid sequence is shown as SEQ ID NO: 1, and the nucleotide coding sequence of the gene is shown as SEQ ID NO: 2. The gene is well expressed in an escherichia coli system in a soluble form, and the purified protein has a remarkable specific insecticidal effect on rice pest brown planthopper, so that the gene can be applied to special prevention and control of brown planthopper, and a candidate gene resource is provided for cultivation of a new transgenic insect-resistant rice variety.

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.

The invention relates to the technical field of molecular markers, in particular to an Indel molecular marker related to yellow leaves of a melon seedling growing point and application of the Indel molecular marker. The invention explores a key candidate gene MELO3C016136 for controlling the leaf color of the growth point of the muskmelon seedling, and develops an Indel molecular marker ygp2 for identifying the leaf color change of the growth point of the muskmelon seedling based on the key candidate gene MELO3C016136. The molecular marker ygp2 can be used for identifying the leaf color change character of the growth point of the muskmelon seedling, only one-time PCR amplification and polyacrylamide gel electrophoresis need to be carried out on the DNA of the plant to be detected, the identification result is reliable, the genotype of the target plant can be simply and conveniently identified, and the genotype identification result is completely consistent with the leaf color phenotype of the growth point of the seedling; important technical support is provided for creating new muskmelon germplasm with yellow seedling growing point leaves.

The invention relates to the technical field of cotton alkali-resistant gene mining, and particularly discloses a method for jointly screening key genes responding to upland cotton alkali stress based on transcriptome and metabolome, which comprises the following steps: carrying out alkali stress treatment on upland cotton to obtain tissue samples at different time points; performing transcriptome sequencing and metabolome sequencing on the tissue sample to respectively obtain gene expression data and metabolite data; performing difference analysis on the gene expression data and the metabolite data to obtain DEGs and DAMs; carrying out conjoint analysis on the DEGs and the DAMs, and screening to obtain a key gene and a regulatory pathway which respond to alkali stress; analyzing the key gene and the regulatory pathway through a gene expression verification technology to obtain an expression mode; according to the invention, 15 candidate genes related to the alkali resistance of the upland cotton are screened through WGCNA, a theoretical basis is provided for deeply knowing the molecular mechanism of the alkali resistance of the upland cotton, and a new gene resource is provided for subsequent research.

The invention belongs to the technical field of plant genetic engineering, and discloses application of an OsSRO1c gene in controlling high-temperature resistance of rice. The OsSRO1c gene capable of improving the drought tolerance of rice is obtained through separation, cloning and functional verification, the nucleotide sequence of the OsSRO1c gene is as shown in SEQ ID NO.1, and the sequence of protein coded by the gene is as shown in SEQ ID NO.2. The gene OsSRO1c for controlling rice high-temperature response is cloned, CRISPR mutant phenotype identification is carried out on candidate genes, high-temperature stress phenotype identification in a seedling stage and an adult-plant stage shows that when a gene segment is deleted, the high-temperature resistance of rice is reduced, and when the expression quantity of the gene is increased, the high-temperature resistance of rice is improved, and the function and the application way of the gene are proved.

A model construction method, a biological age prediction method and apparatus, and a storage medium, the model construction method comprising: generating a first data set, the first data set comprising gene expression level and methylation level data corresponding to a plurality of genes, selecting a plurality of candidate genes from the first data set, the gene expression level corresponding to each candidate gene is in significant negative correlation with the methylation level; a training data set and a verification data set are generated, the training data set comprises methylation level data of the multiple first genes, and the verification data set comprises methylation level data of the multiple second genes; taking an intersection of the candidate gene, the first gene and the second gene to obtain an intersection gene; and constructing a model by using methylation level data corresponding to a plurality of intersection genes in the training data set and the verification data set as input features. According to the method, the gene with biological significance is selected as the input feature of the model, so that a genetic and biological basis is added for the model, and the robustness of the model is enhanced.

The invention discloses an SNP (Single Nucleotide Polymorphism) marker-based rice disease resistance character whole genome association analysis method, which relates to the technical field of biology, and is characterized by comprising the following steps: selecting a representative genetic recombination population, carrying out high-density SNP genetic typing on the population, and combining recombination event positioning and linkage analysis to obtain the disease resistance character whole genome association analysis of rice. Obtaining genetic parameters reflecting recombination frequencies of different genome segments; on the basis of the obtained original genetic data, parent and offspring genotype information is further integrated, fine positioning and statistics are carried out on recombination breaking points, and a high-resolution genetic map is constructed. By constructing a high-resolution genetic map and combining feature engineering and machine learning, accurate identification and dynamic SNP encryption of a high-recombination region are realized, the marker coverage and associated signal capture capability of the region is enhanced, the functional site leak detection risk is reduced, and the detection efficiency is improved. The positioning accuracy and the molecular breeding application effect of the rice disease resistance character related candidate gene are improved.

The invention provides an AbAIL5 gene and application of the AbAIL5 gene in improvement of genetic transformation efficiency of amorphophallus bulbifer, and belongs to the technical field of biology. The invention provides an AbAIL5 gene. The nucleotide sequence of the AbAIL5 gene is shown as SEQ ID NO: 1. Genetic transformation is performed on the amorphophallus bulbifer somatic embryo by constructing an overexpression vector of the AbAIL5 gene, so that the genetic transformation efficiency of the amorphophallus bulbifer callus can be improved, and candidate genes are provided for application of a large-scale breeding technology and a genetic transformation technology of the amorphophallus bulbifer callus in good varieties.

The invention relates to the technical field of plant biology, in particular to a sugarcane gene ScPYL61 as well as application, an overexpression vector and a method thereof. The nucleotide sequence of the sugarcane gene ScPYL61 is as shown in SEQ ID No.1 (Sequence Identifier Number 1). According to the invention, 63 PYL gene family members are totally identified from a sugarcane No.1 variety in a sugarcane drought-resistant cultivated species, and the only one gene ScPYL61 which is high in expression and is induced by PEG and ABA is identified, and the gene activates an ABA signal, promotes stomata closing and root system elongation under drought stress by depending on an ABA-ScPYL61-ScPP2C49-ScSnRK2s molecular module, and enhances the drought resistance of plants. The identification of sugarcane PYL gene family members and the functional analysis of ScPYL61 in the invention lay a theoretical foundation for drought-resistant genetic breeding of sugarcane and provide an effective candidate gene.

The invention belongs to the technical field of biology, and relates to a barley germination period salt-tolerant gene HvHCT1, a protein and an application of the protein in salt damage stress resistance, and the protein comprises an amino acid sequence shown as SEQ ID NO: 2. According to the method, genetic loci related to the salt tolerance of the barley in the germination period are mined through a whole genome association analysis method, then transcriptome sequencing is used for revealing barley salt tolerance differential gene expression changes after salt damage stress, and in combination with association analysis and transcriptome sequencing data, salt tolerance candidate genes in the germination period of the barley are determined. The transgenic arabidopsis thaliana is used for verification; the research provides an excellent germplasm material and a new salt-tolerant gene for barley salt-tolerant breeding research, and also provides a theoretical basis for barley salt-tolerant molecular marker-assisted breeding in the future.

The present disclosure relates to a multi-phase method for determining a set of candidate genes. During a first phase, the method includes prompting a naïve language model with a plurality of prompts corresponding to a plurality of candidate genes to generate a set of initial scores indicative of each corresponding candidate gene's potential as a biomarker or therapeutic target. During a second phase, the method includes determining, for each candidate gene, a set of relevant documents from a curated document library. The method also includes prompting a further language model using the relevant documents to generate secondary scores. During a third phase, the method includes determining, for each candidate gene, at least one of: a decision classification, a recalibrated score, and a detailed scientific explanation. The method includes determining a final candidate set and conducting a multi-dimensional optimization analysis on each candidate gene of the final candidate set.

The invention discloses dsRNA / fused dsRNA for RNAi targeting multiple aphids and application of the dsRNA / fused dsRNA, and the dsRNA targets an aphid Actin gene and / or an ELAV-like protein gene and is obtained by transcription by taking the aphid Actin gene and / or the ELAV-like protein gene as a template. Compared with the traditional design thought that dsRNA of pests mostly aims at one pest and is targeted to a single gene at present, the strategy is changed, starting from the thought that one dsRNA can prevent and treat various aphids, highly conservative genes of various aphids are found, the dsRNA is designed for the highly conservative genes, and it is found that in a plurality of candidate genes, various aphids can be effectively prevented and treated. The dsRNA aiming at the actin Actin gene and the ELAV-like protein gene has a remarkable fatality rate on various aphids and has a very good application prospect, the effect of simultaneously targeting the fused dsRNA of the two genes is further improved, and the dsRNA has a remarkable insecticidal effect on various aphids.

The invention provides an MsLEA3 gene and application thereof, and belongs to the technical field of plant genetic engineering. According to the invention, the alfalfa MsLEA3 gene is subjected to overexpression or gene editing is carried out on the MsLEA3 gene in alfalfa through a CRISPR / Cas9 system, so that an overexpression transgenic line of the alfalfa MsLEA3 gene or a gene editing transgenic line aiming at the alfalfa MsLEA3 gene is obtained. The salt tolerance of an overexpressed or gene-edited medicago sativa transgenic line of the MsLEA3 gene is remarkably improved, the MsLEA3 gene can be used for cultivating medicago sativa varieties with high salt resistance, a new theoretical basis and candidate genes are provided for cultivating new varieties of high-resistance leguminous forage, and the application of medicago sativa in production is greatly promoted.

The invention discloses a construction method of a non-small cell lung cancer classification prediction model. The construction method comprises the following steps: S1, acquiring data of a training set sample and clinical feature data corresponding to the sample; s2, acquiring immune related gene data; s3, extracting prognosis genes related to non-small cell lung cancer metastasis traits and expression conditions of the prognosis genes from the data of the training set samples in the step S1, and intersecting the prognosis genes and the expression conditions of the prognosis genes with the immune related gene data in the step S2 to obtain intersection genes as candidate genes; s4, screening the candidate genes in the step S3 to obtain immune characteristic genes and expression conditions thereof; and S5, constructing a model based on the immune characteristic gene in the step S4 to obtain a classification prediction model. The method comprises the following steps: screening out key immune characteristic genes and expression conditions thereof by combining immune-related gene data, and constructing a classification prediction model according to the key immune characteristic genes; and inputting gene expression data of a to-be-detected sample into the classification prediction model to classify the to-be-detected sample to be high-risk or low-risk.

The invention discloses an Euphorbiaceae GWAS site gene data analysis platform, and relates to the technical field of gene data analysis, the platform is based on Euphorbiaceae GWAS conservative analysis, GWAS data is utilized to obtain genetic information of other Euphorbiaceae species, data are shared among the Euphorbiaceae species through data migration, more data are integrated, and the genetic information of other species is obtained. The Euphorbiaceae species omics data analysis and other Euphorbiaceae database data analysis are presented through a data analysis platform; and the database platform comprises a Plants module, an Express module, a Syntenic module, an Interaction module, a Tools module and a Search module. The database platform comprises a Plants module, an Express module, a Syntenic module, an Interaction module, a Tools module and a Search module. According to the invention, multi-angle conservative analysis is carried out by using GWAS loci of different species in a family, the conservative relationship and level among different species are judged, and candidate genes are searched based on a region with a relatively conservative character; new species omics data, new data types and tools of the Euphorbiaceae data platform are added, and convenience is better provided for researchers.

The invention discloses a medicago sativa MsKTI3 gene and application of the medicago sativa MsKTI3 gene in improving the salt tolerance of plants, a candidate gene MsKTI3 related to the salt tolerance of medicago sativa is screened out through transcriptome sequencing analysis, the MsKTI3 is cloned, the medicago sativa and arabidopsis thaliana are over-expressed, and the functions of the gene are identified. According to the invention, a foundation is laid for deeply researching functions and a salt-tolerant regulation mechanism of MsKTI3, and a candidate gene resource is also provided for improving salt-tolerant molecules of alfalfa.

The invention discloses a rape grain weight regulation gene NGAL3 based on whole genome screening and a breeding application thereof, based on the seed size and grain weight phenotypic value of a cabbage type rape germplasm resource, a candidate gene interval is positioned by using GWAS; the method comprises the following steps: selecting large-grain-weight and small-grain-weight extreme phenotypic materials, performing transcriptome sequencing in a critical period of seed development, and screening differential expression genes; and performing cross comparison on the GWAS candidate gene and the differential expression gene to obtain a key gene for jointly regulating and controlling the size and the grain weight of the seed, and performing functional verification on the key gene. The thousand seed weights of the created homozygous three mutant strains L1-sg1-1-4-5 and L2-sg1-4-8-16 are obviously increased by 46% and 29% compared with those of the wild type strains. The invention provides a new target for high-yield rape breeding, and non-transgenic high-grain-weight germplasm can be created through gene editing or beneficial allelic variation of NGAL3 is selected and enriched under the assistance of molecular markers.

The invention belongs to the technical field of agricultural biology, and provides a soybean drought stress tolerance gene and application thereof, and the nucleotide sequence of the gene comprises a CDS sequence as shown in SEQ ID NO: 1; the nucleotide sequence has at least 90% of homology with the sequence shown in SEQ ID NO: 1 and is used for coding a protein with a drought stress response function; one or more nucleotides are substituted, deleted or inserted in the sequence as shown in SEQ ID NO: 1, and a nucleotide sequence of a protein with a drought stress response function is coded; according to the application disclosed by the invention, the direct association between the soybean gene Gm12g076200 and the drought stress tolerance is clarified, and the deletion of the soybean gene Gm12g076200 causes a soybean drought sensitive phenotype, so that the research blank of the gene on the stress response function is filled; the deletion of the gene can significantly reduce the tolerance of the soybean to drought stress, and the expression quantity is significantly increased under the drought stress, so that a key candidate gene is provided for research of a soybean drought-resistant molecular mechanism.

The invention belongs to the field of biology, and particularly relates to a rhododendron molle heat shock protein RmHSP20-4 gene and application thereof. The RmHSP20-4 participates in response of rhododendron molle to high-temperature stress, and can be used for screening high-temperature tolerance germplasm of rhododendron molle and evaluating high-temperature tolerance of sheep. The gene is transferred into a prokaryotic expression strain, the growth of the transgenic strain under the stress of CdCl2 and high temperature is obviously improved, and the RmHSP20-4 gene and a protein coded by the RmHSP20-4 gene provide candidate genes for the cultivation of Rhododendron molle heavy metal resistance, high temperature stress resistance and other related varieties. A new candidate gene resource is provided for cultivating transgenic plants or microorganisms with excellent shapes such as heavy metal resistance and high temperature stress resistance, and an important reference is also provided for mining heat-resistant genes of azaleaceae plants.

The invention discloses a gene PtoXTH30 capable of improving drought resistance and salt resistance of poplar and application of the gene PtoXTH30, the nucleotide sequence of the gene is shown as SEQ ID NO.2, the gene can accurately regulate and control the drought resistance and salt resistance of the poplar, and a key candidate gene is provided for stress-resistant molecular breeding of the poplar. The invention further discloses application of the PtoXTH30 gene for improving drought resistance and salt resistance of the poplar, and the drought resistance and salt resistance of the poplar can be remarkably enhanced. The invention further discloses a method for regulating and controlling drought resistance and salt resistance of the poplar, the drought resistance and salt resistance of the poplar can be accurately regulated and controlled according to needs, the breeding period is effectively shortened, and breeding of new drought-resistant and salt-resistant transgenic varieties is facilitated.