Optitype hla分型结果
Web最近又被抓去做HLA分型,由于各种原因之前通过singularity安装在超算上的optitype用不了了,只好用conda安装optitype再解决之前说的conda安装后的报错问题了。 我首先是在超算上进行了optitype的conda安装,装好之… WebApr 25, 2024 · HLA分型. LOHHLA需要的输入文件中除bam外,还需要HLA Class I的分型结果以及肿瘤倍性与纯度信息。 其中HLA分型可使用Optitype、Polysolver、HLA-HD …
Optitype hla分型结果
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WebOct 1, 2024 · For the individual loci, HLA-A, -B and -C, Optitype’s typing accuracy was the highest and HLA*LA had the highest typing accuracy for HLA-DRB1 and -DQB1. The tools’ robustness to lower DOC data ... WebOct 1, 2024 · The availability of HLA genotyping was the highest in the OptiType tool for all HLA-A, C, and B types, and the values were 99.1% for HLA-A, 99.4% for HLA-B, and 100% for HLA-C. In HLA-A and HLA-C, Kourami showed the lowest availability, and the values were 72.6% and 72.5% in each.
WebOptiType. OptiType is an HLA genotyping algorithm based on linear integer programming. It provides accurate 4-digit HLA genotyping predictions from NGS data. For further reading and documentation see the OptiType documentation. The pipeline results contain a CSV file with the predicted HLA genotype. Each line contains one solution with the ... WebDec 1, 2014 · We present OptiType, a novel HLA genotyping algorithm based on integer linear programming, capable of producing accurate predictions from NGS data not …
WebAug 20, 2014 · To summarize, OptiType is a fast and accurate HLA typing method based on NGS data, which provides an alternative approach to common HLA genotyping methods. It can be easily adapted to predict genotypes for loci other than HLA-I such as HLA-II and transporter associated with antigen processing. WebBackground The human leucocyte antigen (HLA) complex controls adaptive immunity by presenting defined fractions of the intracellular and extracellular protein content to immune cells. Understanding the benign HLA ligand repertoire is a prerequisite to define safe T-cell-based immunotherapies against cancer. Due to the poor availability of benign tissues, if …
WebJul 19, 2024 · HLAminer软件可以同时对HlA I型基因和II 型基因进行分型,但是分型结果中不可避免的会存在假阳性的结果。. 为了提高分型结果的准确性,不同的研究团队都在开发 …
WebJan 8, 2015 · HLA(human leukocyte antigen ,人类白细胞抗原)是人类的主要组织相容性复合体(MHC)的表达产物。. 通常也称为人类主要组织相容性复合物 (MHC),在染色体 … birchwood school bishops stortfordWebJul 14, 2024 · OptiType, Phlat and Polysolver were used to execute HLA typing from WES data, while OptiType, Phlat and seq2hla were utilized for RNA-seq data. As shown in … birchwood school bishops stortford term datesWebMay 31, 2024 · Precision HLA typing from next-generation sequencing data - Issues · FRED-2/OptiType. Precision HLA typing from next-generation sequencing data - Issues · FRED-2/OptiType. Skip to content Toggle navigation. Sign up Product Actions. Automate any workflow Packages. Host and manage packages Security. Find and fix vulnerabilities ... dallas to las vegas flights and hotelWeb一个常见应用:组织配型是器官或骨髓移植前最重要的检查之一,hla基因分型决定了移植器官与受者的基因相符程度,供者和受者hla相容性越高,排斥反应发生率越低,移植成功 … birchwood school districtWebJun 10, 2024 · OptiType is a novel HLA genotyping algorithm based on integer linear programming, capable of producing accurate 4-digit HLA genotyping predictions from NGS data by simultaneously selecting all major and minor HLA Class I alleles. Environment Modules. Run module spider optitype to find out what environment modules are available … birchwood school district calendarWebJun 25, 2024 · Results: We tested two widespread HLA typing methods using high quality full genome sequencing data from 150 individuals in 50 family trios from the Genome Denmark project. First, we computed descendant accuracies assessing the agreement in the inheritance of alleles from parents to offspring. Second, we compared the locus-specific … dallas to las vegas flights southwestWebMay 20, 2024 · The accuracy of HLA-Ia typing by OptiType can reach 100% with the average depth of HLA gene regions >20x. Besides, the accuracy of 2-digit and 4-digit HLA-Ia typing based on control samples was higher than tumor tissues. In conclusion, OptiType by using WES data from control samples with the high average depth (>20x) of HLA gene regions … dallas to lax flight time today