Optitype hla分型结果
WebDec 1, 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. … Web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 …
Optitype hla分型结果
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WebMar 7, 2024 · OptiType(2014年) —— 基于整数线性规划的HLA基因分型算法 [PMID: 25143287] xHLA (2024年) [PMID:28674023] (听说对硬件要求较高; HLA-HD (2024年) … WebMay 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 …
WebNov 12, 2024 · HLA typing benchmarking using data from the 1000 Genomes Project confirmed the high performance of OptiType and HLA-HD, especially on RNA-seq data (Supplementary Figs S2–S4). DNA-seq calls showed a lower accuracy, a systematic underestimation of zygosity and a higher number of missing calls likely due to the low … 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.
WebMay 20, 2024 · For both WES data and RNA-seq data, OptiType showed the highest accuracy for HLA-Ia typing than the other 3 programs at 2-digit and 4-digit resolution. Additionally, … WebAug 20, 2014 · Result: We present OptiType, a novel HLA genotyping algorithm based on integer linear programming, capable of producing accurate predictions from NGS data not …
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 …
WebMay 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 ... simplicity\u0027s gwWebJul 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 … simplicity\u0027s h1WebMay 10, 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 … raymond hall tacoma washingtonWebOct 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 ... raymond hamlin esqWebAug 20, 2014 · OptiType (v1.3.3) [37] was performed on germline pairedend whole-genome sequencing fastq files after fishing for HLA reads at 95% identity, taking only the top match with razers3 (v3.5.8) [38 ... simplicity\\u0027s h0WebDec 1, 2014 · We present OptiType, a novel HLA genotyping algorithm based on integer linear programming, capable of producing accurate predictions from NGS data not … raymond hanbury phdWebMar 1, 2024 · HLA genotypes were predicted from the RNA-seq fastq file using the Optitype, and MHC-I binding predictions for the filtered peptides were predicted with netMHCpan4.1. As a result, an average of 3518 and 932 candidate neoantigens were obtained in the two cohorts, respectively ( Tables S4 and S5 in the Supplementary Materials ). simplicity\u0027s h0